Literature DB >> 21764977

Potential of pmoA amplicon pyrosequencing for methanotroph diversity studies.

Claudia Lüke1, Peter Frenzel.   

Abstract

We analyzed the potential of pmoA amplicon pyrosequencing compared to that of Sanger sequencing with paddy soils as a model environment. We defined operational taxonomic unit (OTU) cutoff values of 7% and 18%, reflecting methanotrophic species and major phylogenetic pmoA lineages, respectively. Major lineages were already well covered by clone libraries; nevertheless, pyrosequencing provided a higher level of diversity at the species level.

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Year:  2011        PMID： 21764977      PMCID： PMC3165393          DOI： 10.1128/AEM.05355-11

Source DB:  PubMed          Journal:  Appl Environ Microbiol        ISSN： 0099-2240            Impact factor:   4.792


  22 in total

1.  Molecular diversity of methanotrophs in Transbaikal soda lake sediments and identification of potentially active populations by stable isotope probing.

Authors:  Ju-Ling Lin; Stefan Radajewski; Bulat T Eshinimaev; Yuri A Trotsenko; Ian R McDonald; J Colin Murrell
Journal:  Environ Microbiol       Date:  2004-10       Impact factor: 5.491

2.  Methyloferula stellata gen. nov., sp. nov., an acidophilic, obligately methanotrophic bacterium that possesses only a soluble methane monooxygenase.

Authors:  Alexey V Vorobev; Mohamed Baani; Nina V Doronina; Allyson L Brady; Werner Liesack; Peter F Dunfield; Svetlana N Dedysh
Journal:  Int J Syst Evol Microbiol       Date:  2010-11-19       Impact factor: 2.747

3.  Environmental, genomic and taxonomic perspectives on methanotrophic Verrucomicrobia.

Authors:  Huub J M Op den Camp; Tajul Islam; Matthew B Stott; Harry R Harhangi; Alexander Hynes; Stefan Schouten; Mike S M Jetten; Nils-Kåre Birkeland; Arjan Pol; Peter F Dunfield
Journal:  Environ Microbiol Rep       Date:  2009-03-03       Impact factor: 3.541

4.  Accurate determination of microbial diversity from 454 pyrosequencing data.

Authors:  Christopher Quince; Anders Lanzén; Thomas P Curtis; Russell J Davenport; Neil Hall; Ian M Head; L Fiona Read; William T Sloan
Journal:  Nat Methods       Date:  2009-08-09       Impact factor: 28.547

5.  Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related.

Authors:  A J Holmes; A Costello; M E Lidstrom; J C Murrell
Journal:  FEMS Microbiol Lett       Date:  1995-10-15       Impact factor: 2.742

6.  Depicting more accurate pictures of protistan community complexity using pyrosequencing of hypervariable SSU rRNA gene regions.

Authors:  Anke Behnke; Matthias Engel; Richard Christen; Markus Nebel; Rolf R Klein; Thorsten Stoeck
Journal:  Environ Microbiol       Date:  2010-09-08       Impact factor: 5.491

7.  Methylocella palustris gen. nov., sp. nov., a new methane-oxidizing acidophilic bacterium from peat bogs, representing a novel subtype of serine-pathway methanotrophs.

Authors:  S N Dedysh; W Liesack; V N Khmelenina; N E Suzina; Y A Trotsenko; J D Semrau; A M Bares; N S Panikov; J M Tiedje
Journal:  Int J Syst Evol Microbiol       Date:  2000-05       Impact factor: 2.747

8.  Biogeography of wetland rice methanotrophs.

Authors:  Claudia Lüke; Sascha Krause; Stefano Cavigiolo; Diego Greppi; Elisabetta Lupotto; Peter Frenzel
Journal:  Environ Microbiol       Date:  2009-12-27       Impact factor: 5.491

9.  Ironing out the wrinkles in the rare biosphere through improved OTU clustering.

Authors:  Susan M Huse; David Mark Welch; Hilary G Morrison; Mitchell L Sogin
Journal:  Environ Microbiol       Date:  2010-03-11       Impact factor: 5.491

10.  A novel family of functional operons encoding methane/ammonia monooxygenase-related proteins in gammaproteobacterial methanotrophs.

