Literature DB >> 22286992

Phylogenetic clustering of soil microbial communities by 16S rRNA but not 16S rRNA genes.

Kristen M DeAngelis1, Mary K Firestone.   

Abstract

We evaluated phylogenetic clustering of bacterial and archaeal communities from redox-dynamic subtropical forest soils that were defined by 16S rRNA and rRNA gene sequences. We observed significant clustering for the RNA-based communities but not the DNA-based communities, as well as increasing clustering over time of the highly active taxa detected by only rRNA.

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Year:  2012        PMID： 22286992      PMCID： PMC3302588          DOI： 10.1128/AEM.07547-11

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


  20 in total

1.  Microbial communities acclimate to recurring changes in soil redox potential status.

Authors:  Kristen M DeAngelis; Whendee L Silver; Andrew W Thompson; Mary K Firestone
Journal:  Environ Microbiol       Date:  2010-12       Impact factor: 5.491

2.  Extracellular DNA in single- and multiple-species unsaturated biofilms.

Authors:  R E Steinberger; P A Holden
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3.  Life history implications of rRNA gene copy number in Escherichia coli.

Authors:  Bradley S Stevenson; Thomas M Schmidt
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Review 4.  The merging of community ecology and phylogenetic biology.

Authors:  Jeannine Cavender-Bares; Kenneth H Kozak; Paul V A Fine; Steven W Kembel
Journal:  Ecol Lett       Date:  2009-05-18       Impact factor: 9.492

Review 5.  Emerging patterns in the comparative analysis of phylogenetic community structure.

Authors:  S M Vamosi; S B Heard; J C Vamosi; C O Webb
Journal:  Mol Ecol       Date:  2008-11-24       Impact factor: 6.185

6.  Colloquium paper: microbes on mountainsides: contrasting elevational patterns of bacterial and plant diversity.

Authors:  Jessica A Bryant; Christine Lamanna; Hélène Morlon; Andrew J Kerkhoff; Brian J Enquist; Jessica L Green
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-11       Impact factor: 11.205

7.  Use of rRNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms.

Authors:  L K Poulsen; G Ballard; D A Stahl
Journal:  Appl Environ Microbiol       Date:  1993-05       Impact factor: 4.792

8.  Bias in template-to-product ratios in multitemplate PCR.

Authors:  M F Polz; C M Cavanaugh
Journal:  Appl Environ Microbiol       Date:  1998-10       Impact factor: 4.792

Review 9.  Microbial seed banks: the ecological and evolutionary implications of dormancy.

Authors:  Jay T Lennon; Stuart E Jones
Journal:  Nat Rev Microbiol       Date:  2011-02       Impact factor: 60.633

10.  Synoptic determination of living/dead and active/dormant bacterial fractions in marine sediments.

Authors:  E Manini; R Danovaro
Journal:  FEMS Microbiol Ecol       Date:  2006-03       Impact factor: 4.194
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  11 in total

1.  Assembly of Active Bacterial and Fungal Communities Along a Natural Environmental Gradient.

Authors:  Rebecca C Mueller; Laverne Gallegos-Graves; Donald R Zak; Cheryl R Kuske
Journal:  Microb Ecol       Date:  2015-08-18       Impact factor: 4.552

Review 2.  Patterns and processes of microbial community assembly.

Authors:  Diana R Nemergut; Steven K Schmidt; Tadashi Fukami; Sean P O'Neill; Teresa M Bilinski; Lee F Stanish; Joseph E Knelman; John L Darcy; Ryan C Lynch; Phillip Wickey; Scott Ferrenberg
Journal:  Microbiol Mol Biol Rev       Date:  2013-09       Impact factor: 11.056

3.  Soil microbe active community composition and capability of responding to litter addition after 12 years of no inputs.

Authors:  Stephanie Yarwood; Elizabeth Brewer; Rockie Yarwood; Kate Lajtha; David Myrold
Journal:  Appl Environ Microbiol       Date:  2012-12-21       Impact factor: 4.792

4.  Organelle 16S rRNA amplicon sequencing enables profiling of active gut microbiota in murine model.

Authors:  Dong Han; Hongmin Zhen; Xiaoyan Liu; Justyna Zulewska; Zhennai Yang
Journal:  Appl Microbiol Biotechnol       Date:  2022-07-28       Impact factor: 5.560

5.  Soil microbial community structure is unaltered by plant invasion, vegetation clipping, and nitrogen fertilization in experimental semi-arid grasslands.

Authors:  Chelsea J Carey; J Michael Beman; Valerie T Eviner; Carolyn M Malmstrom; Stephen C Hart
Journal:  Front Microbiol       Date:  2015-05-20       Impact factor: 5.640

6.  Differential assemblage of functional units in paddy soil microbiomes.

Authors:  Yongkyu Kim; Werner Liesack
Journal:  PLoS One       Date:  2015-04-21       Impact factor: 3.240

7.  A low proportion of rare bacterial taxa responds to abiotic changes compared with dominant taxa.

Authors:  Viola Kurm; Stefan Geisen; Wilhelmina H Gera Hol
Journal:  Environ Microbiol       Date:  2018-12-19       Impact factor: 5.491

8.  Metabarcoding reveals that rhizospheric microbiota of Quercus pyrenaica is composed by a relatively small number of bacterial taxa highly abundant.

Authors:  Ana V Lasa; Antonio J Fernández-González; Pablo J Villadas; Nicolás Toro; Manuel Fernández-López
Journal:  Sci Rep       Date:  2019-02-08       Impact factor: 4.379

9.  Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning.

Authors:  Kai Xue; Jianping Xie; Aifen Zhou; Feifei Liu; Dejun Li; Liyou Wu; Ye Deng; Zhili He; Joy D Van Nostrand; Yiqi Luo; Jizhong Zhou
Journal:  Front Microbiol       Date:  2016-05-06       Impact factor: 5.640

10.  Specialized Microbiome of a Halophyte and its Role in Helping Non-Host Plants to Withstand Salinity.

Authors:  Zhilin Yuan; Irina S Druzhinina; Jessy Labbé; Regina Redman; Yuan Qin; Russell Rodriguez; Chulong Zhang; Gerald A Tuskan; Fucheng Lin
Journal:  Sci Rep       Date:  2016-08-30       Impact factor: 4.379
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