Literature DB >> 16260297

Nucleic acid recovery from complex environmental samples.

Kevin J Purdy1.   

Abstract

Effective extraction of nucleic acid from environmental samples is an essential starting point in the molecular analysis of microbial communities in the environment. However, there are many different extraction methods in the literature and deciding which one is best suited to a particular sample is very difficult. This article details the important steps and choices in deciding how to extract nucleic acids from environmental samples and gives specific details of one method that has proven very successful at extracting DNA and RNA from a range of different samples.

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Year:  2005        PMID: 16260297     DOI: 10.1016/S0076-6879(05)97016-X

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN: 0076-6879            Impact factor:   1.600


  12 in total

1.  Contrasting patterns of niche partitioning between two anaerobic terminal oxidizers of organic matter.

Authors:  Brian B Oakley; Franck Carbonero; Scot E Dowd; Robert J Hawkins; Kevin J Purdy
Journal:  ISME J       Date:  2011-11-24       Impact factor: 10.302

2.  Genotypic distribution of a specialist model microorganism, Methanosaeta, along an estuarine gradient: does metabolic restriction limit niche differentiation potential?

Authors:  Franck Carbonero; Brian B Oakley; Robert J Hawkins; Kevin J Purdy
Journal:  Microb Ecol       Date:  2011-12-20       Impact factor: 4.552

3.  Protein-based stable isotope probing.

Authors:  Nico Jehmlich; Frank Schmidt; Martin Taubert; Jana Seifert; Felipe Bastida; Martin von Bergen; Hans-Hermann Richnow; Carsten Vogt
Journal:  Nat Protoc       Date:  2010-11-18       Impact factor: 13.491

4.  Differences in composition of interdigital skin microbiota predict sheep and feet that develop footrot.

Authors:  Rachel Clifton; Emma M Monaghan; Martin J Green; Kevin J Purdy; Laura E Green
Journal:  Sci Rep       Date:  2022-05-27       Impact factor: 4.996

5.  Lysis efficiency of standard DNA extraction methods for Halococcus spp. in an organic rich environment.

Authors:  S Leuko; F Goh; R Ibáñez-Peral; B P Burns; M R Walter; B A Neilan
Journal:  Extremophiles       Date:  2007-12-18       Impact factor: 2.395

6.  Nutrient Stoichiometry Shapes Microbial Community Structure in an Evaporitic Shallow Pond.

Authors:  Zarraz M-P Lee; Amisha T Poret-Peterson; Janet L Siefert; Drishti Kaul; Ahmed Moustafa; Andrew E Allen; Chris L Dupont; Luis E Eguiarte; Valeria Souza; James J Elser
Journal:  Front Microbiol       Date:  2017-05-30       Impact factor: 5.640

7.  Understanding the Mechanisms Behind the Response to Environmental Perturbation in Microbial Mats: A Metagenomic-Network Based Approach.

Authors:  Valerie De Anda; Icoquih Zapata-Peñasco; Jazmín Blaz; Augusto Cesar Poot-Hernández; Bruno Contreras-Moreira; Marcos González-Laffitte; Niza Gámez-Tamariz; Maribel Hernández-Rosales; Luis E Eguiarte; Valeria Souza
Journal:  Front Microbiol       Date:  2018-11-28       Impact factor: 5.640

8.  Characterization of extracellular polymeric matrix, and treatment of Fusobacterium nucleatum and Porphyromonas gingivalis biofilms with DNase I and proteinase K.

Authors:  Marwan Mansoor Ali Mohammed; Audun H Nerland; Mohammed Al-Haroni; Vidar Bakken
Journal:  J Oral Microbiol       Date:  2013-01-29       Impact factor: 5.474

9.  Metabolic flexibility as a major predictor of spatial distribution in microbial communities.

Authors:  Franck Carbonero; Brian B Oakley; Kevin J Purdy
Journal:  PLoS One       Date:  2014-01-21       Impact factor: 3.240

10.  Nutrient cycling potential within microbial communities on culturally important stoneworks.

Authors:  Elisabetta Zanardini; Eric May; Kevin J Purdy; J Colin Murrell
Journal:  Environ Microbiol Rep       Date:  2018-12-25       Impact factor: 3.541

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