Бактерии-деструкторы ароматических углеводородов и их хлорпроизводных: разнообразие, особенности метаболизма, функциональная геномика
Диссертация
Функциональные особенности бактерий-деструкторов в комплексе с данными по структурной и функциональной геномике находятся в фокусе внимания современной микробной экологии, а также активно развивающейся системной биологии. Концепции системной биологии и синергия экологических подходов и технологий геномики, метагеномики, протеомики и метаболомики являются, с точки зрения современной науки… Читать ещё >
Содержание
- ОБЗОР ЛИТЕРАТУРЫ
- ГЛАВА 1. Бактериальная деструкция полициклических ароматических углеводородов (ПАУ)
- 1. 1. Бактерии-деструкторы ПАУ
- 1. 2. Метаболические пути деструкции нафталина и фенантрена у бактерий
- 1. 3. Генетические системы биодеградации ПАУ
- 1. 4. Микробная деструкция ПАУ в условиях повышенной солености среды
- 1. 4. 1. Галотолерантные/галофильные бактерии-деструкторы ПАУ
- 1. 4. 2. Механизмы галоадаптации у бактерий
- 1. 4. 3. Ассоциации бактерий, осуществляющие разложение ПАУ в условиях повышенной солености среды
- 2. 1. Бактерии-деструкторы бифенила/ПХБ
- 2. 2. Метаболические пути деструкции бифенила/ПХБ у бактерий
- 2. 3. Бифенил 2,3-диоксигеназа — ключевой фермент разложения бифенила и хлорированных бифенилов
- 2. 4. Генетические системы биодеградации бифенила/ПХБ
- 3. 1. Бактерии-деструкторы хлорбензойных кислот (ХБК)
- 3. 2. Метаболические пути и генетические системы деструкции ХБК у бактерий
- 3. 3. Пути метаболизма пирокатехина и (метил)замещенных пирокатехина
- 3. 4. Генетическое конструирование штаммов-деструкторов ХБК и ПХБ
- 4. 1. Объекты исследования
- 4. 2. Среды и условия культивирования
- 4. 3. Накопительные культуры
- 4. 4. Ростовые характеристики и определение субстратной специфичности бактерий
- 4. 5. Эксперименты по моделированию смешанных культур
- 4. 6. Определение таксономического положения бактерий
- 4. 6. 1. Морфологические и физиолого-биохимические признаки
- 4. 6. 2. Методы анализа хемотаксономических признаков
- 4. 6. 3. Молекулярно-генетические методы
- 4. 7. Денатурирующий градиентный гель электрофорез
- 4. 8. Плазмиды и определение стабильности признаков биодеградации
- 4. 9. Определение активностей ферментов биодеградации ПАУ
- 4. 10. Очистка и характеристика ферментов штамма R. ruber Р
- 4. 11. Изучение генов деструкции нафталина, бифенила, ХБК
- 4. 11. 1. Изучение функциональных генов методом ПЦР
- 4. 11. 2. Клонирование и изучение генов деструкции 2ХБК и 4ХБК
- 4. 12. Аналитические методы
- 4. 12. 1. Изучение бактериальной деструкции ПАУ, ПХБ и ХБК
- 4. 12. 2. Выделение и анализ осмопротекторных соединений
- 4. 13. Модельные почвенные системы
- 4. 14. Статистическая обработка
- 5. 1. Бактерии рода Arthrobacter
- 5. 2. Бактерии родаRhodococcus
- 5. 3. Спорообразующие бактерии родов Bacillus и Paenibacillus
- 5. 4. Бактерии рода Pseudomonas
- 5. 5. Бактерии порядка Actinomycetales, выделенные из почв/грунтов района солеразработок
- 5. 6. Галотолерантные свойства бактерий-деструкторов ПАУ
- 5. 7. Бактериальные гены, контролирующие начальные этапы деструкции нафталина
- 6. 1. Характеристика бактерий-деструкторов
- 6. 2. Особенности разложения ароматических соединений штаммами Rhodococcus ruber Р25 и Microbacterium sp. В
- 6. 2. 1. R. ruber P25 — деструктор opmo-, иора-хлорированных бифенилов
- 6. 2. 2. Деструкция 4-метилбензойной кислоты (МБК) R. ruber Р25, ключевые ферменты катаболизма МБК
- 6. 2. 3. Экстрахромосомальные ДНК штамма R. ruber Р
- 6. 2. 4. Деструкция ПХБ штаммом Microbacterium sp. В
- 6. 3. Разнообразие генов, кодирующих а-субъединицы ферментов подсемейства бифенил/толуол диоксигеназ, исследуемых бактерий
- 7. 1. Характеристика бактерий-деструкторов ХБК, изолированных из техногенных почв
- 7. 2. Генетические системы деградации хлорбензойных кислот
- 7. 2. 1. Гены раннего дегалогенирования 4ХБК бактерий рода Arthrobacter
- 7. 2. 2. /сб-Гены бактерий-деструкторов из техногеннозагрязненных почв
- 7. 3. ohb-TQны, контролирующие окислительное дегалогенирование орто-замещенных хлорбензоатов, штамма Pseudomonas aeruginosa
- 7. 4. Конструирование метаболических путей деструкции хлорароматических соединений с использованием fcb- и ohb-генов
- 7. 4. 1. Клонирование и экспрессия усб-генов в составе рекомбинантной плазмиды в клетках P. putida, конструирование гибридного пути деградации 4-хлорбензоата
- 7. 4. 2. Конструирование рекомбинантного штамма, содержащего fcb-гены в хромосоме P. putida
- 7. 4. 3. Штаммы-деструкторы ПХБ, сконструированные при использовании fcb- и Ohb-YQUOB
- 8. 1. Нафталинметаболизирующие ассоциации бактерий, выделенные из техногеннозасоленной почвы
- 8. 1. 1. Характеристика нафталинметаболизирующих ассоциаций
- 8. 1. 2. Изучение взаимовыгодных отношений между бактериями в нафталинметаболизирующих ассоциациях
- 8. 1. 3. Использование бактериального консорциума SMB3 для очистки загрязненных почв
- 8. 2. Двухкомпонентная бактериальная ассоциация, утилизирующая
- 2. 4. '-дихлорбифенил
- 9. 1. Новый род и вид Salinicola socius sp. nov., gen. nov
- 9. 2. Новый вид — «Thalassospirapermensis» sp. nov
- 9. 3. Новый вид — «Rhodococcus naphthalenivorans» sp. nov
- 9. 4. Новые виды рода Brevibacterium (В. permense sp. nov., B. antiquum sp. nov. и В. aurantiacum sp. nov.), характеризующиеся оранжевой окраской колоний
Список литературы
- Алтынцева О.В. Галотолерантные бактерии-деструкторы полициклических ароматических углеводородов: Диссертация на соискания ученой степени к.б.н. / О. В. Алтынцева Пермь, 2001. — 139 с.
- Бабошин М.А. Микробная трансформация фенантрена и антрацена / Бабошин М. А., Баскунов Б. П., Филькенштейн З. И. и др. II Микробиология. -2005. Т. 74. — № 3. — С. 357−364.
- Бабыкин М.М. Плазмиды различных штаммов Pseudomonas spheroids / М. М. Бабыкин, В. В. Зинченко, М. В. Бибиков и др. И Молекулярная генетика микроорганизмов и вирусов. 1984. — № 7. — С. 23−28.
- Балашова Н.В. Штамм Pseudomonas putida В S3 701 — деструктор фенантрена и нафталина /Н.В. Балашова, И. А. Кошелева, А. Е. Филонов и др. II Микробиология. 1997. — Т. 66. — С. 488−493.
- Белицкая Е.А., Серебренникова О. В. Углеводородный состав нефтей района Колтогорского прогиба // Электронный журнал «Нефтегазовое дело». — 2008. http://www.ogbus.ru
- Бердичевская М.В. Особенности физиологии родококков разрабатываемых нефтяных залежей / М. В. Бердичевская // Микробиология.- 1989. Т. 58, Вып. 1. — С. 60−65.
- Воронин A.M. Генетические системы биодеградации: организация и регуляция экспрессии / A.M. Воронин, Т. В. Цой // Микробиология. 1989. -Т. 25, № 4. -С. 581−594.
- Васильева Г. К. Биоремедиация почв и седиментов, загрязненных полихлорированными бифенилами / Г. К. Васильева, Е. П. Стрижакова // Микробиология. 2007. — Т. 76, № 6. — С. 725−741.
- Веслополова Е. Ф. Микрометод определения численности колониеобразующих микроорганизмов / Е. Ф. Веслополова // Микробиология.- 1995.-Т. 62.-С. 279−284.
- Гаузе, Г. Ф. Определитель актиномицетов. /Г.Ф. Гаузе, Т. П. Преображенская, М. А. Свешникова и др. // Под ред. Мишустина Е. Н. М.: -Наука. 1983.-245 с.
- Доронина Н.В. Органические осмопротекторы аэробных умеренно галофильных метилобактерий / Н. В. Доронина, В. Г. Сахаровский, C.B. Драчук // Микробиология. 1998. — Т. 67, № 4. — С. 458−463.
- Еремченко О.З. Почвенно-экологические условия зоны солеотвалов и адаптация к ним растений / О. З. Еремченко, O.A. Лымарь // Экология. 2007. -№ 1.-С. 18−23.
- Зайцев Г. М. Утилизация 4-хлорбензойной кислоты штаммом Arthrobacter globiformis / Г. М. Зайцев, Ю. Н. Карасевич // Микробиология. -1981а.-Т. 50.-С. 35−40.
- Зайцев Г. М. Подготовительный метаболизм 4-хлорбензойной кислоты у Arthrobacter globiformis / Г. М. Зайцев, Ю. Н. Карасевич // Микробиология. -19 816.-Т. 50.-С. 423−428.
- Зайцев Г. М. Подготовительный метаболизм 4-хлорбензойной и 2,4-дихлорбензойной кислот у Corynebacterium sepedonicum / Г. М. Зайцев, Ю. Н. Карасевич // Микробиология. 1985. — Т. 54. — С. 356−361
- Звягинцева И.С. Влияние солености среды на деструкцию нефтяных масел нокардиоподобными бактериями / И. С. Звягинцева, М. Н. Поглазова,
- М.Т. Готоева и др. II Микробиология. 2001. — Т. 70, № 6. — С. 759−764.
- Измалкова Т.Ю. Разнообразие генетических систем биодеградации нафталина у штаммов Pseudomonas fluorescens / Т. Ю. Измалкова, О. И. Сазонова, С. Л. Соколов и др. // Микробиология. 2005. — Т. 74. -С. 70−78.
- Ившина И.Б. Бактерии рода Rhodococcus (иммунодиагностика, детекция, биоразнообразие): Диссертация в виде научного доклада на соискание ученой степени д.б.н./ И. Б. Ившина — Пермь, 1997. — 98 с.
- Карасевич Ю. Н. Основы селекции микроорганизмов, утилизирующих синтетические органические соединения. М.: Наука. 1982. — 144 с.
- Карасевич Ю. Н. Утилизация 4-хлорбензойной и 2,4-дихлорбензойной кислот смешанной культурой микроорганизмов / Ю. Н. Карасевич, Г. М. Зайцев // Микробиология. 1984. — Т. 53. — С. 374−380.
- Кашнер Д. Жизнь микробов в экстремальных условиях / Д. Кашнер -М.: Мир, 1981.-365с.
- Комарова Т.И. Роль низкомолекулярных азотистых соединений в осмотолерантности бактерий родов Rhodococcus и Arthrobacter / Т. И. Комарова, Т. В. Коронелли, Е. А. Тимохина // Микробиология. 2002. -Т. 71, № 2.-С. 166−170.
- Кошелева И.А. Деградация фенантрена мутантными штаммами-деструкторами нафталина / И. А Кошелева, Н. В. Балашова, Т. Ю. Измалкова и др. И Микробиология. 2000. — Т. 69, № 4. — С. 783−789.
- Кузнецов В.Д. Streptomyces albiaxalis sp. nov.- новый деградирующий углеводороды нефти вид термо- и галотолерантных Streptomyces / В. Д. Кузнецов, Т. А. Зайцева, JI.B. Вакуленко и др. II Микробиология. 1992. -Т. 61.-С. 62−67.
- Куличевская И.С. Окисление углеводородов нефти экстремально галофильными архебактериями / И. С. Куличевская, Е. И. Милехина, И. А. Борзенков и др. II Микробиология. 1991. — Т. 60, — С 860−866.
- Ленева H.A. Деградация фенантрена и антрацена микроорганизмами рода Rhodococcus / H.A. Ленева, М. П. Коломицева, В. Р. Баскунов, Л. А. Головлева // Прикладная биохимия и микробиология. — 2009. Вып. 45. — № 2. — С. 188−194.
- Маниатис Т. Молекулярное клонирование / Т. Маниатис, Э. Фрич, Дж. Сэмбрук. -М.: Мир, 1984. С. 480.
- Матвеева Н.И. Осморегуляция в клетках углеводородокисляющих бактерий из нефтяных месторождений Татарии / Н. И. Матвеева, Ю. А. Николаев, Н. А. Воронина и др. // Микробиология. 1993. — Т. 62, № 5. -С. 835−842.
- Методы общей бактериологии: Пер. с англ.- под ред. Ф. Герхардт и др. М.: Мир. 1983. — Том 1, 2, 3.
- Милехина Е.И. Углеводородокисляющая микрофлора заводняемых нефтяных месторождений Татарии с различной минерализацией пластовых вод / Е. И. Милехина, И. А. Борзенков, Ю. М. Миллер и др. II Микробиология. -1991.-Т. 60.-С. 747−755.
- Милехина Е.И. Эколого-физиологические особенности аэробных эубактерий нефтяных месторождений Татарстана / Е. И. Милехина, И. А. Борзенков, И. С. Звягинцева и др. II Микробиология. 1998. — Т. 67. — С. 208−214.
- Моисеева О.В. Разложение 2-хлорфенола и 3-хлорбензоата культурой Rhodococcus opacus lcp / O.B. Моисеева, E.B. Линько, Б. П. Баскунов и др. II Микробиология. 1999. — Т. 68. — С. 400−405.
- Моисеева О.В. Ферменты нового модифицированного орто-пути из Rhodococcus opacus 1СР, утилизирующего 2-хлорфенол / О. В. Моисеева, О. В. Белова, И. П. Соляникова и др. II Биохимия. — 2001. Т. 66, № 5. -С. 678−687.
- Назина Т.Н. Филогенетическое разнообразие аэробных сапротрофных бактерий из нефтяного месторождения Дацина / Т. Н. Назина, A.A.
- Григорьян, С. Ян-Фен и др. // Микробиология. 2002. — Т. 71, № 1. — С. 103 110.
- Нестеренко O.A. Нокардиоподобные и коринеподобные бактерии / O.A. Нестеренко, Е. И. Квасников, Т. М. Ногина. — Киев: Наук. Думка, 1985. -С. 336.
- Нетрусов А.И. Практикум по микробиологии / А. И. Нетрусов, М. А. Егорова, JI.M. Захарчук и др. М.: Академия, 2005. — С. 608.
- Определитель бактерий Берджи.: Пер. с англ. / Под. ред. Дж. Хоулта, Н. Крига, П. Снита, Дж. Стейли, С. Уильямса. М.: Мир. 1997. -Том 1, 2.
- Перт С.Дж. Основы культивирования микроорганизмов и клеток / С.Дж. Перт. М.: Мир. — 1978. — С. 14−33.
- Плакунов В.К. Взаимосвязь кинетики роста и дыхания у родококков в присутствии высоких концентраций солей / В. К. Плакунов, В. Г. Арзуманян, H.A. Воронина и др. И Микробиология. 1999. — Т. 68, № 1. — С. 40−44.
- Плакунов В.К. Устойчивость нефтеокисляющего микроорганизма, Dietzia sp. к гиперосмотическому шоку в реконструированных биопленках//
- B.К. Плакунов, М. В. Журина, С. С Беляев // Микробиология. 2008. — Т. 77.1. C. 581−589.
- Резников A.A. Методы анализа природных вод / A.A. Резников, Е. П. Муликовская, И. Ю. Соколов. М.: Мир. — 1970. — 211 с.
