Literature DB >> 19749066

Statistical assessment of variability of terminal restriction fragment length polymorphism analysis applied to complex microbial communities.

Pierre Rossi1, François Gillet, Emmanuelle Rohrbach, Nouhou Diaby, Christof Holliger.   

Abstract

The variability of terminal restriction fragment polymorphism analysis applied to complex microbial communities was assessed statistically. Recent technological improvements were implemented in the successive steps of the procedure, resulting in a standardized procedure which provided a high level of reproducibility.

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Year:  2009        PMID： 19749066      PMCID： PMC2786532          DOI： 10.1128/AEM.00135-09

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


  22 in total

1.  Variation between observed and true Terminal Restriction Fragment length is dependent on true TRF length and purine content.

Authors:  Christopher W Kaplan; Christopher L Kitts
Journal:  J Microbiol Methods       Date:  2003-07       Impact factor: 2.363

2.  Terminal restriction fragment length polymorphism data analysis for quantitative comparison of microbial communities.

Authors:  Christopher B Blackwood; Terry Marsh; Sang-Hoon Kim; Eldor A Paul
Journal:  Appl Environ Microbiol       Date:  2003-02       Impact factor: 4.792

3.  Fidelity of select restriction endonucleases in determining microbial diversity by terminal-restriction fragment length polymorphism.

Authors:  Jeff J Engebretson; Craig L Moyer
Journal:  Appl Environ Microbiol       Date:  2003-08       Impact factor: 4.792

4.  Terminal restriction fragment length polymorphism data analysis.

Authors:  Alastair Grant; Lesley A Ogilvie
Journal:  Appl Environ Microbiol       Date:  2003-10       Impact factor: 4.792

5.  PCR-generated artefact from 16S rRNA gene-specific primers.

Authors:  Catherine A Osborne; Maja Galic; Parveen Sangwan; Peter H Janssen
Journal:  FEMS Microbiol Lett       Date:  2005-07-15       Impact factor: 2.742

6.  DNA extraction procedure: a critical issue for bacterial diversity assessment in marine sediments.

Authors:  Gian Marco Luna; A Dell'Anno; R Danovaro
Journal:  Environ Microbiol       Date:  2006-02       Impact factor: 5.491

7.  New threshold and confidence estimates for terminal restriction fragment length polymorphism analysis of complex bacterial communities.

Authors:  Catherine A Osborne; Gavin N Rees; Yaniv Bernstein; Peter H Janssen
Journal:  Appl Environ Microbiol       Date:  2006-02       Impact factor: 4.792

Review 8.  Advances in the use of terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes to characterize microbial communities.

Authors:  Ursel M E Schütte; Zaid Abdo; Stephen J Bent; Conrad Shyu; Christopher J Williams; Jacob D Pierson; Larry J Forney
Journal:  Appl Microbiol Biotechnol       Date:  2008-07-22       Impact factor: 4.813

9.  Evaluation of PCR-generated chimeras, mutations, and heteroduplexes with 16S rRNA gene-based cloning.

Authors:  X Qiu; L Wu; H Huang; P E McDonel; A V Palumbo; J M Tiedje; J Zhou
Journal:  Appl Environ Microbiol       Date:  2001-02       Impact factor: 4.792

10.  Formation of pseudo-terminal restriction fragments, a PCR-related bias affecting terminal restriction fragment length polymorphism analysis of microbial community structure.

Authors:  Markus Egert; Michael W Friedrich
Journal:  Appl Environ Microbiol       Date:  2003-05       Impact factor: 4.792
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  8 in total

1.  Functional genotyping of Sulfurospirillum spp. in mixed cultures allowed the identification of a new tetrachloroethene reductive dehalogenase.

Authors:  Géraldine F Buttet; Christof Holliger; Julien Maillard
Journal:  Appl Environ Microbiol       Date:  2013-08-30       Impact factor: 4.792

2.  Monthly to interannual variability of microbial eukaryote assemblages at four depths in the eastern North Pacific.

Authors:  Diane Y Kim; Peter D Countway; Adriane C Jones; Astrid Schnetzer; Warren Yamashita; Christine Tung; David A Caron
Journal:  ISME J       Date:  2013-10-31       Impact factor: 10.302

3.  An improved sequence-aided T-RFLP analysis of bacterial succession during oyster mushroom substrate preparation.

Authors:  Balázs Vajna; Dániel Szili; Adrienn Nagy; Károly Márialigeti
Journal:  Microb Ecol       Date:  2012-05-22       Impact factor: 4.552

4.  Use of silicate minerals for pH control during reductive dechlorination of chloroethenes in batch cultures of different microbial consortia.

Authors:  Elsa Lacroix; Alessandro Brovelli; D A Barry; Christof Holliger
Journal:  Appl Environ Microbiol       Date:  2014-04-18       Impact factor: 4.792

5.  Bacterial Selection during the Formation of Early-Stage Aerobic Granules in Wastewater Treatment Systems Operated Under Wash-Out Dynamics.

Authors:  David G Weissbrodt; Samuel Lochmatter; Sirous Ebrahimi; Pierre Rossi; Julien Maillard; Christof Holliger
Journal:  Front Microbiol       Date:  2012-09-13       Impact factor: 5.640

6.  PyroTRF-ID: a novel bioinformatics methodology for the affiliation of terminal-restriction fragments using 16S rRNA gene pyrosequencing data.

Authors:  David G Weissbrodt; Noam Shani; Lucas Sinclair; Grégory Lefebvre; Pierre Rossi; Julien Maillard; Jacques Rougemont; Christof Holliger
Journal:  BMC Microbiol       Date:  2012-12-27       Impact factor: 3.605

7.  Ecology and biogeography of bacterial communities associated with chloroethene-contaminated aquifers.

Authors:  Pierre Rossi; Noam Shani; Florian Kohler; Gwenaël Imfeld; Christof Holliger
Journal:  Front Microbiol       Date:  2012-07-23       Impact factor: 5.640

8.  Key factors controlling microbial distribution on a DNAPL source area.

Authors:  Jofre Herrero; Diana Puigserver; Ivonne Nijenhuis; Kevin Kuntze; José M Carmona
Journal:  Environ Sci Pollut Res Int       Date:  2021-08-05       Impact factor: 4.223
  8 in total

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