Literature DB >> 22926501

Prokaryotic communities differ along a geothermal soil photic gradient.

James F Meadow1, Catherine A Zabinski.   

Abstract

Geothermal influenced soils exert unique physical and chemical limitations on resident microbial communities but have received little attention in microbial ecology research. These environments offer a model system in which to investigate microbial community heterogeneity and a range of soil ecological concepts. We conducted a 16S bar-coded pyrosequencing survey of the prokaryotic communities in a diatomaceous geothermal soil system and compared communities across soil types and along a conspicuous photic depth gradient. We found significant differences between the communities of the two different soils and also predictable differences between samples taken at different depths. Additionally, we targeted three ecologically relevant bacterial phyla, Cyanobacteria, Planctomycetes, and Verrucomicrobia, for clade-wise comparisons with these variables and found strong differences in their abundances, consistent with the autecology of these groups.

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Year:  2012        PMID: 22926501     DOI: 10.1007/s00248-012-0103-1

Source DB:  PubMed          Journal:  Microb Ecol        ISSN: 0095-3628            Impact factor:   4.552


  19 in total

1.  The diversity and biogeography of soil bacterial communities.

Authors:  Noah Fierer; Robert B Jackson
Journal:  Proc Natl Acad Sci U S A       Date:  2006-01-09       Impact factor: 11.205

2.  Phylogenetic clustering and overdispersion in bacterial communities.

Authors:  M Claire Horner-Devine; Brendan J M Bohannan
Journal:  Ecology       Date:  2006-07       Impact factor: 5.499

3.  Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale.

Authors:  Christian L Lauber; Micah Hamady; Rob Knight; Noah Fierer
Journal:  Appl Environ Microbiol       Date:  2009-06-05       Impact factor: 4.792

4.  Spatial heterogeneity of eukaryotic microbial communities in an unstudied geothermal diatomaceous biological soil crust: Yellowstone National Park, WY, USA.

Authors:  James F Meadow; Catherine A Zabinski
Journal:  FEMS Microbiol Ecol       Date:  2012-06-27       Impact factor: 4.194

5.  MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.

Authors:  Koichiro Tamura; Daniel Peterson; Nicholas Peterson; Glen Stecher; Masatoshi Nei; Sudhir Kumar
Journal:  Mol Biol Evol       Date:  2011-05-04       Impact factor: 16.240

Review 6.  The generation and maintenance of diversity in microbial communities.

Authors:  Noah Fierer; Jay T Lennon
Journal:  Am J Bot       Date:  2011-02-17       Impact factor: 3.844

7.  PyNAST: a flexible tool for aligning sequences to a template alignment.

Authors:  J Gregory Caporaso; Kyle Bittinger; Frederic D Bushman; Todd Z DeSantis; Gary L Andersen; Rob Knight
Journal:  Bioinformatics       Date:  2009-11-13       Impact factor: 6.937

8.  Microbial community resemblance methods differ in their ability to detect biologically relevant patterns.

Authors:  Justin Kuczynski; Zongzhi Liu; Catherine Lozupone; Daniel McDonald; Noah Fierer; Rob Knight
Journal:  Nat Methods       Date:  2010-09-05       Impact factor: 28.547

9.  QIIME allows analysis of high-throughput community sequencing data.

Authors:  J Gregory Caporaso; Justin Kuczynski; Jesse Stombaugh; Kyle Bittinger; Frederic D Bushman; Elizabeth K Costello; Noah Fierer; Antonio Gonzalez Peña; Julia K Goodrich; Jeffrey I Gordon; Gavin A Huttley; Scott T Kelley; Dan Knights; Jeremy E Koenig; Ruth E Ley; Catherine A Lozupone; Daniel McDonald; Brian D Muegge; Meg Pirrung; Jens Reeder; Joel R Sevinsky; Peter J Turnbaugh; William A Walters; Jeremy Widmann; Tanya Yatsunenko; Jesse Zaneveld; Rob Knight
Journal:  Nat Methods       Date:  2010-04-11       Impact factor: 28.547

10.  Short pyrosequencing reads suffice for accurate microbial community analysis.

Authors:  Zongzhi Liu; Catherine Lozupone; Micah Hamady; Frederic D Bushman; Rob Knight
Journal:  Nucleic Acids Res       Date:  2007-09-18       Impact factor: 16.971

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