- Розанова Е.П. Углеводородокисляющие бактерии и их активность в нефтяных пластах / Е. П. Розанова, Т. Н. Назина // Микробиология. 1982. -Т. 51.-С. 324−348.
- Романов В.П. Окислительное дегалогенирование 2-хлор- и 2,4-дихлорбензоатов штаммов Pseudomonas aeruginosa / В. П. Романов, Г. М. Гречкина, В. М. Аданин и др. II Микробиология. 1993. — Т.62. — С. 887 895.
- Смирнов В.В. Бактерии рода Pseudomonas / B.B. Смирнов, Е. А. Киприанова. Киев: Наук, думка, 1990. — С. 234.
- Соляникова И.П. Организация биодеградативных путей у родококков: Диссертация на соискание ученой степени д.б.н. / И. П. Соляникова. — Пущино, 2007.-С. 245.
- Хмеленина В.Н. Синтез осмопротекторов галофильными и алкалофильными метанотрофами / В. Н. Хмеленина, В. Г. Сахаровский, А. С. Решетников и др. // Микробиология. 2000. — Т. 69, № 4. — С. 465−470.
- Abed R.M. Bacterial diversity of a cyanobacterial mat degrading petroleum compounds at elevated salinities and temperatures / R.M.M. Abed, A. Al-Thukair, D. de Beer // FEMS Microbiol. Ecol. 2006. — V. 57. — P. 290−301.
- Abraham W.-R. Diversity of biphenyl degraders in a chlorobenzene polluted aquifer / W.-R. Abraham, D.F. Wenderoth, W. GlaBer // Chemosphere- 2005. -V. 58.-P. 529−533.
- Abramowicz D.A. Aerobic and anaerobic biodegradation of PCBs: a review / D.A. Abramowicz // Crit. Rev. Biotechnol. 1990. — V. 10. — P. 241−251.
- Adebusoye A.S. Growth on dichlorobiphenyls with chlorine substitution on each ring by bacteria isolated from contaminated African soils / A.S. Adebusoe, F.W. Picardal, M.O. Ilory et al. //Appl. Microbiol. Biotechnol. 2007. — V. 74. -P. 484−492.
- Aislabie J. Aromatic hydrocarbon-degrading bacteria from soil near Scott base, Antarctica / J. Aislabie, J. Foght, D. Saul // Polar. Biol. 2000. — V. 23. -P. 183−188.
- Alquati C. Diversity of naphthalene degrading bacteria from a petroleum contaminated soil / C. Alquati, M. Papacchini, C. Riccardi et al. //Ann. Microbiol. 2005. — V. 55, № 4. — P. 237−242.
- Alva V.A. Phenol and catechol biodegradation by the haloalkaliphile Halomonas campisalis: influence of pH and salinity / V.A. Alva, B.M. Peyton // Environ. Sei. Technol. 2003. -V. 37. — P. 4397 -4402.
- Alvarez H.M. Physiological and morphological responses of the soil bacterium Rhodococcus opacus strain PD630 to water stress/ H.M. Alvarez, R.A. Silva, A.C. Cesari et al. II FEMS Microbiol. Ecol. 2004. — V. 50. — P. 7586.
- Andreoni V. Detection of genes for alkane and naphthalene catabolism in Rhodococcus sp. strain 1BN / V. Andreoni- S. Bernasconi- M. Colombo et al. II Environmental Microbiology. 2000. — V. 2. — P. 572−577.
- Arahal D.R. Proposal of Cobetia marina gen. nov., comb, nov., within the family Halomonadaceae, to include the species Halomonas marina / D.R. Arahal, A.M. Castillo, W. Ludwig et al. II Syst. Appl. Microbiol. 2002. — V. 25. -P. 207−211.
- Arahal D.R. The Family Halomonadaceae / D.R. Arahal, A. Ventosa // The Prokaryotes: Chapter 3.3.28 / Eds. Dworkin M. et al. 3rd edn., New York: Springer-Verlag., 2006. — P. 811−835.
- Arahal R.D. Phylogeny of the family Halomonadaceae based on 23 S and 16S rDNA sequence analyses / R.D. Arahal, W. Ludwig, K.H. Schleifer // Int. J.
- Syst. Evol. Microbiol. 2002. — V. 52. — P. 241−249.
- Arai H. Two sets of biphenyl and PCB degradation genes on a linear plasmid in Rhodococcus erythropolis TA421 / H. Arai, S. Kosono, K. Taguchi et al. II J. Ferment. Bioeng. 1998. — V. 86. — P.595−599.
- Arensdorf J.J. Formation of chlorocatechol meta-cleavage products by a pseudomonad during metabolism of monochlorobiphenyls / J.J. Arensdorf, D.D. Focht // Appl. Environ. Microbiol. 1994. — V. 60. — P. 2884−2889.
- Arensdorf J.J. A meta cleavage pathway for 4-chlorobenzoate, an intermediate in the metabolism of 4-chlorobiphenyl by Pseudomonas cepacia PI 66 / J.J. Arensdorf, D. D. Focht // Appl. Environ. Microbiol. 1995. — V. 61. — P. 443 447.
- Armengaud J. Genetic analysis of dioxin dioxygenase of Sphingomonas sp. strain RW1: catabolic genes dispersed on the genome / J. Armengaud, B. Happe, K.N. Timmis // J. Bacteriol. 1998. — V. 180. — P. 3954−3966.
- Arulazhagan P. Role of a moderately halophilic bacterial consortium in the biodegradation of polyaromatic hydrocarbons / P. Arulazhagan, N. Vasudevan // Marine Pollut. Bullet. 2009. — V. 58. — P. 256−262.
- Ash C. Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small subunit ribosomal RNA sequences / C. Ash, J.A.E. Farrow, S. Wallbanks h M.D. Collins II Lett. Appl. Microbiol. 1991. -V. 13. — P. 202−206.
- Ash C. Molecular identification of rRNA group 3 Bacilli (Ash, Farrow, Wallbanks, and Collins) using a PCR probe test / C. Ash, F.G. Priest, M.D. Collins // Antonie van Leeuwenhoek. 1993. — V. 64. — P. 253−260.
- Ashok B.T. Isolation and characterization of four polycyclic aromatic hydrocarbon degrading bacteria from soil near an oil refinery / B.T. Ashok, S. Saxena, J. Musarrat // Lett. Appl. Microbiol. 1995. — V. 21. — P. 246−248.
- Asturias J.A. Three different 2,3-dihydroxybiphenyl-l, 2-dioxygenases in the gram-positive polychlorobiphenyl-degrading Rhodococcus globerulus P6 / J.A. Asturias, K.N. Timmis II J. Bacteriol. 1993. — V. 175. — P. 4631−4640.
- Asturias J.A. The evolutionary relationship of biphenyl dioxygenase from gram-positive Rhodococcus globerulus P6 to multicomponent dioxygenases from gram-negative bacteria / J.A. Asturias, E. Diaz, K.N. Timmis // Gene. 1995. -V.156. — P. 11−18.
- Agency for Toxic Substances and Disease Registry (ATSDR), http://www. atsdr. cdc.gov
- Baboshin M.A. Conversion of polycyclic aromatic hydrocarbons by Sphingomonas sp. VKM B-2434 / M.A. Baboshin, V. N Akimov., B.P. Baskunov et al. Il Biodegradation. 2008. — V. 19. — P. 567−576.
- Bagdasarian M. Specific purpose plasmid cloning vectors. II. Broad host range, high copy number RSFlOlO-derived vectors, and a host-vector system for cloning in Pseudomonas / M. Bagdasarian, R. Lurz, B. Ruckert et al. II Gene. -1981.-V. 16.-P. 237−247
- Baggi G. Inhibition by meta-substituted dichlorobenzoates in Alcaligenes denitrificans which grows on 4-chlorobenzoate / G. Baggi, M. Zangrossi // Ann. Microbiol. Enzymol. 1995. — V. 45. — P. 185−189.
- Baggi G. Degradation of chlorobenzoates in soil suspensions by indigenous populations and a specialized organism: interactions between growth and non-growth substrates / G. Baggi, M. Zangrossi // FEMS Microbiology Ecology. — 1999.-V. 29.-P. 311−318.
- Baldwin B.R. Broad substrate specificity of naphthalene and biphenyl-utilizing bacteria / B.R. Baldwin, M.B. Mesarch, L. Nies. // Appl. Microbiol. Biotechnol. 2000. — V.53. — P. 748.
- Bamforth S.M. Bioremediation of polycyclic aromatic hydrocarbons: current knowledge and future directions / S.M. Bamforth, I. Singleton // Chem. Technol. Biotechnol. 2005. — V. 80. — P. 723−736.
- Barnsley E.A. Bacterial oxidation of naphthalene and phenanthrene /
- E.A. Barnsley //J. Bacteriol. 1983. — V. 153. — P. 1069−1071.
- Barnsley E.A. The induction of the enzymes of naphthalene metabolism in Pseudomonas by salicylate and 2-aminobenzoate / E.A. Barnsley // J. Gen. Microbiol. 1975. — V. 88. — P. 193−196.
- Barriault D. Catalytic activity of Pseudomonas putida strain G7 naphthalene 1,2-dioxygenase on biphenyl / D. Barriault, M. Sylvestre // Int. Biodeterior. Biodegrad. 1999. — V. 44. — P. 33−37.
- Barriault D. Functionality of biphenyl 2,3-dioxygenase components in naphthalene 1,2-dioxygenase / D. Barriault, M. Sylvestre // Appl. Microbiol. Biotechnol. 1999. — V.51. — P. 592−597.
- Bartholomew G. W. Influence of spatial and temporal variations on organic pollutant biodegradation rates in an estuarine environment / G.W. Bartholomew,
- F.K. Pfaender // Appl. Environ. Microbiol. 1983. — V. 45. — P. 103−109.
- Basta T. Structural and replicative diversity of large plasmids from sphingomonads that degrade polycyclic aromatic compounds and xenobiotics / T. Basta, S. Buerger, A. Stolz // Microbiology. 2005. — V.151. — P. 2025−2037.
- Bastos A.E.R. Salt-tolerant phenol-degrading microorganisms isolated from Amazonian soil samples / A.E.R. Bastos, D.H. Moon, A. Rossi et al. II Arch. Microbiol. 2000. — V. 174. — P.346−352.
- Becker B. Rapid differentiation of between Nocardia and Streptomyces by paper chromatography of whole cell hydrolysates / B. Becker, M.P. Lechevalier, R.E. Gordon et al. II Appl. Microbiol. Biotech. 1964. — V. 12. — P. 421−423.
- Bedard D.L. Evidence for novel mechanisms of polychlorinated biphenyl metabolism in Alcaligenes eutrophus H850 / D.L. Bedard, M.L. Haberl, R.J. May et al. II Appl. Environ. Microbiol. 1987. — V. 53. — P. 1103−1112.
- Bedard D.L. Influence of chlorine substitution pattern on the degradation of polychlorinated biphenyls by eight bacterial strains / D.L. Bedard, M.L. Haberl // Microbial Ecology. 1990. — V. 20. — P. 87−102.
- Benning M.M. The three-dimensional structure of 4-hydroxybensoyl-CoA thioesterase from Pseudomonas sp. strain CBS-3 / M.M. Benning, G. Wesenberg, R.Q. Liu et al. II J. Biol. Chem. 1998. — V. 273. — P. 3 357 233 579.
- Berardesco G. Spatial and temporal variation of phenanthrene-degrading bacteria in intertidal sediments / G. Berardesco, S. Dyhrman, E. Gallagher et al. H Appl. Environ. Microbiol. 1998. — V. 64, № 7. — P. 2560−2565.
- Bhadra B. Brevibacterium oceani sp. nov., isolated from deep-sea sediment of the Chagos Trench, Indian Ocean / B. Bhadra, C. Raghukumar, P.R. Pindi, S. Shivaji / Int. J. Syst. Evol. Microbiol. 2008. — V. 58. — P. 57−60.
- Boldrin B. Degradation of phenanthrene, fluorene, fluoronaphthene, and pyrene by a Mycobacterium sp. / B. Boldrin, A. Tiehm, C. Fritzsche // Appl. Environ. Microbiol. 1993. — V. 59. — P. 1927−1930.
- Boronin A.M. Diversity of Pseudomonas plasmids: to what extent / A.M. Boronin // FEMS Microbiol. Lett. 1992. — V. 15. — P. 461−467.
- Bosch R. Complete nucleotide sequence and evolutionary significance of a chromosomally encoded naphthalene degradation lower pathway from Pseudomonas stutzeri AN10 / R. Bosch, E. Garcia-Valdes, E.R.B. Moore // Gene.2000. — V. 245.-P. 65−74.
- Bosch R. Genetic characterization and evolutionary implications of a chromosomally encoded naphthalene degradation upper pathway from Pseudomonas stutzeri AN10 / R. Bosch, E. Garcia-Valdes, E.R.B. Moore // Gene.- 1999. V. 236.-P. 149−157.
- Bosch R. NahW, a novel, inducible salicylate hydroxylase involved in mineralization of naphthalene by Pseudomonas stutzeri AN 10 / R. Bosch, E.R.B. Moore, E. Garcia-Valdes, D.H. Pieper // J. Bacteriol. 1999. — V.181. -P.2315−2322.
- Bouches M. The microbial fate of polycyclic aromatic hydrocarbons: carbon and oxygen balances for bacterial degradation of model compounds / M. Bouches, D. Blanchet, J.-P. Vandecasteele // Appl. Microbiol. Biotechnol. 1996. — V. 45. -P. 556−560.
- Brenner V. Genetic construction of PCB degraders / V. Brenner, J.J. Arensdorf, D.D. Focht II Biodegradation. 1994. — V. 5 — P. 359−377.
- Briganti F. Purification and catalytic properties of two catechol 1,2-dioxygenase isozymes from benzoate-grown cells of Acinetobacter radioresistens / F. Briganti, E. Pessione, C. Giunta et al II J. Protein Chem. — 2000. -V. 19.-P. 709−716.
- Briganti F. XAS characterization of the active sites of novel intradiol ring-cleaving dioxygenases: hydroxyquinol and chlorocatechol dioxygenases / F. Briganti, S. Mangani, L. Pedocchi et al II FEBS Letters. 1998. — V. 433. -P. 58−62.
- Bubinas A. Degradation of naphthalene by thermophilic bacteria via a pathway, through protocatechuic acid / A. Bubinas, G. Giedraityte, L. Kalediene, et al II Cent. Eur. J. Biol. 2008. — V. 3. — P.61−68.
- Buchan A. Key aromatic-ring cleaving enzyme, protocatecuate-3,4-dioxygenase, in the ecologically important marine Roseobacter lineage /
- A. Buchan, L.S. Collier, E.L. Neidle, M.N. Moran // Appl. Environ. Microbiol. -2000. V. 66. — P. 4662−4672.
- Calderon M.I. Complex regulation of the synthesis of the compatible solute1. T*ectoine in the halophilic bacterium Chromohalobacter salexigens DSM 3043 / M.I. Calderon, C. Vargas, F. Rojo et al II Microbiology. 2004. — V. 150. -P. 3051−3063.
- Camara B. A gene cluster involved in degradation of substituted salicylates via ortho cleavage in Pseudomonas sp. strain MT1 encodes enzymes specifically adapted for transformation of 4-methylcatechol and 3-methylmuconate /
- B. Camara, P. Bielecki, F. Kaminski et al II J. Bacteriol. 2007. — V. 189. -P. 1664−1674.
- Cao B. Biodegradation of aromatic compounds: current status and opportunities for biomolecular approaches / B. Cao, K. Nagarajan, K.-C. Loh // Appl. Microbiol. Biotechnol. 2009. — V. 85. — P. 207−228.
- Cerniglia C.E. Biodegradation of polycyclic aromatic hydrocarbons / C.E. Cerniglia//Biodegradation. 1992. — V. 3. — P. 351−368.
- Cha C.-J. Catechol 1,2-dioxygenase from Rhodococcus rhodochrous N75 capable of metabolizing alkyl-substituted catechols / C.-J. Cha // J. Microbiol. Biotechnol. 2006. — V. 16. — P. 778−875.
