Literature DB >> 18984052

New tools for discovering and characterizing microbial diversity.

Erick Cardenas1, James M Tiedje.   

Abstract

To discover and characterize microbial diversity, approaches based on new sequencing technologies, novel isolation techniques, microfluidics, and metagenomics among others are being used. These approaches have contributed to discovery of novel genes from environmental samples, to massive characterization of functional and phylogenetic genes and to isolation of members of formerly uncultured yet ubiquitous groups like Verrucomicrobia, Acidobacteria, OP10, and methanogenic Archaea. Cheaper sequencing is key in this process by making available applications that were previously restricted to big research centers, complementing previously available methodologies and potentially replacing some of them. The new tools are reshaping the way we study the environment, increasing the resolution at which microbial communities, their complexities and dynamics, can be studied to reveal their genetic potential and their functional diversity.

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Year:  2008        PMID: 18984052     DOI: 10.1016/j.copbio.2008.10.010

Source DB:  PubMed          Journal:  Curr Opin Biotechnol        ISSN: 0958-1669            Impact factor:   9.740


  33 in total

1.  Metagenomics: Facts and Artifacts, and Computational Challenges*

Authors:  John C Wooley; Yuzhen Ye
Journal:  J Comput Sci Technol       Date:  2009-01       Impact factor: 1.571

2.  High-Throughput Single-Cell Cultivation on Microfluidic Streak Plates.

Authors:  Cheng-Ying Jiang; Libing Dong; Jian-Kang Zhao; Xiaofang Hu; Chaohua Shen; Yuxin Qiao; Xinyue Zhang; Yapei Wang; Rustem F Ismagilov; Shuang-Jiang Liu; Wenbin Du
Journal:  Appl Environ Microbiol       Date:  2016-02-05       Impact factor: 4.792

3.  Bacterial community structure in treated sewage sludge with mesophilic and thermophilic anaerobic digestion.

Authors:  Hana Stiborova; Jan Wolfram; Katerina Demnerova; Tomas Macek; Ondrej Uhlik
Journal:  Folia Microbiol (Praha)       Date:  2015-04-30       Impact factor: 2.099

4.  Bacterial Diversity in Bentonites, Engineered Barrier for Deep Geological Disposal of Radioactive Wastes.

Authors:  Margarita Lopez-Fernandez; Andrea Cherkouk; Ramiro Vilchez-Vargas; Ruy Jauregui; Dietmar Pieper; Nico Boon; Ivan Sanchez-Castro; Mohamed L Merroun
Journal:  Microb Ecol       Date:  2015-05-30       Impact factor: 4.552

5.  Bacterial diversity analysis of Zhenjiang Yao meat during refrigerated and vacuum-packed storage by 454 pyrosequencing.

Authors:  Xiang Xiao; Ying Dong; Ying Zhu; Henglin Cui
Journal:  Curr Microbiol       Date:  2012-12-21       Impact factor: 2.188

6.  Comparative analysis of the intestinal bacterial communities in different species of carp by pyrosequencing.

Authors:  Tongtong Li; Meng Long; François-Joël Gatesoupe; Qianqian Zhang; Aihua Li; Xiaoning Gong
Journal:  Microb Ecol       Date:  2014-08-22       Impact factor: 4.552

7.  Generation of acid mine drainage around the Karaerik copper mine (Espiye, Giresun, NE Turkey): implications from the bacterial population in the Acısu effluent.

Authors:  Emine Selva Sağlam; Miğraç Akçay; Dilşat Nigar Çolak; Kadriye İnan Bektaş; Ali Osman Beldüz
Journal:  Extremophiles       Date:  2016-06-23       Impact factor: 2.395

8.  Rapid bacteria identification from environmental mining samples using MALDI-TOF MS analysis.

Authors:  Ingrid Regina Avanzi; Louise Hase Gracioso; Marcela Dos Passos Galluzzi Baltazar; Bruno Karolski; Elen Aquino Perpetuo; Claudio Augusto Oller do Nascimento
Journal:  Environ Sci Pollut Res Int       Date:  2016-11-25       Impact factor: 4.223

9.  Characterization of coastal urban watershed bacterial communities leads to alternative community-based indicators.

Authors:  Cindy H Wu; Bram Sercu; Laurie C Van de Werfhorst; Jakk Wong; Todd Z DeSantis; Eoin L Brodie; Terry C Hazen; Patricia A Holden; Gary L Andersen
Journal:  PLoS One       Date:  2010-06-23       Impact factor: 3.240

10.  High-resolution mapping of evolutionary trajectories in a phage.

Authors:  Benjamin Dickins; Anton Nekrutenko
Journal:  Genome Biol Evol       Date:  2009-08-11       Impact factor: 3.416

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