Authors:  Patricia L Tavormina; Victoria J Orphan; Marina G Kalyuzhnaya; Mike S M Jetten; Martin G Klotz
Journal:  Environ Microbiol Rep       Date:  2011-02       Impact factor: 3.541
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  42 in total

1.  Dry/Wet cycles change the activity and population dynamics of methanotrophs in rice field soil.

Authors:  Ke Ma; Ralf Conrad; Yahai Lu
Journal:  Appl Environ Microbiol       Date:  2013-06-14       Impact factor: 4.792

2.  Microbial minorities modulate methane consumption through niche partitioning.

Authors:  Paul L E Bodelier; Marion Meima-Franke; Cornelis A Hordijk; Anne K Steenbergh; Mariet M Hefting; Levente Bodrossy; Martin von Bergen; Jana Seifert
Journal:  ISME J       Date:  2013-06-20       Impact factor: 10.302

3.  Gammaproteobacterial methanotrophs dominate cold methane seeps in floodplains of West Siberian rivers.

Authors:  Igor Y Oshkin; Carl-Eric Wegner; Claudia Lüke; Mikhail V Glagolev; Illiya V Filippov; Nikolay V Pimenov; Werner Liesack; Svetlana N Dedysh
Journal:  Appl Environ Microbiol       Date:  2014-07-25       Impact factor: 4.792

4.  Methylococcaceae are the dominant active aerobic methanotrophs in a Chinese tidal marsh.

Authors:  Yongcui Deng; Qian Gui; Marc Dumont; Cheng Han; Huan Deng; Juanli Yun; Wenhui Zhong
Journal:  Environ Sci Pollut Res Int       Date:  2018-11-08       Impact factor: 4.223

5.  Methyl coenzyme M reductase A (mcrA) gene-based investigation of methanogens in the mudflat sediments of Yangtze River estuary, China.

Authors:  Jemaneh Zeleke; Shui-Long Lu; Jian-Gong Wang; Jing-Xin Huang; Bo Li; Andrew V Ogram; Zhe-Xue Quan
Journal:  Microb Ecol       Date:  2013-01-11       Impact factor: 4.552

6.  Revisiting methanotrophic communities in sewage treatment plants.

Authors:  Adrian Ho; Siegfried E Vlaeminck; Katharina F Ettwig; Bellinda Schneider; Peter Frenzel; Nico Boon
Journal:  Appl Environ Microbiol       Date:  2013-02-15       Impact factor: 4.792

7.  Changes in methane oxidation activity and methanotrophic community composition in saline alkaline soils.

Authors:  Nancy Serrano-Silva; César Valenzuela-Encinas; Rodolfo Marsch; Luc Dendooven; Rocio J Alcántara-Hernández
Journal:  Extremophiles       Date:  2014-03-18       Impact factor: 2.395

8.  Bacterial community structure in two permafrost wetlands on the Tibetan Plateau and Sanjiang Plain, China.

Authors:  Juanli Yun; Yiwen Ju; Yongcui Deng; Hongxun Zhang
Journal:  Microb Ecol       Date:  2014-04-10       Impact factor: 4.552

9.  Anaerobic oxidization of methane in a minerotrophic peatland: enrichment of nitrite-dependent methane-oxidizing bacteria.

Authors:  Baoli Zhu; Gijs van Dijk; Christian Fritz; Alfons J P Smolders; Arjan Pol; Mike S M Jetten; Katharina F Ettwig
Journal:  Appl Environ Microbiol       Date:  2012-10-05       Impact factor: 4.792

10.  Functional gene analysis of freshwater iron-rich flocs at circumneutral pH and isolation of a stalk-forming microaerophilic iron-oxidizing bacterium.

Authors:  Shingo Kato; Clara Chan; Takashi Itoh; Moriya Ohkuma
Journal:  Appl Environ Microbiol       Date:  2013-06-28       Impact factor: 4.792
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