- Chae J.C. Genetic structure and functional implication of the fcb gene cluster for hydrolytic dechlorination of 4-chlorobenzoate from Pseudomonas sp. DJ-12 / J.C. Chae, Y. Kim, Y.C. Kim et al. II Gene. 2000. — V. 258. — P. 109 116.
- Chae J.C. Identification of genes coding for hydrolytic dehalogenation in the metagenome derived from a denitrifying 4-chlorobenzoate degrading consortium / J.C. Chae, B. Song, G.J. Zylstra // FEMS Mocrobiol. Lett. 2008. — V. 281. -P. 203−209.
- Chain P. S.G. Inaugural Article: Burkholderia xenovorans LB400 harbors a multi-replicon, 9.73-Mbp genome shaped for versatility / P. S.G. Chain — V.J. Denef- K.T. Konstantinidis et al. II Proceed. Nat. Acad. Science. 2006. — V. 103. -P. 15 280−15 287.
- Chaudhry G.R. Biodegradation of halogenated organic compounds / G.R. Chaudhry, S. Chapalamadugu // Microbiol. Rev. 1991. — V. 55. — P. 59−79.
- Chen Y. Molecular evidence of genetic modification of Sinorhizobium meliloti: enhanced PCB bioremediation / Y. Chen, A. Adam, O. Toure, S.K. Dutta // J. Ind. Microbiol. Biotechnol. 2005. -V. 32. — P. 561−566.
- Chen Y.-G. Arthrobacter halodurans sp. nov., a new halotolerant bacterium isolated from sea water / Y.-G. Chen, S.-K. Tang, Y.-Q. Zhang, Z.-Y. Li, L.-B. Yi, Y.-X. Wang, W.-J. Li, X.-L. Cui // Antonie van Leeuwenhoek. 2009. — V. 96. -P. 63−70.
- Christensen B. B. Metabolic commensalism and competition in a two-species microbial consortium / B.B. Christensen, J.A. Haagensen, A. Heydorn et al. II Appl. Environ. Microbiol. 2002.- V. 68. — P. 2495−2502.
- Colquhoun J. A. Novel rhodococci and other mycolate actinomycetes from the deep sea / J.A. Colquhoun., J. Mexson, M. Goodfellow et al. II Antonie van Leeuwenhoek. 1998. — V. 74. — P. 27−40.
- Collins M.D. The Genus Brevibacterium / In M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer, E. N.Y. Stackebrandt (editors), The Prokaryotes, A Handbook on the Biology of Bacteria, Vol. 3, Springer-Verlag, New York. -2006.-P. 1013−1019.
- Copley S.D. Enzymic dehalogenation of 4-chlorobenzoil coenzyme A in Acinetobacter sp. strain 4-CB1 / S.D. Copley, G.P. Crooks // Appl. Environ. Microbiol. 1992. — V. 58 — P. 1385−1387.
- Coschigano P.W. Metabolism of both 4-chlorobenzoate and toluene under denitrifying conditions by a constructed bacterial strain / P.W. Coschigano, M.M. Haggblom, L.Y. Young // Appl. Environ. Microbiol. 1994. — V. 60. -P. 989−995.
- Dagher F. Comparative study of five polycyclic aromatic hydrocarbon degrading bacterial strains isolated from contaminated soils / F. Dagher, E. Deziel, P. Lirette et al. // Can. J. Microbiol. 1997. — V. 43,. — P. 368−377.
- Dennis J.J. Complete sequence and genetic organization of pDTGl, the 83 kilobase naphthalene degradation plasmid from Pseudomonas putida strain NCIB 9816−4 / J.J. Dennis, G.J. Zylstra // J. Mol. Biol. -2004. -V. 341. P.753−768.
- Denome S.A. Metabolism of dibenzothiophene and naphthalene in Pseudomonas strains: complete DNA sequence of an upper naphthalene catabolic pathway / S.A. Denome, D. C Stanley, E.S. Olson et al. II J. Bacteriol. 1993. -V. 175.-P. 6890−6901.
- Deveryshetty J. Biodegradation of phenanthrene by Pseudomonas sp. strain PPD: purification and characterization of l-hydroxy-2-naphthoic acid dioxygenase / J. Deveryshetty, P. S. Phale // Microbiology. 2009. — V.155. — P.3083−3091.
- Di Gioia D. Structures of homologous composite transposons carrying cbaABC genes from Europe and North America / D. DiGioia, M. Peel, F. Fava, R.C. Wyndham // Appl. Environ. Microbiol. 1998. -V. 64. — P. 1940−1946.
- Dixon M. The determination of enzyme inhibitor constants / M. Dixon // J. Biochem. 1953. —V. 55. — P. 170−171.
- Dong X.S. Crystal structure of the terminal oxygenase component of cumene dioxygenase from Pseudomonas fluorescens IP01 / X.S. Dong, S. Fushinobu, E. Fukuda et al. II J. Bacteriol. 2005. — V. 187. — P. 2483−2490.
- Dore Y. Naphthalene-utilizing and mercury-resistant bacteria isolated from an acidic environment / Y. Dore, Q.E. Clancy, S.M. Rylee, C.F. Kulpa // Appl. Microbiol. Biotechnol. 2003. — V. 63. — P. 194−199.
- Dorn E. Isolation and characterization of a 3-chlorobenzoate degrading pseudomonad / E.M. Dorn, M. Hellwig, W. Reineke // Arch. Microbiol. 1974. -V. 99.-P. 61−70.
- D’Souza-Ault M.R. Roles of N-Acetylglutaminylglutamine amide and glycine betaine in adaptation of Pseudomonas aeruginosa to osmotic stress / M.R. D’Souza-Ault, L. Tombras Smith, G.M. Smith // Appl. Environ. Microbiol. -1993.-V. 59.-P. 473−478.
- Dua R.D. Purification and characterization of naphthalene oxygenase from Corynebacterium renale /R.D. Dua, S. Meera // Eur. J. Biochem. 1981. — V. 120. -P. 461−465.
- DuaM. Biotechnology and bioremediation: successes and limitations / M. Dua, A. Singh, N. Ssethunathan, A. K. Johri // Appl. Microbiol. Biothechnol. -2002. — V. 59.-P. 143−152.
- Dunn N.W. Transmissible plasmids coding early enzymes of naphthalene oxidation in Pseudomonas putida / N.W. Dunn, I.S. Gunsalus // J. Bacteriol. -1973.-V. 114.-P. 974−980.
- Dyaz M.P. Isolation and characterization of novel hydrocarbon-degrading euryhaline consortia from crude oil and mangrove sediments / M.P. Dyaz, S.J.W. Grigson, C.J. Peppiatt et al. II Mar. Biotechnol. 2000. — V. 2. — P.522−532.
- Dyksterhouse S.E. Cycloclasticus pugetii gen. nov., sp. nov., an aromatic hydrocarbon-degrading bacterium from marine sediments / S.E. Dyksterhouse, J.P. Gray, R.P. Herwig et al II Int. J. Syst. Bacteriol. 1995. — V. 45. — P. 116−123.
- Earhart C.A. Structure of catechol 1,2-dioxygenase from Pseudomonas arvilla / C.A. Earhart, M.W. Vetting, R. Gosu et al. II Biochem. Biophys. Res. Comm. 2005. — V.338. — P. 198−205.
- Efroymson R. Biodegradation by an Arthrobacter species of hydrocarbons partitioned into an organic solvent / R. Efroymson, M. Alexander // Appl. Environ. Microbiol. 1991. — V. 57. — P. 1441−1447.
- Eisner A. Resolution of 4-chlorobenzoate dehalogenase from Pseudomonas sp. strain CBS3 into three components / A. Eisner, F. Loffler, K. Miyashita et al. Il Appl. Environ. Microbiol. 1991. -V. 57. — P. 324−326.
- Emerson D. Haloferax sp. D 1227, a halophilic archaeon capable of growth on aromatic compounds / D. Emerson, S. Chauhan, P. Oriel et al. II Arch. Microbiol. 1994. — V. 161. — P. 445152.
- Emerson D. The response of microbial populations from oil-brine contaminated soil to gradients of NaCl and sodium p-toluate in diffusion gradient chamber / D. Emerson, J.A. Breznac // FEMS Microbiol. Ecol. 1997. — V.23. -P. 285−300.
- Ensign J.C. A crystalline pigment produced from 2-hydroxypyridine by Arthrobacter crystallopoietes n.sp. J.C. Ensign, S.C. Rittenberg // Arch. Microbiol. 1963.-V. 47.-P. 137−153.
- Erb R.W. Characterization of a gene cluster from Ralstonia eutropha JMP134 encoding metabolism of 4-methyl-muconolactone / R.W. Erb, K.N. Timmis, D.H. Pieper // Gene. 1998. — V. 206. — P. 53−62.
- Erickson B.D. Enhanced biodegradation of polychlorinated biphenyls after site-directed mutagenesis of a biphenyl dioxygenase gene / B.D. Erickson, F.J. Mondello // Appl. Environ. Microbiol. 1993. -V. 59. — P. 3858−3862.
- Euzeby J.P. List of bacterial names with standing in nomenclature / J.P. Euzeby, 2010. http://www.bacterio.cict.fr
- Evans W.C. Oxidative metabolism of phenanthrene and anthracene by soil pseudomonads: the ring fission mechanism / W.C. Evans, H.N. Fernley E. Griffiths // Biochem. J. 1965. — V. 95. — P. 819−831.
- Evtushenko L.I. The family Microbacteriaceae / L.I. Evtushenko, M. Takeuchi // The Prokaryotes: an Evolving Electronic Resource for the Microbiological Community / Eds. Dworkin M. et al. 3rd edn., release 3.14, 31,
- New York: Springer, 2003. (http://link.springerny.com/link/service/books/10 125).
- Faroon O. Polychlorinated biphenyls. Human health aspects / O. Faroon, L. Keith, C. Smith-Simon, C. De Rosa // Concise international chemical assessment document 55, Geneva: World Health Organization, 2003.
- FavaF. Degradation and dechlorination of low-chlorinated biphenyls by a three-membered bacterial co-culture / F. Fava, D. Di Gioia, S. Cinti, L. Marchetti, G. Quattroni // Appl. Microbiol. Biotechnol. 1994. — V. 41. — P. 117−123.
- Fava F. Influence of organic and inorganic growth supplements on the aerobic biodegradation of chlorobenzoic acids / F. Fava, P.M. Armenante, D. Kafkewitz, L. Marchetti // Appl. Microbiol. Biotechnol. 1995. — V. 43 -P. 171−177.
- Feist C.F. Phenol and benzoate metabolism by Pseudomonas putida of tangential pathways / C.F. Feist, G.D. Hegman // J. Bacteriol. 1969. — V. 100. -P. 869−877.
- Ferraroni M. Crystal structure of 4-chlorocatechol 1,2-dioxygenase from the chlorophenol-utilizing gram-positive Rhodococcus opacus 1CP / M. Ferraroni, I.P. Solyanikova, M.P. Kolomytseva et al. II J. Biol. Chem. 2004. — V. 279. -P.27 646−27 655.
- Fetzner S. Purification and some properties of 2-halobenzoate 1,2-dioxygenase, a two component enzyme system from Pseudomonas cepacia 2CBS / S. Fetzner, R. Muller, F. Lingens // J. Bacteriol. 1992. — V. 174. — P. 279 290.
- Fetzner S. Bacterial dehalogenases: biochemistry, genetics, and biotechnological applications / S. Fetzner, F. Lingens // Microbiol. Rev. 1994. — V. 58.-P. 641−685.
- Fetzner S. Bacterid dechalogenation / S. Fetzner // Appl. Microbiol. Biotechnol. 1998. — V. 50. — P. 633−657.
- Fetzner S. Catabolic linear plasmids / S. Fetzner, S. Kolkenbrock, K. Parschat // In: E. Meinhardt, R. Klassen: Microbial linear plasmids. SpringerVerlag, Berlin. 2007. — P. 64−98.
- Field J. A. Microbial transformation of chlorinated benzoates / J.A. Field, R. Sierra-Alvarez // Rev. Environ. Sei. Biotechnol. 2008. — V. 7. — P. 191−210.
- Focht D.D. Genetic exchange in soil between introduced chlorobenzoate degraders and indigenous biphenyl degraders / D.D. Focht, D.B. Searles, S.-C. Koh // Appl. Environ. Microbiol. 1996. — V. 62. — P. 3910−3913.
- Francisco P.B. The chlorobenzoate dioxygenase gene of Burkholderia sp. strain NK8 involved in the catabolism of chlorobenzoates / P.B. Francisco, N. Ogawa, K. Suzuki, K. Miyashita// Microbiology. 2001. — V. 147. -P. 121−133.
- Franzmann P.D. A chemotaxonomic study of members of the family Halomonadaceae / P. D Franzmann., B.J. Tindall // System. Appl. Microbiol. -1990.-V. 13.-P. 142−147.
- Franzmann P.D. Halomonadaceae fam. nov., a new family of the class Proteobacteria to accommodate the genera Halomonas and Deleya / P.D. Franzmann, U. Wehmeyer, E. Stackebrandt // Syst. Appl. Microbiol. 1988. -V. 11.-P. 16−19.
- Fuenmayor S.L. A gene cluster encoding conversion of naphthalene to gentisate in Pseudomonas sp. strain U2 / S.L. Fuenmayor, M. Wild, A.L. Boyes, P.A. Williams // J. Bacteriol. 1998. — V. 180. — P. 2522−2530.
- Fulthorpe R.R. High levels of endemicity of 3-chlorobenzoat-degrading soil bacteria / R.R. Fulthorpe, A.N. Rhodes, J.M. Tiedje // Appl. Environ. Microbiol. -1998. -V. 64. P. 1620−1627.
- Fulthorpe R.R. A comparison of the ability of forest and agricultural soils to mineralize chlorinated aromatic compounds / R.R. Fulthorpe, L.N. Schofield // Biodegradation. 1999. — V. 10. — P. 235−244.
- Furukawa K. Biphenyl dioxygenases: functional versatilities and directed evolution / K. Furukawa, H. Suenaga, M. Goto // J. Bacteriol. 2004. — V. 186. -P. 5189−5196.
- Furukawa K. Microbial degradation of polychlorinated biphenyls: biochemical and molecular features / K. Furukawa, H. Fujihara // J. Biosci. Bioeng. 2008. — V. 105, № 5. — P. 433−49.
- Furukawa K. Involvement of plasmids in total degradation of chlorinated biphenyls / K. Furukawa, A.M. Chakrabarty // Appl. Envir. Microbiol. 1982. -V. 44.-P. 619−629.
- Furukawa K. Metabolism of 2,4,4'-trichlorobiphenyl by Acinetobacter sp. P6 / K. Furukawa, K. Tonomura, A. Kamibayashi // Agric. Biol. Chem. 1979. -V. 43.-P. 1577−1583.
- Furukawa K. Engineering dioxygenases for efficient degradation of environmental’pollutants / K. Furukawa // Curr. Opin. Biotechnol. 2000. — V. 11. — P. 244−249.
- Furusawa Y. Crystal structure of the terminal oxygenase component of biphenyl dioxygenase derived from Rhodococcus sp. strain RHA1 / Furusawa Y., Nagarajan V., Tanokura M. et al. II J. Mol. Biol. 2004. — V. 17. — P. 1041−52.
- Gakhar L. Structure and increased thermostability of Rhodococcus sp. naphthalene 1,2-dioxygenase / L. Gakhar, Z.A. Malik, C.C.C.R. Allen et al. II J. Bacteriol. 2005. — V. 187. — P. 7222−7231.
- Galinski E.A. Isolation and structure determination of a novel compatible solute from the moderately halophilic purple sulfur bacterium Ectothiorhodospira marismortui / E.A. Galinski, A. Oren // Eur. J. Biochem. 1991. — V. 198. -P. 593−598.
- Galinski E.A. Osmoadaptation in bacteria /E.A. Galinski // Adv. Microb. Physiol. 1995. — V. 37. — P. 273−328.
