Literature DB >> 15812052

Comparative analysis of bacterial diversity in freshwater sediment of a shallow eutrophic lake by molecular and improved cultivation-based techniques.

Hideyuki Tamaki1, Yuji Sekiguchi, Satoshi Hanada, Kazunori Nakamura, Nakao Nomura, Masatoshi Matsumura, Yoichi Kamagata.   

Abstract

Comparative analysis of bacterial diversity in freshwater sediment collected from a shallow eutrophic lake was performed by using 16S rRNA gene clone library and improved cultivation-based techniques. Our study demonstrated that the use of gellan gum as a gelling reagent instead of agar was more effective at increasing culturability, cultivating a diverse array of novel microbes, and reducing the gaps of the results between molecular and cultivation-based analyses.

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Year:  2005        PMID: 15812052      PMCID: PMC1082574          DOI: 10.1128/AEM.71.4.2162-2169.2005

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


  46 in total

1.  Microbial diversity in marine sediments from Sagami Bay and Tokyo Bay, Japan, as determined by 16S rRNA gene analysis.

Authors:  Hidetoshi Urakawa; Kumiko Kita-Tsukamoto; Kouichi Ohwada
Journal:  Microbiology (Reading)       Date:  1999-11       Impact factor: 2.777

2.  Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys.

Authors:  Michelle Sait; Philip Hugenholtz; Peter H Janssen
Journal:  Environ Microbiol       Date:  2002-11       Impact factor: 5.491

3.  Diversity and seasonal variability of beta-Proteobacteria in biofilms of polluted rivers: analysis by temperature gradient gel electrophoresis and cloning.

Authors:  I H M Brümmer; A Felske; I Wagner-Döbler
Journal:  Appl Environ Microbiol       Date:  2003-08       Impact factor: 4.792

4.  Bias and artifacts in multitemplate polymerase chain reactions (PCR).

Authors:  Takahiro Kanagawa
Journal:  J Biosci Bioeng       Date:  2003       Impact factor: 2.894

5.  Bacterioplankton community diversity in a maritime Antarctic lake, determined by culture-dependent and culture-independent techniques.

Authors:  D A Pearce; C J Gast; B Lawley; J C Ellis-Evans
Journal:  FEMS Microbiol Ecol       Date:  2003-07-01       Impact factor: 4.194

Review 6.  Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity.

Authors:  P Hugenholtz; B M Goebel; N R Pace
Journal:  J Bacteriol       Date:  1998-09       Impact factor: 3.490

7.  The neighbor-joining method: a new method for reconstructing phylogenetic trees.

Authors:  N Saitou; M Nei
Journal:  Mol Biol Evol       Date:  1987-07       Impact factor: 16.240

8.  Diversity and seasonal fluctuations of the dominant members of the bacterial soil community in a wheat field as determined by cultivation and molecular methods.

Authors:  E Smit; P Leeflang; S Gommans; J van den Broek; S van Mil; K Wernars
Journal:  Appl Environ Microbiol       Date:  2001-05       Impact factor: 4.792

9.  Rapid Extraction of DNA and rRNA from Sediments by a Novel Hydroxyapatite Spin-Column Method.

Authors:  K J Purdy; T M Embley; S Takii; D B Nedwell
Journal:  Appl Environ Microbiol       Date:  1996-10       Impact factor: 4.792

10.  Analysis of the sulfate-reducing bacterial and methanogenic archaeal populations in contrasting Antarctic sediments.

Authors:  K J Purdy; D B Nedwell; T M Embley
Journal:  Appl Environ Microbiol       Date:  2003-06       Impact factor: 4.792

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  59 in total

1.  Analysis of bacterial community composition of a spring water from the Western Ghats, India using culture dependent and molecular approaches.

Authors:  Arunachalam Ruckmani; Tapan Chakrabarti
Journal:  Curr Microbiol       Date:  2010-05-12       Impact factor: 2.188

Review 2.  Current approaches to exploit actinomycetes as a source of novel natural products.

Authors:  Olga Genilloud; Ignacio González; Oscar Salazar; Jesus Martín; José Rubén Tormo; Francisca Vicente
Journal:  J Ind Microbiol Biotechnol       Date:  2010-10-08       Impact factor: 3.346

3.  Phylogenetic diversity of gram-positive bacteria cultured from marine sediments.

Authors:  Erin A Gontang; William Fenical; Paul R Jensen
Journal:  Appl Environ Microbiol       Date:  2007-03-30       Impact factor: 4.792

4.  Bacterial diversity and distribution in the holocene sediments of a northern temperate lake.

Authors:  David M Nelson; Samuel Ohene-Adjei; Feng Sheng Hu; Isaac K O Cann; Roderick I Mackie
Journal:  Microb Ecol       Date:  2007-03-16       Impact factor: 4.552

5.  Incubation of environmental samples in a diffusion chamber increases the diversity of recovered isolates.

Authors:  Annette Bollmann; Kim Lewis; Slava S Epstein
Journal:  Appl Environ Microbiol       Date:  2007-08-24       Impact factor: 4.792

6.  Characterization of the depth-related changes in the microbial communities in Lake Hovsgol sediment by 16S rRNA gene-based approaches.

Authors:  Young-Do Nam; Youlboong Sung; Ho-Won Chang; Seong Woon Roh; Kyoung-Ho Kim; Sung-Keun Rhee; Jung-Chan Kim; Joo-Yong Kim; Jung-Hoon Yoon; Jin-Woo Bae
Journal:  J Microbiol       Date:  2008-06-11       Impact factor: 3.422

Review 7.  Cultivating the uncultured: limits, advances and future challenges.

Authors:  Karine Alain; Joël Querellou
Journal:  Extremophiles       Date:  2009-06-23       Impact factor: 2.395

8.  Microbial diversity of an anoxic zone of a hydroelectric power station reservoir in Brazilian Amazonia.

Authors:  Diego A Graças; Paulo R Miranda; Rafael A Baraúna; John A McCulloch; Rubens Ghilardi; Maria Paula C Schneider; Artur Silva
Journal:  Microb Ecol       Date:  2011-07-14       Impact factor: 4.552

9.  Unsuspected diversity of arsenite-oxidizing bacteria as revealed by widespread distribution of the aoxB gene in prokaryotes.

Authors:  Audrey Heinrich-Salmeron; Audrey Cordi; Céline Brochier-Armanet; David Halter; Christophe Pagnout; Elham Abbaszadeh-fard; Didier Montaut; Fabienne Seby; Philippe N Bertin; Pascale Bauda; Florence Arsène-Ploetze
Journal:  Appl Environ Microbiol       Date:  2011-05-13       Impact factor: 4.792

10.  Sediment prokaryote communities in different sites of eutrophic Lake Taihu and their interactions with environmental factors.

Authors:  Nan Chen; Jin-Shui Yang; Jiang-Hang Qu; Hai-Feng Li; Wei-Jie Liu; Bao-Zhen Li; En Tao Wang; Hong-Li Yuan
Journal:  World J Microbiol Biotechnol       Date:  2015-03-13       Impact factor: 3.312

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