- Gan S. Remediation of soils contaminated with polycyclic aromatic hydrocarbons (PAHs) / S. Gan, E.V. Lau, H.K. Ng // J. Hazard. Mater. 2009. -V. 172.-P. 532−549.
- Garcya M.T. Halomonas organivorans sp. nov., a moderate halophile able to degrade aromatic compounds / M.T. Garcya, E.'n Mellado, J.C. Ostos et al. I I Int. J. Syst. Evol. Microbiol. 2004. — V. 54. — P. 1723−1728.
- Garcya M.T. Catabolic versatility of aromatic compound-degrading halophilic bacteria / M.T. Garcya, A. Ventosa, E.'n Mellado // FEMS Microbiol. Ecology. 2005. — V. 54. — P. 97−109.
- Garriga M. Carnimonas nigrificans gen. nov., sp. nov., a bacterial causative agent for black spot formation on cured meat products / M. Garriga, M.A. Ehrmann, J. Arnau et al. II Int. J. Syst. Bacteriol. 1998. — V. 48. — P. 677 686.
- Gauthier M.J. Marinobacter hydrocarbonoclasticus gen. nov., sp., a new extremely halotolerant, hydrocarbon-degrading marine bacterium / M.J. Gauthier,
- B. Lafary, R. Christen, L. Fernandes, M. Aquaviva, P. Bonin, J.C. Bertrand // Int. J. Syst. Bacteriol. 1992. — V.42. — P. 568−576.
- Gentry T.J. Chlorobenzoate-degrading bacteria in similar pristine soils exhibit different community structures and population dynamics in response to anthropogenic 2-, 3-, and 4-chlorobenzoate levels / T.J. Gentry, G. Wang,
- C. Rensing, I.L. Pepper // Microbial Ecology. 2004. — V. 48. — P. 90−102.
- Ghosal D. Gene duplication in haloaromatic degradative plasmids pJP4 and pJP2 / D. Ghosal, In-Soon You. // Can. J. Microbiol. 1988. — V.34. — P. 709−715.
- Gibson D.T. Aromatic hydrocarbon dioxygenases in environmental biotechnology / D.T. Gibson, R.E. Parales // Curr. Opin. Biotechnol. 2000. -V. 11.-P. 236−243.
- Gibson D.T. Desaturation, dioxygenation, and monooxygenation reactions catalyzed by naphthalene dioxygenase from Pseudomonas sp. strain 9816−4 / D.T. Gibson, S.M. Resnick, K. Lee et. al. // J. Bacteriol. 1995. — V. 177. — P. 26 152 621.
- Gibson D.T., Subramanian V. Microbial degradation of aromatic hydrocarbons. Gibson (ed.), Microbial degradation of organic compounds. Marcel Dekker, Inc., New York, N.Y. — 1984. — P. 181−152.
- Gibson D.T. Oxidation of the carcinogens benzoa. pyrene and benzo[a]anthracene to dihydrodiols by a bacterium / D.T. Gibson, M. Vencatanayarana, D.M. Jerina, H. Yagy, H. Yen // Science. 1975. — V.189. -P. 295−297.
- Gibson J. 4-Hydroxybenzoate-coenzyme A ligase from Rhodopseudomonas palustris: purification, gene sequence, and role in anaerobic degradation / J. Gibson, M. Dispensa, G.C. Fogg, D.T. Evans, C.S. Harwood // J. Bacteriol. -1994.-V. 176.-P. 634−641.
- Gilbert E.S. Plant compounds that induce polychlorinated biphenyl biodegradation by Arthrobacter sp. strain BIB / E.S. Gilbert, D.E. Crowley // Appl. Environ. Microbiol. 1997. — V. 63. — P. 1933−1938.
- Collins, M.D. 2006. The Genus Brevibacterium. In Dworkin, Falkow, Rosenberg, Schleifer and Stackebrandt (Editors), The Prokaryotes, A Handbook on the Biology of Bacteria, Vol. 3, Springer-Verlag, New York, pp. 1013−1019.
- Gomez-Gil L. Characterization of biphenyl dioxygenase of Pandoraea promenusa B-356 as a potent poly chlorinated biphenyl-degrading enzyme / L. Gomez-Gil, P. Kumar, D. Barriault et al. 11 J. Bacteriol. 2007. — V. 189. -P. 5705−5715.
- Goncalves E.R. Transcriptomic assessment of isozymes in the biphenyl pathway of Rhodococcus sp. strain RHA1 / E.R. Goncalves, H. Hara, D. Miyazawa et al. I I Appl. Environ. Microbiol. 2006. — V. 72. — P. 6183−6193.
- Goodfellow M. Chemical methods in bacterial systematics / M. Goodfellow, D.E. Minnikin. Academic Press, 1985. — P. 410.
- Goodfellow M. Rhodococcus aetherivorans sp. nov., a new species of methyl i-butyl ether-degrading actinomycetes / M. Goodfellow, A.L. Jones, L.A. Maldonado et al. II Syst. Appl. Microbiol. 2004. — V. 27. — P. 61−65.
- Goodfellow M., Maldonado L.A. The Families Dietziaceae, Gordoniaceae, Nocardiaceae and Tsukamurellaceae / In The Prokaryotes, A Handbook on the Biology of Bacteria. Springer-Verlag, New York. 2006. — V. 3. — P. 843−888.
- Goyal A.K. Molecular cloning of novel genes for polycyclic aromatic degradation from Comamonas testosteroni GZ39 / A.K. Goyal, G.J. Zilstra// Appl. Environ. Microbiol. 1996. — V. 62. — P. 230−236.
- Crawford L. Purification and properties of gentisate 1,2-dioxygenase from Moraxella osloensis /L. Crawford, W. Huttons, J. Chapman / J. Bacteriol. 1975.-V. 121.-P. 794−799.
- Greene E. A. Composition of soil microbial communities enriched on a mixture of aromatic hydrocarbons / E.A. Greene, J.G. Kay, K. Jaber et al. II Appl. Environ. Microbiol. 2000. — V. 66 — P. 5282−5289.
- Grimm A.C. NahY, a catabolic plasmid-encoded receptor required for Chemotaxis of Pseudomonas putida to the aromatic hydrocarbon naphthalene / A.C. Grimm, C.S. Harwood//J. Bacteriol. 1999. — V. 181.-P. 3310−3316.
- Grund E. Catabolism of benzoate and monohydroxylated benzoates by Amycolatopsis and Streptomyces spp. / E. Grund, C. Knorr, R. Eichenlaub 11 Appl. Environ. Microbiol. 1990. -V. 56. — P. 1459−1464.
- Grund E. Naphthalene degradation via salicylate and gentisate by Rhodococcus sp. strain B4 / E. Grund, B. Denecke, R. Eichenlaub 11 Appl. Environ. Microbiol. 1992. — V. 58. — P. 1874−1877.
- Habe H. Genetics of polycyclic aromatic hydrocarbon metabolism in diverse aerobic bacteria / H. Habe, T. Omori // Biosci. Biotech. Biochem. 2003. — V. 67. -P. 225−243.
- Habe H. Degradation of chlorinated dibenzofurans and dibenzo-p-dioxins by two types of bacteria having angular dioxygenases with different features / H. Habe, J.-S. Chung, J.-H. Lee et al. II Appl. Environ. Microbiol. 2001. — V .67. -P. 3610−3617.
- Haddad S. Cloning and expression of the benzoate dioxygenase genes from Rhodococcus sp. strain 19 070 / S. Haddad, D.M. Eby, E.L. Neidle // Appl. Environ. Microbiol. 2001. — V. 67. — P. 2507−2514.
- Haddock J. D. Dihydroxylation and dechlorination of chlorinated biphenyls by purified biphenyl 2,3-dioxygenase from Pseudomonas sp. strain LB400 / J.D. Haddock, J.R. Horton, D.T. Gibson // J. Bacteriol. 1995. — V. 177. -P. 20−26.
- Haggblom M.M. Microbial breakdown of halogenated aromatic pesticides and related compounds / M.M. Haggblom // FEMS Microbiol. Rev. 1992. -V. 103.-P. 28−72.
- HaggblomM. Mechanisms of bacterial degradation and transformation of chlorinated monoaromatic compounds / M. Haggblom // J. Basic Microbiol. -1990.-V. 2. — P. 115−141.
- Hall M. Polycyclic aromatic hydrocarbons: Metabolism, activation and tumor initiation / Hall M., Grover P.L. // Cooper C.S., Grover P.L. (eds): Chemical carcinogenesis and mutagenesis. Berlin: Springer-Verlag. 1990. — V. 1. -P. 327−372.
- Harayama S. Polycyclic aromatic hydrocarbon biodegradation design / S. Harayama II Curr. Opin. Biotechnol. 1997. — V. 8. — P. 268−273.
- Harayama S. Bacterial aromatic ring- cleavage enzymes are classified into two different gene families / S. Harayama, M. Rekik // J. Biol. Chem. 1989. -V. 264.-P. 15 328−15 333.
- Hardman D.J. Biotransformation of halogenated compounds / D.J. Hardman // Crit. Rev. Biotechnol. 1991. — V. 11. — P. 1−40.
- Haritash A.K. Biodegradation aspects of polycyclic aromatic hydrocarbons (PAHs): A review / A.K. Haritash, C.P. Kaushik // J. Hazard. Mater. 2009. — V. 169.-P. 1−15.
- Harwood C.S. The /?-ketoadipate pathway and the biology of self-identity / C.S. Harwood, R.E. Parales // Annu. Rev. Microbiol. 1996. — V. 50. — P. 553 590.
- Hauschild J.E. Identification of an alternative 2,3-dihydroxybiphenyl 1,2-dioxygenase in Rhodococcus sp. strain RHA1 and cloning of the gene / J.E. Hauschild, E. Masai, K. Sugiyama et al. II Appl. Environ. Microbiol. 1996. -V. 62. — P. 2940−2946.
- Havel J. Total degradation of various chlorobiphenyls by cocultures and in vivo constructed hybrid pseudomonads / J. Havel, W. Reineke // FEMS Microbiol. Lett. 1991. — V. 78. — P. 163−170.
- Hayaishi O. Nature and mechanism of oxygenases / O. Hayaishi // Science. 1969. — V. 164. — P. 389−396.
- Hayaishi O. Studies on oxygenases. Pyrocatechase / O. Hayaishi, M. Katagiri, S. Rothberg // J. Biol. Chem. 1957. — V. 229. — P. 905−920.
- Hayatsu M. Involvement of two plasmids in the degradation of carbaryl by Arthrobacter sp. strain RC100 / M. Hayatsu, M. Hirano h T. Nagata // Appl. Environ. Microbiol. 1999. — V. 65, N. 3. — P. 1015−1019
- Hedlund B.P. Polycyclic aromatic hydrocarbon degradation by a new marine bacterium, Neptunomonas naphthovorans gen. nov., sp. nov. / B.P. Hedlund, A.D. Geiselbrecht, T.J. Bair et al. II Appl. Environ. Microbiol. 1999. — V. 65. -P. 251−259.
- Hedlund B.P. Vibrio cyclotrophicus sp. nov., a polycyclic aromatic hydrocarbon (PAH)-degrading marine bacterium / B.P. Hedlund, J.T. Staley // Int. J. Syst. Evol. Microbiol. 2001. — V. 51. — P. 61−66.
- Hempel C. Plasmid stability of recombinant Pseudomonas sp. B13 FR1 pFRC20P in continuous culture / C. Hempel, R. W. Erb, W. D. Deckwer, V. Hecht // Biotechnol. Bioengineer. 1998. — V. 57. — P. 62−70.
- Hernandez B.S. Catabolic characteristics of biphenyl-utilizing isolates which cometabolize PCBs / B.S. Hernandez, J.J. Arensdorf, D.D. Focht // Biodegradation. 1995. — V. 6. — P. 75−82.
- Hernandez-Raquet G. Molecular diversity studies of bacterial communities of oil polluted microbial mats from the Etang deBerre (France) / G. Hernandez-Raquet, H. Budzinski, P. Caumette et al. II FEMS Microbiol. Ecol. 2006. -V. 58.-P. 550−562.
- Herrick J.B. Natural horizontal transfer of naphthalene dioxygenase gene between bacteria native to a coal tar-contaminated site / J.B. Herrick, K.G. Stuart
- Keil, W.C. Ghiorse, E.L. Madsen // Appl. Environ. Microbiol. 1997. — V. 63. -P. 2330−2337.
- Hickey W. J. Degradation of mono-, di-, and trihalogenated benzoic acids by Pseudomonas aeruginosa JB2 / W. J. Hickey, D. D. Focht // Appl. Environ. Microbiol. 1990. — V. 56. — P. 3842−3850.
- Hickey W.J. Mineralisation of 2-chloro- and 2,5-dichlorobiphenyl by Pseudomonas sp. strain USR2 / W.J. Hickey, V. Brenner, D.D. Focht // FEMS Microbiol. Lett. 1992. — V.98. — P. 175−180.
- Hinteregger C. Halomonas sp., a moderately halophilic strain, for biotreatment of saline phenolic waste-water / C. Hinteregger, F. Streichsbier // Biotechnol. Lett. 1997. — V. 19. — P. 1099−1102.
- Hinteregger C. Characterization of isofimctional ring-cleavage enzymes in aniline and 3-chloroaniline degradation by Pseudomonas acidovorans CA28 / C. Hinterregger, M. Loidl, F. Streichsbier // FEMS Microbiol. Lett. 1992. -V. 97.-P. 261−266.
- Hiros J. Construction of hybrid biphenyl (bph) and toluene (tod) genes for functional analysis of aromatic ring dioxygenases / J. Hiros, A. Suyama, S. Hayashidda, K. Furukawa // Gene. 1994. — V. 138. — P. 27−33.
- Hollender J. Assessing the microbial activity of soil samples, its nutrient limitation and toxic effects of contaminants using a simple respiration test / J. Hollender, K. Althoff, M. Mundt et al. / Chemosphere. 2003. — V. 53. — P. 269 275.
- Holman H.Y.N. Mineralization of sparsely water-soluble polycyclic aromatic hydrocarbons in a water table fluctuation zone / H.Y.N. Holman, Y.W. Tsang, W.R. Holman // Envir. Sci. Technol. 1999. — V. 33. — P. 1819−1824.
- Holoman T.R.P. Characterization of defined 2,3,5,6-tetrachlorobiphenyl-ori/zo-dechlorinating microbial community by comparative sequence analysis of genes coding for 16S rRNA / T.R.P. Holoman,
- M.A. Elberson, L.A. Cutter et al II Appl. Environ. Microbiol. 1998. — V. 64. -P. 3359−3367.
- Hood M. A. Microbial indicators of oil-rich salt marsh sediments / M.A. Hood, W. S. Bishop, J.R. Bishop et al // Appl. Microbiol. 1975. — V. 30. -P. 982−987.
- Hrywna Y. Construction and characterization of recombinant bacteria that grow on ortho- and para-substituted chlorobiphenyls / Y. Hrywna, T.V. Tsoi, ON. Maltseva, J.M. Tiedje // Appl. Environ. Microbiol. 1999. — V. 65. — P.2163−2169.
- Hurtubise Y. Involvement of the terminal oxygenase (3 subunit in the biphenyl dioxygenase reactivity pattern toward chlorobiphenyl / Y. Hurtubise, D. Barriault, M. Sylvestre // J. Bacteriol. 1998. — V. 180. — P. 5828−5835.
- Ibekwe A.M. Characterization of microbial communities and composition in constructed dairy wetland wastewater effluent / A.M. Ibekwe, C.M. Grieve, S.R. Lyon // Appl. Environ. Microbiol. 2003. — V. 69. — P. 5060−5069.
- Imbeault N.Y.R. Steady-state kinetic characterization and crystallization of a polychlorinated biphenyl-transforming dioxygenase / N.Y.R. Imbeault, J.B. Powlowski, C.L. Coibert et al II J. Bio. Chem. 2000. — V. 275. -P. 12 430−12 437.
- Imhoff J.F. Osmoregulation and compatible solutes in eubacteria / J.F. Imhoff// FEMS Microbiol. Rev. 1986. — V. 39. — P. 57−66.
- Ivanova E.P. Brevibacterium celere sp. nov., isolated from degraded thallus of a brown alga / E.P. Ivanova, R. Christen, Y.V. Alexeeva et al / Int. J. Syst. Evol. Microbiol. 2004. — V. 54. — P. 2107−2111.
- Iwabuchi T. Biochemical and genetic characterization of trans-2-carboxybenzalpyruvate hydratase-aldolase from a phenanthrene-degrading Nocardioides strain / T. Iwabuchi, S. Harayama // J. Bacteriol. 1998. -V. 180.-P. 945−949.
- Iwai S. Degradation of mono-chlorinated dibenzo-p-dioxins by Janibacter sp. strain YA isolated from river sediment / S. Iwai, A. Yamazoe, R. Takahashi et al. II Current Microbiology. 2005. — V.51. — P. 353−358.
- Jakoncic J. The catalytic pocket of the ring-hydroxylating dioxygenase from Sphingomonas sp. CHY-1 / J. Jakoncic, Y. Jouanneau, C. Meyer, V. Stojanoff // Biochem. Biophys. Res. Commun. 2007. — V. 352. — P. 861−866.
- Jerke K. Comparative analysis of eight Arthrobacter plasmid / K. Jerke, C.H. Nakatsu, F. Beasley, A. Konopka // Plasmids. 2008. — V. 59. — P. 73−85.
- Jin S. Biodegradation of dibenzofiiran by Janibacter terrae strain XJ-1 / S. Jin, T. Zhu, X. Xu, Y. Xu // Current Microbiology. 2006. — V. 53. — P. 30−36.
- Jones A.L. Rhodococcus gordoniae sp. nov., an actinomycete isolated from clinical material and phenol-contaminated soil / A.L. 'Jones, J.M. Brown, V. Mishra et al. II Int. J. Syst. Evol. Microbiol. 2004. — V. 54. — P. 407−411.
- Jones R.M. The naphthalene catabolic (nag) genes of Ralstonia sp. strain U2 are an operon that is regulated by NagR, a LysR-type transcriptional regulator / R.M. Jones, B. Britt-Compton, P.A. Williams // J. Bacteriol. -2003. V. 185. -P. 5847−5853.
- Joon J.H. Halomonas marisflavae sp. nov., a halophilic bacterium isolated from the Yellow Sea in Korea / J.H. Joon, S.H. Choi, K.C. Lee et al. II Int. J. Syst. Evol. Microbiol. 2001. — V. 51. — P. 1171 -1177.
- Jones D. The Genus Arthrobacter / D. Jones, R.M. Keddie // in Dworkin, Falkow, Rosenberg, Schleifer and Stackebrandt (Editors), The Prokaryotes,
- A Handbook on the Biology of Bacteria, Springer-Verlag, New York. 2006. -V. 3. P. 945−960.
- Kobama Y. Thalassospira tepidiphila sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from seawater / Kobama Y., Stiknowati L.I., Ueki A. et al. II Int. J. Syst. Evol. Microbiol. 2008. — V. 58. — P. 711−715.
- Kalogeris E. Properties of catechol 1,2-dioxygenase from Pseudomonas putida immobilized in calcium alginate hydrogels / E. Kalogeris, Y. Sanakis, D. Mamma et al. II Enz. Microb. Technol. 2006. — V. 39. -P. 1113−1121.
- Kampfer P. Janibacter anophelis sp. nov., isolated from the midgut of Anopheles arabiensis / P. Kampfer, O. Terenius, J.M. Lindh et al. / Int. J. Syst. Evol. Microbiol. 2006. — V. 56. P. 389−392.
- Kampfer P. The Family Streptomycetaceae, Part I: Taxonomy. In Dworkin, Falkow, Rosenberg, Schleifer and Stackebrandt (Editors). The Prokaryotes, A Handbook on the Biology of Bacteria, Springer-Verlag, New York // 2006. -Vol. 3.-P. 538−604.
- Kampfer P. Brevibacterium sandarakinum sp. nov., isolated from a wall of an indoor environment / Kampfer P., Schafer J., Lodders N., Busse H.J. // Int. J. Syst. Evol. Microbiol. 2010. — V. 60. P. 909−913.
- Kanaly R.A. Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by bacteria / R.A. Kanaly, S. Harayama // J. Bacteriol. 2000. -V. 182.-P. 2059−2067.
- Kanaly R.A. Rapid mineralization of benzoa. pyrene by a microbial consortium growing on diesel fuel / R.A. Kanaly, R. Bartha, K. Watanabe et al. II Appl. Environ. Microbiol. 2000. — V. 66. — P. 4205−4211.
- Kasai Y. Bacteria belonging to the genus Cycloclasticus play a primary role in the degradation of aromatic hydrocarbons released in a marine environment /
- Y. Kasai, K. Kishira, S. Harayama // Appl. Environ. Microbiol. 2002. — V. 68. -P. 5625−5633.
- Kazunga C. Products from the incomplete metabolism of pyrene by polycyclic aromatic hydrocarbon-degrading bacteria / C. Kazunga, M.D. Aitken // Appl. Environ. Microbiol. 2000. — V.66. — P. 1917−1922.
- Keen N.T. Improved broad-host-range plasmids for DNA cloning in gramnegative bacteria / N.T. Keen, S. Tanaki, D. Kobayashi, D. Trollinger // Gene. -1988.-V. 70.-P. 191−197.
- Keil H. Degradation of 4-chlorobenzoate by Pseudomonas sp. CBP3: induction of catabolic enzymes / H. Keil, U. Klages, F. Lingens // FEMS Microbiol. Lett. // 1981. V. 10. — P. 213−215.
- Kelley I. Identification of metabolites from the degradation of fluoranthene by Mycobacterium sp. strain PYR-1 / I. Kelley, G.P. Freeman, F.E. Evans, C.E. Cerniglia // Appl. Environ. Microbiol. 1993. — V. 59. — P. 800−806.
- Keuth S. Biodegradation of phenanthrene by Arthrobacterpolychromogenes isolated from a contaminated soil / S. Keuth, J.H. Rehm // Appl. Microbiol. Biotechnol. 1991. — V.34. — P. 804−808.
- Khmelenina V. N. Osmoadaptation in halophilic and alkaliphilic methanotrophs / V. N. Khmelenina, M. G. Kalyuzhnaya, V. G. Sakharovsky et al. II Arch. Microbiol. 1999. — V. 172. — P. 321−329.
- Kim C.K. Isolation of aromatic hydrocarbon-degrading bacteria and genetic characterization of their plasmid genes / C.K. Kim, J.W. Kim, T.I. Mheen // Kor. J. Microbiol. 1986. — V. 24. — P. 67−72.
- Kim C.K. Structure of the pcbC gene encoding 2,3-dixydroxybiphenyl dioxygenase of Pseudomonas sp. P20 / C.-K. Kim, E. Kim, J.-C. Chae, Y. Kim // Biochem. Biophys. Res. Commun. 1996. — V. 226. — P. 15−20.
- Kim S. A novel bacterium that utilizes monochlorobiphenyls and 4 chlorobenzoate as growth substrates / S. Kim, F. W. Picardal // FEMS Microbiol. Lett. 2000. — V. 185. — P. 225−229.
- Kim S. Microbial growth on dichlorobiphenyls chlorinated on both rings as a sole carbon and energy source / S. Kim, F. W. Picardal // Appl. Environ. Microbiol. 2001. — V.64. — P. 1953−1955.
- Kim D. Functional characterization and molecular modeling of methylcatechol 2,3-dioxygenase from o-xylene-degrading Rhodococcus sp. strain DK17 / D. Kim, J.-C. Chae, J.Y. Jang et al. II Biochem. Biophys. Res. Commun. -2005.-V. 326. P.880−886.
- Kim Y.M. Synergic degradation of phenanthrene by consortia of newly isolated bacterial strains / Y.M. Kim, C.K. Ahn, S.H. Woo et al. // J. Biotechnol. 2009. — V. 144. — P. 293−29.
- King J.M.H. Rapid, sensitive, bioluminescent reporter technology for naphthalene exposure and biodegradation / J.M.H. King, P.M. DiGrazia, B. Applegate et al. II Science. 1990. — V. 249. — P. 778−781.
- Kitagawa W. Cloning and characterization of benzoate catabolic genes in the gram-positive polychlorinated biphenyl degrader Rhodococcus sp. strain RHA1 / W. Kitagawa, K. Miyauchi, E. Masai, M. Fukuda // J. Bacteriol. 2001. — V. 183. -P. 6598−6606.
- Kiyohara H. Degradation of phenanthrene through o-phthalate by Aeromonas sp. / H. Kiyohara, K. Nagao, R. Nomi // Agric. Biol. Chem. 1976. -V. 40.-P. 1075−1082.
- Kiyohara H. The catabolism of phenanthrene and naphthalene by bacteria / H. Kiyohara, K. Nagao // J. Gen. Microbiol. 1978. — V. 105. — P. 69−75.
- Kiyohara H. Characterization of a phenanthrene degradation plasmid from Alcaligenes faecalis AFK2 / H. Kiyohara, N. Takizawa, H. Date, S. Torigoe, K. Yano // J. Ferment. Bioeng. 1990. — V. 69. — P. 54−56.
- Klages U. Degradation of 4-chlorobenzoic acid by a Nocardia species / U. Klages, F. Lingens // FEMS Microbiol. Lett. 1979. — V.6. — P. 201−203.
- Kleinsteuber S. Population dynamics within a microbial consortium during growth on diesel fuel in saline environments / S. Kleinsteuber, V. Riis, I. Fetzer et al. II Appl. Environ. Microbiol. 2006. — V. 72. — P. 3531−3542.
- Kobama Y. Thalassospira tepidiphila sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from seawater / Y. Kobama, L.I. Stiknowati, A. Ueki et al. II Int. J. Syst. Evol. Microbiol. 2008. — V. 58. -P. 711−715.
- Kobayashi K. Hydrolytic dehalogenation of 4-chlorobenzoic acid by an Acinetobacter sp. / K. Kobayashi, K. Hirayama, S. Tobita // Gen. Appl. Microbiol. 1997. -V. 43. — P. 105−108.
- Kolar A. B. PCB-degrading potential of aerobic bacteria enriched from marine sediments / A.B. Kolar, D. Hrsak, S. Fingier et al. // Int. Biodeter. Biodegrad. 2007. — V. 60. — P. 16−22.
- Kuhlmann A.U. Osmotically regulated synthesis of the compatible solute ectoine in Bacillus pasteurii and related Bacillus spp. / A.U. Kuhlmann, E. Bremer II Appl. Environ. Microbiol. 2002. — V. 68. — P. 772−783.
- Kuhm A.E. Purification and characterization of dichloromuconate cycloisomerase from Alcaligenes eutrophus JMP134 / A.E. Kuhm, M. Schlomann, H-J. Knackmuss, D.H. Pieper // Biochem. J. 1990. — V. 266. — P. 877−883.
- Kulakov L.A. Cloning and characterization of a novel c/s-naphthalene dihydrodiol dehydrogenase gene (narB) from Rhodococcus sp. NCIMB12038 / L.A. Kulakov, C.C.C.R. Allen, D.A. Lipscomb et al. // FEMS Microbiol. Lett. -2000.-V. 182.-P. 327−331.
- Kulakov L.A. Web-type evolution of Rhodococcus gene clusters associated with utilization of naphthalene / L.A. Kulakov, S. Chen, C.C.C.R. Allen et al. II Appl. Environ. Microbiol. 2005. — V. 71. — P. 1754−1764.
- Kurkela S. Cloning, nucleotide sequence and characterization of genes encoding naphthalene dioxygenase of Pseudomonas putida strain NCIB9816 / S. Kurkela, H. Lehvaslaiho, E. T. Palva et al. II Gene. 1988. — V. 73. — P. 355 362.
- Kustner D.J. Molecular adaptation of enzymes, metabolic systems and transport systems in halophilic bacteria / D.J. Kustner // FEMS Microbiol. Rev. -1986.-V. 39.-P. 121−127.
- Laemmli V.K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4 / V.K. Laemmli // Nature. 1970. — V. 227. — P. 680 685.
- Larkin M.J. Purification and characterisation of a novel naphthalene dioxygenase from Rhodococcus sp. strain NCIMB 12 038 / M.J. Larkin, C.C.R. Allen, L.A. Kulakov et al. II J. Bacteriol. 1999. — V. 181. — P. 6200−6204.
- Laurie A. D. The phn genes of Burkholderia sp. strain RP007 constitute a divergent gene cluster for polycyclic aromatic hydrocarbon catabolism / A.D. Laurie, G. Lloyd-Jones // J. Bacteriol. 1999. — V. 181. -P. 531−540.
- Layton A. C. Construction of a bioluminescent reporter strain to detect polychlorinated biphenyls / A.C. Layton, M. Muccini, M.M. Ghosh, G.S. Sayler // Appl. Environ. Microbiol. 1998. — V. 64. — P. 5023−5026.
- Lechevalier M.P. Identification of aerobic actinomycetes of clinical importance / M.P. Lechevalier // J. Lab. Clin. Med. 1968. — V. 71. — P. 934−944.
- Lee J-C. Halomonas taeanensis sp. nov., a novel moderately halophilic bacterium isolated from a solar saltern in Korea / J.-C. Lee, C. Jeon, J.-M. Lim et al // Int. J. Syst. Evol. Microbiol. 2005. — V. 55. — P. 2027−2032.
- Leigh M.B. Polychlorinated biphenyl (PCB)-degrading bacteria associated with trees in a PCB-contaminated site / M.B. Leigh, P. Prouzova, M. Mackova et al. / Appl. Environ. Microbiol. 2006. — V.72. — P. 2331−2342.
- Leigh M.B. Biphenyl-utilizing bacteria and their functional genes in a pine root zone contaminated with polychlorinated biphenyls (PCBs) / M.B. Leigh, V.H. Pellizari, O. Uhlik et al. / The ISME Journal. 2007. — V. 1. — P. 134−148.
- Lentzen G. Extremolytes: natural compounds from extremophiles for versatile applications / G. Lentzen, T. Schwarz // Appl. Microbiol. Biotechnol. -2006.-V. 72.-P. 623−634.
- Lerbach P.R. Enzyme recruitment in vitro: use of cloned genes to extend the range of haloaromatics degraded by Pseudomonas sp. strain B13 / P.R. Lerbach, J. Zeyer, W. Reineke et al. II J. Bacteriol. 1984. — V. 158. — P. 1025−1032.
- Li J.-L. Effect of a commercial alcohol ethoxylate surfactant (C1M5E7) on biodegradation of phenanthrene in a saline water medium by Neptunomonas naphthovorans / J.-L. Li, R. Bai I ! Biodegradation. 2005. — V. 16. — P. 57−65.
- Liu D. Amino acids in positions 48, 52, and 73 differentiate the substrate specificities of the highly homologous chlorocatechol 1,2-dioxygenases CbnA and TcbC / D. Liu, S. Ogawa, N. Senda et al. H J. Bacteriol. 2005. — V. 187. P. 54 275 436.
- Liu C. Thalassospira xiamenensis sp. nov. and Thalassospira profundimaris sp. nov. / C. Liu, Y. Wu, L. Li et al. II Int. J. Syst. Evol. Microbiol. 2007. — V. 57. -P.316−320.
- Lloyd-Jones G. Recombination of the bph (biphenyl) catabolic genes from plasmid pWWIOO and their deletion during growth on benzoate / G. Lloyd-Jones, C. de Jong, R.C. Ogden // Appl. Environ. Microbiol. 1994. — V. 60. — P. 691−696.
- Loffler F. Identificacation of 4-chlorobenzoyl-coensyme A as intermediate in the dehalogenation catalyzed by 4-chlorobenzoate dehalogenase from Pseudomonas sp. CBS3 / F. Loffler, R. Muller // FEBS Lett. 1991. — V. 290. -P. 224−226.
- Loffler F. Dehalogenation of 4-chlorobenzoate by 4-chlorobenzoate dehalogenase from Pseudomonas sp. CBS3: an ATP/coenzyme A dependent reaction / F. Loffler, R. Muller, F. Lingens // Biochem. Biophys. Res. Commun. -1995.-V. 176. -P. 1106−1111.
- Lambo A.J. Cometabolic degradation of polychlorinated biphenyls at low temperature by psychrotolerant bacterium Hydrogenophaga sp. IA3-A / A.J. Lambo, T.R. Patel // Curr. Microbiol. 2006. — V. 53. — P. 48−52.
- Lopez-Lopez A. Thalassospira lucentensis gen. nov., sp. nov., a new marine member of the alpha-Proteobacteria / A. Lopez-Lopez, M. J. Pujalte, S. Benlloch et al. II Int. J. Syst. Evol. Microbiol. 2002. — V. 52. — P. 1277−1283.
- Maltseva O.V. Degradation of anaerobic reductive dechlorination products of Aroclor 1242 by four aerobic bacteria / O.V. Maltseva, T.V. Tsoi, J.F. Quensen III etal. //Biodegradation. 1999. — V. 10. — P. 363−371.
- Manoj K. A halotolerant and thermotolerant Bacillus sp. degrades hydrocarbons and produces tensio-active emulsifying agent / K. Manoj, L.V. Sisto
- Materano, A. Ilzins et al. II J. Microbiol. Biotechnol. 2007. — V. 23. — P. 211 220.
- Margesin R. Biodegradation and bioremediation of hydrocarbons in extreme environments / R. Margesin, F. Schinner // Appl. Microbiol. Biotechnol. 2001. -V. 56.-P. 650−663.
- Marko M. A. A procedure for the large-scale isolation of highly purified plasmid DNA using alkaline extraction and binding to glass powder / M.A. Marko, R. Chipperfield, H.C. Birnboim // Analit. Biochem. 1982. — V. 121. — P. 382.
- Marks T.S. The origin of the oxygen incorporated during the dehalogenation/hydroxylation of 4-chlorobenzoate by an Arthrobacter sp. / T.S. Marks, R. Wait, A.R. Smith, A.V. Quirk // Biochem. Biophys. Res. Commun. 1984. -V. 124. — P. 669−674.
- Martin K. Janibacter limosus gen. nov., sp. nov., a new actinomycete with meso-diaminopimelic acid in the cell wall / K. Martin, P. Schumann, F.A. Rainey et al. II Int. J. Syst. Bacteriol. 1997. — V. 47. — P. 529−534.
- Martinez-Canovas M.J. Halomonas ventosae sp. nov., a moderately halophilic, denitrifying, exopolysaccharide-producing bacterium / M.J. Martinez-Canovas, E. Quesada, I. Llamas et al. II Int. J. Syst. Evol. Microbiol. 2004. -V. 54.-P. 733−777.
- Martinkova L. Biodegradation potential of the genus Rhodococcus / L. Martinkova, B. Uhnakova, M. Patek et al. Il Environ. Int. 2009. — Y. 35. -P. 162−177.
- Martins L.O. Accumulation of mannosylglycerate and di-wj^o-inositol-phosphate by Pyrococcus furiosus in response to salinity and temperature / L.O. Martins, H. Santos // Appl. Environ. Microbiol. 1995. — V. 61. — P. 32 993 303.
- Masai E. Characterization of biphenyl catabolic genes of gram-positive polychlorinated biphenyl degrader Rhodococcus sp. strain RHA1 / E. Masai, A. Yamada, J. M. Healy et al II Appl. Environ. Microbiol. 1995. — V. 61. -P. 2079−2085.
- Mata J.A. A detailed phenotypic characterisation of the type strains of Halomonas species / J.A. Mata, J. Martinez-Canovas, E. Quesada et al. II System. Appl. Microbiol. 2002. — V. 25. — P. 360−375.
- McLeod M.P. The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouse / M.P. McLeod, R.L. Warren, W.W. Hsiao et al. //Proc. Natl. Acad. Sci. USA. 2006. — V. 103.-P.15 582−15 587.
- Mellado E. Characterization of the basic replicon of pCMl, a narrow-hostrange plasmid from the moderate halophile Chromohalobacter marismortui / E. Mellado, J.A. Asturias, J.J. Nieto et al II J. Bacteriol. 1995. — V. 177. -P. 3443−3450.
- Menn F.M. NAH plasmid-mediated catabolism of anthracene and phenanthrene to naphthoic acid / F.M. Menn, B.M. Applegate, G.S. Sayler // Appl. Environ. Microbiol. 1993. — V. 59. — P. 1938−1942.
- Merlin C. Organization of the bph gene cluster of transposon Tn4371, encoding enzymes for the degradation of biphenyl and 4-chlorobiphenyl compounds / C. Merlin, D. S Pringael, M. Mergeay, A. Toussaint //Mol. Gen. Genet. 1997. — V. 253. — P. 499−506.
- Merril C.R. Ultrasensitive stain for proteins in Polyacrylamide gels shows regional variation in cerebrospinal fluid proteins / C.R. Merril, D. Goldman, S.A. Sedman, M.H. Ebert // Science. 1981. — V. 211. — P. 1437−1438.
- Mille G. Effect of salinity on petroleum biodegradation / G. Mille, M. Almallah, M. Bianchi et al. II Fresenius J. Anal. Chem. 1991. — V. 339. -P. 788−791.
- Minai-Tehrani D. Effect of salinity on biodegradation of polycyclic aromatic hydrocarbons (PAHs) of heavy crude / D. Minai-Tehrani, S. Minoui, A. Herfatmanesh // Bull. Environ. Contam. Toxicol. 2009. -V. 82. — P. 179−184.
- Minnikin D.E. Differentiation of Mycobacterium, Nocardia and related taxa by thin-layer chromatographic analysis of whole-cell methanolysates / D.E. Minnikin, L. Alshamaony, M. Goodfellow // J. Gen.Microbiol. 1975. -V. 88. — P. 200−204.
- Mohn W.W.M. Microbial reductive dehalogenation / W.W. Mohn, J. M. Tiedje // Microbiol. Rev. 1992. — V. 56. — P. 482−507.
- Mondello, F.J. Cloning and expression in Escherichia coli of Pseudomonas strain LB400 genes encoding polychlorinated biphenyl degradation / F.J. Mondello //J. Bacterid. 1989.-V. 171.-P. 1725−1732.
- Morawsky B. 2-naphthoate catabolic pathway in Burkholderia strain JT 1500 / B. Morawsky, R.W. Eaton, T. Rossiter, S. Guoping, H. Griengl, D.W. Ribbons // J. Bacteriol. 1997. — V. 179. — P. 115−121.
- Mouz S. A GntR-like negative regulator of the biphenyl degradation genes of the transposon Tn4371 / S. Mouz, C. Merlin, D. Springael, A. Toussaint // Mol. Gen. Genet. 1999. — V. 262. — P. 790−799.
- Mukerjee-Dhar G. Degradation of polychlorinated biphenyl by cells of Rhodococcus opacus strain TSP203 immobilized in alginate and in solution / G. Mukerjee-Dhar, M. Shimura, K. Kimbara // Enz. Microb. Technol. 1998. -V. 23.-P. 34−41.
- Muller R. Enzymatic dehalogenation of 4-chlorobenzoate by extracts from Arthrobacter sp. SU DSH 20 407 / R. Muller, R.H. Oltmanns, F. Lingens // Biol. Chem. Hoppe-Seyler. 1988. — V. 369. — P. 567−571.
- Muller R. Incorporation of lsO. water into 4-hydroxybenzoic acid in the reaction of 4-chlorobenzoate dehalogenase from Pseudomonas sp. CBS3 / R. Muller, J. Thiele, U. Klages, F. Lingens II Biochem. Biophys. Res. Commun. -1984.-V. 124.-P. 178−182.
- Mumtaz M. Toxicological profile for polycyclic aromatic hydrocarbons / M. Mumtaz // U.S. department of health and human services. 1995. — P. 487.
- Nagata S. Intracellular changes in ions and organic solutes in halotolerant Brevibacterium sp. strain JCM 6894 after exposure to hyperosmotic shock / S. Nagata, K. Adachi, H. Sano // Appl. Environ. Microbiol. 1998. — V. 68. -P. 3641−3647.
- Nakatsu C. Chlorobenzoate catabolic transposon Tn5271 is a composite class I element with flanking class II insertion sequences / C. Nakatsu, J. Ng, R. Singh, N. Straus, C. Wyndham // Microbiology. 1991. — V. 88. — P. 83 128 316.
- Nakatsu C. H. The c/s-diol dehydrogenase cbaC gene of Tn5271 is required for growth on 3-chlorobenzoate but not 3,4-dichlorobenzoate / C. H. Nakatsu, M. Providenti, R. C. Wyndham // Gene. 1997. — V. 196. — P. 209−218.
- Nakayama H. Ectoine, the compatible solute of Halomonas elongata, confers hyperosmotic tolerance in cultured tobacco cells / H. Nakayama, K. Yoshida, H. Ono et al. II Plant. Physiol. 2000. — V. 122. — P. 1239−1248.
- Natarajan M.R. Dechlorination of polychlorinated biphenyl congeners by an anaerobic microbial consortium / M.R. Natarajan, W.-M. Wu, J. Nye et al. // Appl. Microbiol. Biotechnol. 1996. — V. 46. — P. 673−677.
- Neilson A.H. The biodegradation of halogenated organic compounds /
- A.H. Neilson // J. Appl. Bacteriol. 1990. — V. 69. — P. 445−470.
- Nicholson C.A. Aerobic biodegradation of benzene and toluene under hypersaline conditions at the Great Salt Plains, Oklahoma / C.A. Nicholson,
- B.Z. Fathepure // FEMS Microbiol. Lett. 2005. — V. 245. — P. 257−262.
- Nicholson C.A. Biodegradation of benzene by halophilic and halotolerant bacteria under aerobic conditions / C.A. Nicholson, B.Z. Fathepure // Appl. Environ. Microbiol. 2004. — V. 70. — P. 1222−1225.
- Nishi A. A 90-kilobase conjugative chromosomal element coding for biphenyl and salicylate catabolism in Pseudomonas putida KF715 / A. Nishi, K. Tominaga, K. Furukawa // J. Bacteriol. 2000. — V. 182. — P. 1949−1955.
- Nishimori E. Pseudomonas plecoglossicida sp. nov., the causative agent of bacterial haemorrhagic ascites of ayu, Plecoglossus altivelis / Nishimori E., K. Kita-Tsukamoto, H. Wakabayhi // Int. J. Syst. Evol. Microbiol. 2000. -.V. 50. — P. 83−89.
- Oda Y. Acquisition of the ability for Rhodopseudomonas palustris to degrade chlorinated benzoic acids as the sole carbon source / Y. Oda, Y.P. de Vries, LJ. Forney, J.C. Gottschal // FEMS Microbiol. Ecol. 2001. — V. 38.-P. 133−139.
- Oesterhelt D. Decomposition of halogenated hydrocarbons by halophilic bacteria / D. Oesterhelt, H. Patzelt, B. Kesler // Patent DE19639894 1998.
- Ohtsubo Y. BphS, a key transcriptional regulator of bph genes involved in polychlorinated biphenyl/biphenyl degradation in Pseudomonas sp. KKS102 /
- Y. Ohtsubo, M. Delawary, K. Kimbara et al. II Biol. Chem. 2001. — V. 276. -P. 36 146−36 154.
- Okamoto T. Zymobacter palmae gen. nov., sp. nov., a new ethanol-fermenting peritrichous bacterium isolated from palm sap / T. Okamoto, H. Taguchi, K. Nakamura et al. II Arch. Microbiol. 1993. — V. 160. — P. 333−337.
- Ono H. Characterization of biosynthetic enzymes for ectoine as a compatible solute in a moderately halophilic eubacterium, Halomonas elongate / H. Ono, K. Sawada, N. Khunajakr et al. //J. Bacteriol. 1999. — V. 181. — P. 91−99.
- Onraedt A. Dynamics and optimal conditions of intracellular ectoine accumulation in Brevibacterium sp. / A. Onraedt, B. Walcarius, W. Soetaert et al. Il Commun. Agric. Appl. Biol. Sci. 2003. — V. 68. — P. 241−246.
- Oren A. Bioenergetic aspects of halophilism / A. Oren // Microbiol. Molec. Biol. Rev. 1999. — V. 63. — P. 334−348.
- Oren A. Microbial degradation of pollutants at high salt concentrations/ A. Oren, P. Gurevich, M. Azachi et al. Il Biodegradation. 1992. V. 3. — P. 387 398.
- Oren A. Microbial life at high salt concentration: phylogenetic and metabolic diversity / A. Oren // Saline Systems. 2008. — V. 4. — P. 1−13.
- Ornston L.N. The conversion of catechol and protocatechuate to eeta-ketoadipate by Pseudomonas putida. Enzymes of catechol pathway / L.N. Ornston // J. Biol. Chem. 1966. — V. 166. — P. 9−14.
- Osorio K.R. Arthrobacter rhombi sp. nov., isolated from Greenland halibut (Reinhardtius hippoglossoldes) / K.R. Osorio, J.L. Barja, R.A. Hutson, M.D. Collins II Int. J. Syst. Bacteriol. 1999. — V. 49. — P. 1217−1220.
- Overhage J. Identification of large linear plasmids in Arthrobacter spp. encoding the degradation of quinaldine to anthranilate / J. Overhage, S. Sielker, S. Homburg, K. Parschat, S. Fetzner // Microbiology. 2005. — V. 151. — P. 491 500.
- Owen R.J. The thermal denaturation of partly purified bacterial deoxyribonucleic acid and its taxonomic applications / R.J. Owen, S.P. Lapage // J. Appl. Bacteriol. 1976. — V. 41. — P. 335−340.
- Parales R.E. Substrate specificity of naphthalene dioxygenase: effect of specific amino acids at the active site of the enzyme / R.E. Parales, K. Lee, S.M. Resnick et al. II J. Bacteriol. 2000. — V. 182. — P. 1641−1649.
- Parales R. Regioselectivity and enantioselectivity of naphthalene dioxygenase during arene m-dihydroxylation: control by phenylalanine 352 in the a subunit / R. Parales, S.M. Resnick, C.-L. Yu et al. II J. Bacteriol. 2000. -V.182. — P. 5495−5504.
- Parales R. E. The role of active-site residues in naphthalene dioxygenase / R.E. Parales // J. Ind. Microbiol. Biotechnol. 2003. — V. 30. — P. 271−278.
- Parke D. Application of p-toluidine in chromogenic detection of catechol and protocatechuate, diphenolic intermediates in catabolism of aromatic compounds / D. Parke // Appl. Environ. Microbiol. 1992. — V. 58. — P. 26 942 697.
- Patel T.R. Bacterial cys-dihydrodiol dehydrogenase of Pseudomonas putida /T.R. Patel, D.T. Gibson // J. Bacteriol. 1974. — V. 119. — P. 879−888.
- Patrauchan M.A. Catabolism of benzoate and phthalate in Rhodococcus sp. strain RHA1: redundancies and convergence / M.A. Patrauchan, C. Florizone, M. Dosanjh et al. II J. Bacteriol. 2005. — V. 187. — P. 4050−4063.
- Peloquin L. Cloning and expression of the polychlorinated biphenyl-degradation gene cluster from Arthrobacter M5 and comparison to analogous genes from gram-negative bacteria / L. Peloquin, C.W. Greer // Gene. — 1993. — V. 125.-P. 35−40.
- Pieper D.H. Aerobic degradation of polychlorinated biphenyls / D.H. Pieper // Appl. Microbiol. Biotechnol. 2005. — V. 67. — P. 170−191.
- Pieper D.H. Bacterial metabolism of polychlorinated biphenyls / D.H. Pieper, M. Seeger // J. Mol. Microbiol. Biotechnol. 2008. — V. 15. — P. 121— 138.
- Potrawfke T. Degradation of 1,2,3,4-tetrachlorobenzene by Pseudomonas chlororaphis RW71 / T. Potrawfke, K.N. Timmis, R.M. Wittich // Appl. Environ. Microbiol. 1998. -V. 64. P. 3798−3806.
- Prabhu J. Functional expression of the ectoine hydroxylase gene (thpD) from Streptomyces chrysomallus in Halomonas elongate / J. Prabhu, F. Schauwecker, N. Grammel et al. //Appl. Environ. Microbiol. 2004. — V. 70. -P. 3130−3132.
- Pumphrey G.M. Naphthalene metabolism and growth inhibition by naphthalene in Polaraomonas naphthlenivorans strain CJ2 / G.M. Pumphrey,
- E.L. Madsen // Microbiology. 2007. — V. 153. — P. 3739−3747.
- Quesada E. Numerical taxonomy of moderately halophilic gram-negative bacteria from hypersaline soils / E. Quesada, A. Ventosa, F. Rodrigues-Valeraamos-Cormenzana // J. Gen. Microbiol. 1983. — V. 129. — P. 2649−2657.
- Quesada E. Types and properties of some bacteria isolated from hypersaline soils. / E. Quesada, A. Ventosa, F. Rodrigues-Valera, A. Ramos-Cormenzana // J. Appl. Bacteriol. 1982. — V. 53. — P. 155−161.
- Radice F. Cloning of the Arthrobacter sp. FG1 dehalogenase genes and construction of hybrid pathways in Pseudomonas putida strains / F. Radice, V. Orlandi, V. Massa et al. II Appl. Microbiol. Biotechnol. 2007. — V. 75. -P. 1111−1118.
- Rainey F.A. Dietzia, a new genus including Dietzia maris comb, nov., formerly Rhodococcus maris / Rainey F.A., S. Klatte S., R.M. Kroppenstedt, E. Stackebrandt / Int. J. Syst. Bacteriol. 1995. — V. 45. — P. 32−36.
- Raschke H. Biotransformation of various substituted aromatics compounds to chiral dihydrodihydroxy derivatives / H. Raschke, M. Meier, J.G. Burken et al. II Appl. Environ. Microbiol. 2001. — V. 67. — P. 3333−3339.
- Reineke W. Microbial degradation of haloaromatics / W. Reineke, H.J. Knackmuss II Ann. Rev. Microbiol. 1988. — V.42. — P. 263−287.
- Reineke W. Development of hybrid strains for the mineralization of chloroaromatics by patchwork assembly / W. Reineke // Annu. Rev. Microbiol. -1998. V.52. — P. 287−331.
- Reng R.-H. Microbial biodegradation of polyaromatic hydrocarbons / R.-H. Peng, A.-S. Xiong, Y. Xue et al. IIFEMS Microbiol. Rev. 2008. — V. 32. -P.927−955.
- Resnick S.M. Diverse reactions catalyzed by naphthalene dioxygenase from Pseudomonas sp strain NCIB 9816 / S.M. Resnick, K. Lee, D.T. Gibson // J. Ind. Microbiol. 1996. — V. 17. — P. 438−457.
- Rheinwald J. A transmissible plasmids controlling camphor oxidation in Pseudomonas putida / J. Rheinwald, A.M. Chakrabarty, I.C. Gunsalus // Proc. Natl. Acad. Sci. USA. 1973. — V. 70. — P. 885−889.
- Rhykerd R.L. Influence of salinity on bioremediation of oil in soil / R.L. Rhykerd, R.W. Weaver, K.J. Mclnnes // Environ. Pollut. 1995. — V. 90. -P. 127−130.
- Roberts M.F. Organic compatible solutes of halotolerant and halophilic microorganisms / M.F. Roberts // Saline Systems. 2005. — P. 1−30.
- Rodrigues J.L. Development of a Rhodococcus recombinant strain for degradation of products from anaerobic dechlorination of PCBs / J.L. Rodrigues, O.V. Maltseva, T.V. Tsoi et al. II Environ. Sci. Technol. 2001. — V. 15. -P. 663−668.
- Rodrigues J.L. Degradation of Aroclor 1242 dechlorination products in sediments by Burkholderia xenovorans LB400(ohb) and Rhodococcus sp. strain
- RHAl (/co) / J.L. Rodrigues, C.A. Kachel, M.R. Aiello et al. II Appl. Environ. Microbiol. 2006. — V. 72. — P. 2476−2482.
- Romanov V. Pseudomonas aeruginosa 142 uses a three-component ortho-halobenzoate 1,2-dioxygenase for metabolism of 2,4-dichloro- and 2-chlorobenzoate / V. Romanov, R.P. Hausinger // J. Bacteriol. — 1994. V. 176. -P. 3368−3374.
- Romine M.F. Complete sequence of a 184-kilobase catabolic plasmid from Sphingomonas aromaticivorans Fl 99 / M.F. Romine, L.C. Stillwell, K.-K Wong et al. II J. Bacteriol. 1999. — V. 181. — P. 1585−1602.
- Rossello-Mora R.A. Comparative biochemical and genetic analysis of naphthalene degradation among Pseudomonas stutzeri strains / R.A. Rossello-Mora, J. Laluoat, E. Garoia-Valdes // Appl. Environ. Microbiol. 1994. — V. 60. -P. 966−972.
- Sakai M. Diversity of 2,3-dihydroxybiphenyl dioxygenase genes in a strong PCB degrader, Rhodococcus sp. strain RHA1 / M. Sakai, E. Masai, H. Asami et al. II J. Biosci. Bioeng. 2002. — V. 93. — P. 421−427.
- Sayler G.S. Catabolic plasmids of environmental and ecological significance / G.S. Sayler, S.W. Hooper, A.C. Layton, J.M. Henry King // Microb. Ecol. 1990. — V. 19.-P. 1−20.
- Samanta S.K. Degradation of phenanthrene by different bacteria: evidence for novel transformation sequences involving the formation of 1-naphtol / S.K. Samanta, A.K. Chakrabarti, R.K. Jain // Appl. Microbiol. Biotechnol. 1999. -V. 53.-P. 98−107.
- Sanchez-Porro C. Chromohalobacter japonicus sp. nov., a moderately halophilic bacterium isolated from a Japanese salty food / C. Sanchez-Porro,
- H. Tokunaga, M. Tokunaga, A. Ventosa // Int. J. Syst. Evol. Microbiol. 2007. -V. 57. — P. 2262−2266.
- Sandu C. Plasmids for nicotine-dependent and -independent gene expression in Arthrobacter nicotinovorans and other arthrobacter species / C. Sandu, C.B. Chiribau, P. Sachelaru, R. Brandsch // Appl. Environ. Microbiol. 2005. -V. 71.-P. 8920−8924.
- Sanseverino J. Plasmid-mediated mineralization of naphthalene, phenanthrene, and anthracene / J. Sanseverino, B.M. Applegate, J.M.H. King, G.S. Sayler // Appl. Environ. Microbiol. 1993. — V. 59. — P. 1931−1937.
- Santos P.M. New broad-host-range promoter probe vectors based on the plasmid RK2 replicon / P.M. Santos, I.D. Bartolo, J.M. Blatny et al. // FEMS Microbiol. Lett. 2001. — V. 195. — P. 91−96.
- Savard P. Cloning of Pseudomonas sp. strain CBS3 genes specifying dehalogenation of 4-chlorobenzoate / P. Savard, L. Peloquin, M. Sylvestre // J. Bacteriol. 1986. — V. 168. — P. 81−85.
- Skerman V.B.D. Approved Lists of Bacterial Names / Skerman V.B.D., V. McGowan, P.H.A. Sneath (editors) // Int. J. Syst. Bacteriol. 1980. — V. 30. -P. 225−420.
- Schippers A. Microbacterium oleivorans sp. nov. and Microbacterium hydrocarbonoxydans sp. nov., novel crude-oil-degrading gram-positive bacteria / A. Schippers, K. Bosecker, C. Sproer et al. II Int. J. Syst. Evol. Microbiol. 2005. -V. 55.-P. 655−660.
- Schleifer K. H. Peptidoglycan types of bacterial cell walls and their taxonomic implications / K. H. Schleifer K.H., Kandier O. // Bacteriol. Rev. -1972. V. 36.-P. 407−477.
- Schmitz A. Cloning and sequence analysis of genes for dehalogenation of 4 chlorobenzoate from Arthrobacter sp. strain SU / A. Schmitz, K.-N. Gartemann, J. Fielder et al. II Appl. Environ. Microbiol. 1992. — V. 58. — P. 4068−4071.
- Schneider J. Degradation of pyrene, benza. anthracene and benz[a]pyrene by Mycobacterium sp. strain RJGII-135, isolated from coal gasification site / J. Schneider, R. Grosser, K. Jayasihulu et al. II Appl. Environ. Microbiol. 1996. -V. 62. — P. 13−19.
- Scholten J.D. Novel enzymic hydrolytic dehalogenation of a chlorinated aromatic / J.D. Scholten, K.-H. Chang, P.C. Babbit et al. II Science. 1991.-. V. 253.-P. 182−185.
- Seah S.Y.K. Comparative specificities of two evolutionarily divergent hydrolases involved in microbial degradation of polychlorinated biphenyls / S.Y.K. Seah, G. Labbe, S.R. Kaschebek et al. II J. Bacteriol. 2001. — V. 183. -P. 1511−1516.
- Seo J-S. Bacterial degradation of aromatic compounds / J-S. Seo, Y-S. Keum, Q.X. Li // Int. J. Environ. Res. Public. Health. 2009. -V. 6. -P. 278−309.
- Seeger M. Dehalogenation, denitration, dehydroxylation, and angular attack on substituted biphenyls and related compounds by a biphenyl dioxygenase / M. Seeger, B. Camara, B. Hofer // J. Bacteriol. -2001. V. 183. — P. 3548−3555.
- Seto M. A novel transformation of polychlorinated biphenyls by Rhodococcus sp. strain RHA1 / M. Seto, K. Kimbara, M. Shimura et al. Il Appl. Environ. Microbiol. 1995. — V. 61. — P. 3353−3358.
- Sevastsyanovich Y.R. Diversity of IncP-9 plasmids of Pseudomonas / Y.R. Sevastsyanovich, R. Krasowiak, L.E.H. Bingle et al. II Microbiology. 2008. -V. 154.-P. 2929−2941.
- Sharak Genthner B.R. Preliminary characterization of four 2-chlorobenzoate-degrading anaerobic bacterial consortia / B.R. Sharak Genthner, G. Mundfrom, R. Devereux /- Biodegradation. 1999. — V.10. — P. 27−33.
- Shen X.-H. Functional identification of novel genes involved in the glutathione-independent gentisate pathway in Corynebacterium glutamicum / X.-H. Shen, C.-Y. Jiang, Y. Huang et al. II Appl. Environ. Microbiol. 2005. — V. 71.-P. 3442−3452.
- Shimao M. Degradation of 4-chlorobenzoate by facultatively alcalophilic Arthrobacter sp. strain SB8 / M. Shimao, S. Onishi, S. Mizumori, N. Kato, C. Sakazawa // Appl. Environ. Microbiol. 1989. — V. 55. — P. 478−482.
- Shimizu S. Characterisation of the 450-kb linear plasmid in a polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1 / S. Shimizu,
- H. Kobayashi, E. Masai, M. Fucuda // Appl. Environ. Microbiol. 2001. — V. 67. -P. 2021−2028.
- Shindo K. Synthesis of highly hydroxylated aromatics by evolved biphenyl dioxygenase and subsequent dihydrodiol dehydrogenase / K. Shindo, Y. Shindo, T. Hasegawa et al. II Appl. Microbiol. Biotechnol. 2007. — V. 75. — P. 10 631 069.
- Shuttlworth K.L. Bacterial degradation of low concentrations of phenanthrene and inhibition by naphthalene / K.L. Shuttlworth, C.E. Cerniglia // Microbial Ecology. 1996. — № 31. — P. 305−317.
- Sierra I. Study of the biodegradation process of polychlorinated biphenyls in liquid medium and soil by a new isolated aerobic bacterium (Janibacter sp.) /
- Sierra, J.L. Valera, M.L. Marina et al. II Chemosphere. 2003. — Y.53. — P. 609 618.
- Simon M.J. Sequences of genes encoding naphthalene dioxygenase in Pseudomonas putida strains G7 and NCIB9816−4 / M.J. Simon, T.D. Osslund, R. Saunders et al. II Gene. 1993. — V. 127. — P. 31−37.
- Sisto A. Molecular characterization of bacteria isolated from waste electrical transformer oil / A. Sisto, E. Fusella, H. Urbina et al. II Moscow University Chemistry Bulletin. 2008. — V.63. — P. 120−125.
- Skerman V.B.D. Approved Lists of Bacterial Names / V.B.D. Skerman, V. McGowan P.H.A. Sneath (editors) // Int. J. Syst. Bacterid. 1980. — V. 30. -P. 225−420.
- Smith L.T. An osmoregulated dipeptide in stressed Rhizobium meliloti / L.T. Smith, G. M. Smith // J. Bacteriol. 1989 — V. 171. — P. 4714−4717.
- Smith M.R. The biodegradation of aromatic hydrocarbons by bacteria / M.R. Smith // Biodegradation. 1990. — V. 1. — P. 191−206.
- Sondossi M. Metabolism of 2,2'- and 3,3'-dihydroxybiphenyl by the biphenyl catabolic pathway of Comamonas testosteroni B-356 / M. Sondossi, D. Barriault, M. Sylvestre // Appl. Environ. Microbiol. 2003. — V. 70. — P. 174 181.
- Sotsky J.B. Frequency of genes in aromatic and aliphatic hydrocarbon pathways within bacterial populations from Alaskan sediments / J.B. Sotsky, C.W. Greer, R.M. Atlas // Can. J. Microbiol. 1994. — V.40. — P. 981−985.
- Springael D. Occurrence of Tn43 71-related mobile elements and sequences in (chloro)biphenyl-degrading bacteria / D. Springael, A. Ryngaert, C. Merlin et al. II Appl. Environ. Microbiol. 2001. — V. 67. — P. 42−50.
- Stapleton R.D. Biodegradation of aromatic hydrocarbons in an extremely acidic environment / R.D. Stapleton, D.C. Savage, G.S. Sayler et al. // Appl. Environ. Microbiol. 1998-V. 64 — P. 4180−4184.
- Stoker G.N. In vivo gene expression systems in prokaryotes. In: Transcription and translation. A practical approach / G.N. Stoker, J.M. Pratt, B. Holland (Hames B.D., Higgins S .J., eds). IRL Press. Oxford-Washington. -1984.-P. 153−177.
- Stope M.B. Cometabolic ring fission of dibenzofuran by gram-negative and gram-positive biphenyl-utilizing bacteria / M.B. Stope, D. Becher, E. Hammer, F. Schauer// Appl. Microbiol. Biotechnol. 2002. — V. 59. — P. 62−67.
- Strachan P.D. Purification and characterization of catechol 1,2-dioxygenase from Rhodococcus rhodochrous NCIMB 13 259 and cloning and sequencing of its catA gene / P.D. Strachan, A.A. Freer, C.A. Fewson // Biochem. J. 1998. -V. 333. — P. 741−747.
- Stringfellow W.T. Comparative physiology of phenanthrene degradation by two dissimilar pseudomonads isolated from a creosol-contaminated soil / W.T. Stringfellow, M.D. Atken // Can. J. Microbiol. 1994. — V. 40. — P. 432−438.
- Suen W.-T. Isolation and preliminary characterization of the subunits of the terminal component of naphthalene dioxygenase from Pseudomonas putida NCIB 9816−4 / Suen W.-T., Gibson D.T. II J. Bacteriol. 1993. — V. 175. — P. 58 775 881.
- Suenaga H. Directed evolution of biphenyl dioxygenase: emergence of enhanced degradation capacity for benzene, toluene, and alkylbenzenes / H. Suenaga, M. Mitsuoka, Y. Ura et al. II J. Bacteriol. 2001. — V. 183. -P. 5441−5444.
- Suenaga H. Alteration of regiospecificity in biphenyl dioxygenase by active-site engineering / H. Suenaga, T. Watanabe, M. Sato et al. II J. Bacteriol. 2002. -V. 184.-P. 3682−3688.
- Suenaga H. Active-site engineering of biphenyl dioxygenase: effect of substituted amino acids on substrate specificity and regiospecificity / H. Suenaga, M. Goto, K. Furukawa //Appl. Microbiol. Biotechnol. 2005. — V. 71. -P. 168−176.
- Suzuki K. Expression of 1,2-halobenzoate dioxygenase genes (
- Sylvestre M. Isolation and preliminary characterization of a 2-chlorobenzoate degrading Pseudomonas / M. Sylvestre, K. Mailhiot, O. Ahmad, R. Masse // Can. J. Microbiol. 1989. — V. 35. — P. 439−443
- Tagger S. Preliminary study on relationship among strains forming a bacterial community selected on naphthalene from a marine sediment / S. Tagger, N. Truffaut, J. Le Petit // Can. J. Microbiol. 1990. — V. 36. — P. 676−681.
- Takeda H. Characterization of transcriptional regulatory genes for biphenyl degradation in Rhodococcus sp. strain RHA1 / H. Takeda, A. Yamada, K. Miyauchi et al. II J. Bacteriol. 2004. — V.186. — P. 2134−2146.
- Takeuchi M. Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses / M. Takeuchi, K. Hamana,
- A. Hiraishi // Int. J. Syst. Evol. Microbiol. -2001. -V. 51. P. 1405−1417.
- Takeuchi M. Rhodococcus jostii sp. nov., isolated from a medieval grave / M. Takeuchi, K. Hatano, I. Sedla et al. II Int. J. Syst. Evol. Microbiol. 2002. -V. 52.-P. 409−413
- Takizawa N. Identification and characterization of genes encoding polycyclic aromatic hydrocarbon dioxygenase in Pseudomonas putida OUS82 / N. Takizawa, N. Kaida, S. Torigoe et al. II J. Bacteriol. 1994. — V. 176. — P. 24 442 449.
- Takizawa N. Nucleotide sequences and characterization of genes encoding naphthalene upper pathway of Pseudomonas aeruginosa PaKl and Pseudomonas putida OUS82 / N. Takizawa, T. Iida, T. Sawada et al. II J. Biosci. Bioeng. 1999. -Y. 87.-P 723−731.
- Talibart R. Transient accumulation of glycine betaine and dynamics of endogenous osmolytes in salt-stressed cultures of Sinorhizobium meliloti / R. Talibart, M. Jebbar, K. Gouffi et al. // Appl. Environ. Microbiol. 1997. -V. 63.-P. 4657^4663.
- Tarn N.F.Y. Preliminary study on biodegradation of phenanthrene by bacteria isolated from mangrove sediments in Hong-Kong / N.F.Y. Tam, C.L. Guo, W.Y. Yau, Y.S. // Mar. Poll. Bull. 2002. — V. 42. — P. 316−324.
- Thompson I.P. Response of soil microbial communities to single and multiple doses of an organic pollutant / I.P. Thompson, M.J. Bailey, R.J. Ellis et al. II Soil Biol. Biochem. 1999. — V. 31. — P. 95−105.
- Timmis K.N. Plasmids in bacteria / K.N. Timmis, P.R. Lehrbach // L. Plenum Press. 1985. — P. 290.
- Treadway S.L. Isolation and characterization of indene bioconversion genes from Rhodococcus strain 124 / S.L. Treadway, K.S. Yanagimachi, E. Lankenau et al. //Appl. Microbiol. Biotechnol. 1999. -V. 51. — P. 786−793.
- Trigo A. Systemic approaches to biodegradation / A. Trigo, A. Valencia, I. Cases II FEMS Microbiol. Rev. 2009. — V. 33. — P. 98−108.
- Tsukiura H. Proceomycin, a new antibiotic / Tsukiura H., M. Okanishi, H. Koshiyama // Journal of Antibiotics (Tokyo). 1964. — V. 17. — P. 223−229.
- Tropel D. Bacterial transcriptional regulators for degradation pathways of aromatic compounds / D. Tropel, J.R. van der Meer // Microbiol. Mol. Rev. -2004.-V. 68.-P. 474−500.
- Tros M. E., Schraa G., Zehnder A. Transformation of low concentrations of 3-chlorobenzoate by Pseudomonas sp. strain B13: Kinetics and residual concentrations // Appl. Environ. Microbiol. 1996. — V. 62. — P. 437−442.
- Truper H.G. Biosynthesis and fate of compatible solutes in extremely halophilic phototrophic eubacteria / H.G. Truper, E.A. Galinski // FEMS Microbiol. Rev. 1990. — V. 75. — P. 247−254.
- United State Environmentel Protection Agency. Polycyclic Aromatic Hydrocarbons (PAHs), 2008, http:www.epa.gov/osw/hazard/wastemin/priority.htm
- Unterman R. A history of PCB biodegradation / R. Unterman // Bioremediation. Principles and Applications / Eds. Crawford R.L., Crawford D.L. 1996.-P. 209−253.
- Urgun-Demirtas M. 2-chlorobenzoate biodegradation by recombinant Burkholderia cepacia under hypoxioc conditions in a membrane bioreactor / Urgun-Demirtas M, Stark B, Pagilla K. // Wat. Environ. Res. -2005. V. 77. -P. 511−518.
- Vaillancourt F.H. The mechanism-based inactivation of 2,3-dihydroxybiphenyl 1,2-dioxygenase by catecholic substrates / F.H. Vaillancourt, G. Labbe, N.M. Droouin et al. II J. Biol. Chem. 2002. — V. 277. -P. 2019−2027.
- Vandamme P. Polyphasic taxonomy, a consensus approach to bacterial systematics / P. Vandamme, B. Pot, M. Gillis et al. / Microbiol. Rev. 1996. -V. 60. — P. 407−438. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC239450/pdf/ 600 407. pdf
- Van de Peer Y. TREECON for Windows a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment / Y. Van de Peer, R. De Wachter // Comput. Appl. Biosci. 1994. -V. 10.-P. 569−570.
- Van der Meer J.R. Molecular mechanisms of genetic adaptation to xenobiotic compounds / J.R. van der Meer, W.M. de Vos, S. Harayama et al. Il Microbiol. Rev. 1992. — V. 56. — P. 677−694.
- Vargas C. Ectoines as compatible solutes and carbon and energy sources for the halophilic bacterium Chromohalobacter salexigens / C. Vargas, M. Jebbar, R. Carrasco et al II J. Appl. Microbiol. 2006. — V. 100. — P. 98−107.
- Ventosa A. Biology of halophilic aerobic bacteria / A. Ventosa, J.N. Joaquhn, A. Oren. // Microbiol. Molec.Biol. Rev. 1998. — V. 2. — P. 504 544.
- Ventosa A. Biotechnological applications and potentialities of halophilic microorganisms / A. Ventosa, J.J. Nieto // J. Microbiol. Biotechnol. 1995. -V. 11.-P. 84−95.
- Versalovic J. Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction / J. Versalovic, M. Schneider, F.J. de Bruijn et al. II Meth. Cell. Mol. Biol. 1994. — V. 5. — P. 25−40.
- Vezina J. Family shuffling of soil DNA to change the regiospecificity of Burkholderia xenovorans LB400 biphenyl dioxygenase / J. Vezina, D. Barriault, M. Sylvestre // J. Bacteriol. 2007. — V. 189. — P. 779−788.
- Vreeland R.H. Halomonas elongata, a new genus and species of extremely salt-tolerant bacteria / R.H. Vreeland, C.D. Litchfield, E.L. Martin et al. II Int. J. Syst. Bacteriol. 1980. -V. 30. — P. 485−495.
- Wagner-Dobler I. Microcosm enrichment of biphenyl-degrading microbial communities from soils and sediments / I. Wagner-Dobler, A. Bennasar, M. Vancanneyt et al II Appl. Environ. Microbiol. 1998. — V.64. — P. 3014−3022.
- Walter U. Degradation of pyrene by Rhodococcus sp. UW1 / U. Walter, M. Beyer, J. Klein, H-J. Rehm // Appl. Microbiol. Biotechnol. 1991. — V.34. -P. 671−676.
- Wang C.-L. Production of catechol from benzoate by the wild strain Ralstonia species Ba-0323 and characterization of its catechol 1,2-dioxygenase /
- C.-L. Wang, S. Takenaka, S. Murakami, K. Aoki // Bioci. Biotechnol. Biochem. -2001. V.65. — P.1957−1964.
- Wang C.-L. Purification and characterization of a novel catechol 1,2-dioxygenase from Pseudomonas aeruginosa with benzoic acid as carbon source / C.-L. Wang, S.-L. You, S.-L. Wang // Process Biochemistry. 2006. -V.41. -P.1594−1601.
- Ward D.M. Hydrocarbon biodegradation in hypersaline environments /
- D.M. Ward, T.D. Brock // Appl. Environ. Microbiol. 1978. — V. 35. — P. 353 359.
- Watanabe T. Versatile transcription of biphenyl catabolic bph operon in Pseudomonas pseudoalcaligenes KF707 / T. Watanabe, R. Inoue, N. Kimura, K. Furukawa // J. Bacteriol. 2000. — V. 275. — P. 31 016−31 023.
- Wayne L.G. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics / L.G. Wayne, D.J. Brenner, R.R. Colwell et al. II Int. J. Syst. Bacteriol. 1987. — V. 37. — P. 463−464.
- Weinberger M. Plasmid-determined 2-hydroxypyridine utilization by Arthrobacter crystallopoites / M. Weinberger, P.E. Kolenbander // Can. J. Microbiol. 1979. — V.25. — P. 329−334.
- Williams P.A. Metabolism of naphthalene, 2-methylnaphthalene, salicylate, and benzoate by Pseudomonas PG: tangential pathways / P.A. Williams, F.A. Catteral, K. Murray // J. Bacteriol. 1975. — V. 124. — P. 679−685.
- Williams W.A. A phylogenetic analysis of aerobic polychlorinated biphenyl-degrading bacteria / W.A. Williams, J.H. Lobos, W.E. Cheetham // Int. J. Syst. Bacteriol. 1997. — V. 47. — P. 207−210.
- Wittich R.M. Growth of the genetically engineered strain Cupriavidus necator RW112 with chlorobenzoates and technical chlorobiphenyls / R.M. Wittich, P. Wolff//Microbiology.-2007.- V. 153.-P. 186−195.
- Wood T.K. Molecular approaches in bioremediation / T.K. Wood // Curr. Opin. Biotechnol. 2008. — V. 19. — P. 572−578.
- Yamada A. Two nearly identical aromatic compound hydrolase genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1 /
- A. Yamada, H. Kishi, K. Sugiyama et al. II Appl. Environ. Microbiol. 1998. -V. 64. — P. 2006−2012.
- Yanish-Perron C. Improved M13 phage cloning vectors and host strains: nucleotide sequence of the M13, pUC18 and pUC19 vectors / C. Yanish-Perron, J. Vieira, C. Messing // Gene. 1985. — V. 33. — P. 103−119.
- Yang X. Biodegradation of seven polychlorinated biphenyls by a newly isolated aerobic bacterium (Rhodococcus sp. R04) / X. Yang, Y. Sun, S. Qian // J. Ind. Microbiol. Biotechnol. 2004. — V. 31. — P. 415−420.
- Yang X. Characterization and functional analysis of a novel gene cluster involved in biphenyl degradation in Rhodococcus sp. strain R04 / X. Yang, X. Liu, L. Song et al. H J. Appl. Microbiol. 2007. — V. 103. — P. 2214−2224.
- Yang Y. Metabolism of naphthalene, fluorene and phenanthrene: preliminary characterization of a cloned gene cluster from in Pseudomonas putida NCIB9816 / Y. Yang, R.F. Chen, M.P. Shiaris // J. Bacteriol. 1994. — V.176. -P. 2158−2164.
- Yen K.M. Genetic of naphthalene catabolism in pseudomonads. CRC / K.M. Yen, C.M. Sedar // Crit. Rev. Microbiol. 1988. — V. 15. — P. 247−268.
- Yen K.-M., Gunsalus I.C. Plasmid gene organisation: naphthalene/salicylate oxidation. Proc. Natl. Acad. Sei. U.S.A. — 1982. — Y.19. — 874p.
- Yi H.-R. Phylogenetic and phenotypic diversity of 4-chlorobenzoate-degrading bacteria isolated from soils / H.-R. Yi, K.-H. Min, C.-K. Kim, J.-O. Ka // FEMS Microbiol. Ecol. 2000. — V. 31. — P. 53−60.
- Yoon J.-H. Rhodococcus pyridinivorans sp. nov., a pyridine-degrading bacterium / J.-H. Yoon, S.-S. Kang, Y.-G. Cho et al. II Int. J. Syst. Evol. Microbiol. 2000. — V. 50. — P. 2173−2180.
- Yoon Y.-H. Characterization of a new catechol branch of the /?-ketoadipate pathway induced for benzoate degradation in Acinetohacter Iwoffii K24 / Y.-H. Yoon, S.-H. Yun, S.-H. Park et al. H Biochem. Biophys. Res. Commun. 2007. — V. 360. — P. 513−519.
- Yu C.L. Purification, characterization, and crystallization of the components of a biphenyl dioxygenase system from Sphingobium yanoikuyae B1 / C.L. Yu, W. Liu, D.J. Ferraro et al. Il J. Ind. Microbiol. Biotechnol. 2007. — V.34. — P.311−324.
- Zaidi B.R. Factors affecting microbial degradation of polycyclic aromatic hydrocarbon phenanthrene in the Caribbean coastal water / B.R. Zaidi, S.H. Imam // Marine Poll. Bull. 1999. — V. 38. — P. 737−742.
- Zhao B. Biodegradation of phenanthrene by a halophilic bacterial consortium under aerobic conditions / B. Zhao, H. Wang, R. Li, X. Mao, R. Li // Curr. Microbiol. 2009. — V. 58. — P. 205−210.
- Zhilina T.N. Desulfonatronovibrio hydrogenovorans gen. nov., sp. nov., an alkaliphilic, sulfate-reducing bacterium / T.N. Zhilina, G.A. Zavarzin, F.A. Rainey et al. II Int. J. Syst. Bacteriol. 1997. — V. 47. — P. 144−149.
- Zhou N.-Y. nag Genes Ralstonia (formerly Pseudomonas) sp. strain U2 encoding enzymes for gentisate catabolism / N.-Y. Zhou, S.L. Fuenmayor, P.A. Williams II J. Bacteriol. 2001. -V. 183. — P. 700−708.
- Zhou L.H. The purification and characterisation of 4-chlorobenzoate: CoA ligase and 4-chlorobenzoyl CoA dehalogenase from Arthrobacter sp strain TM-1 // L.H. Zhou, T.S. Marks, R.P.C. Poh // Biodegradation. 2004. — V. 15. — P. 97 109.
- Zhou H.W. Genetic diversity of dioxygenase genes in polycyclic aromatic hydrocarbon-degrading bacteria isolated from mangrove sediments / H.W. Zhou, C.L. Guo, Y.S. Wong, N. F. Y. Tam // FEMS Microbiol. Lett. 2006. — V. 262. -P. 148−157.
- Zhou H.W. Polycyclic aromatic hydrocarbon-induced structural shift of bacterial communities in mangrove sediment / H. W. Zhou, A. H. Y. Wong, R. M.
- K. Yu, Y. D. Park, Y. S. Wong, N. F. Y. Tam // Microb. Ecol. 2009. — V. 58. -P. 153−160.
- Zhuang W.-Q. Importance of gram-positive naphthalene-degrading bacteria in oil-contaminated tropical marine sediments / W.-Q. Zhuang, J.-H. Tay, A.M. Maszenan et al. II Lett. Appl. Microbiol. 2003. — V. 36. — P. 251−257.
- Zielinski M. Pinpointing biphenyl dioxygenase residues that are crucial for substrate interaction / M. Zielinski, S. Kahl, HJ. Hecht, B. Hofer // J. Bacteriol. -2003. V.185. — P. 6976−6980.
- Zielinski M. The principal determinants for the structure of the substrate-binding pocket are located within a central core of a biphenyl dioxygenase alpha subunit / M. Zielinski, S. Backhaus, B. Hofer // Microbiology. 2002. — V. 148. -P. 2439−2448.
- Zucolotto V. Catechol biosensing using a nanostructured layer-by-layer film containing Cl-catechol 1,2-dioxygenase / V. Zucolotto, A. P.A. Pinto, T. Tumolo et al. II Biosensors and Bioelectronics. 2006. — V.21. — P. 1320−1326.