Literature DB >> 22923120

Evaluation of a fosmid-clone-based microarray for comparative analysis of swine fecal metagenomes.

Soo-Je Park1, Dong-Hwan Kim, Man-Young Jung, So-Jeong Kim, Hongik Kim, Yang-Hoon Kim, Jong-Chan Chae, Sung-Keun Rhee.   

Abstract

Glass slide arrayed with fosmid clone DNAs generated from swine feces as probes were fabricated and used as a metagenome microarray (MGA). MGA appeared to be specific to their corresponding target genomic fragments. The detection limit was 10 ng of genomic DNA (ca. 10(6) bacterial cells) in the presence of 1000 ng of background DNA. Linear relationships between the signal intensity and the target DNA (20-100 ng) were observed (r ( 2 )=0.98). Application of MGA to the comparison of swine fecal metagenomes suggested that the microbial community composition of swine intestine could be dependent on the health state of swine.

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Year:  2012        PMID： 22923120     DOI： 10.1007/s12275-012-2115-4

Source DB:  PubMed          Journal:  J Microbiol        ISSN： 1225-8873            Impact factor:   3.422


  29 in total

1.  Development and evaluation of functional gene arrays for detection of selected genes in the environment.

Authors:  L Wu; D K Thompson; G Li; R A Hurt; J M Tiedje; J Zhou
Journal:  Appl Environ Microbiol       Date:  2001-12       Impact factor: 4.792

Review 2.  Microarrays for bacterial detection and microbial community analysis.

Authors:  Jizhong Zhou
Journal:  Curr Opin Microbiol       Date:  2003-06       Impact factor: 7.934

Review 3.  Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes.

Authors:  Michael Wagner; Matthias Horn; Holger Daims
Journal:  Curr Opin Microbiol       Date:  2003-06       Impact factor: 7.934

4.  First insight into the genome of an uncultivated crenarchaeote from soil.

Authors:  Achim Quaiser; Torsten Ochsenreiter; Hans-Peter Klenk; Arnulf Kletzin; Alexander H Treusch; Guido Meurer; Jürgen Eck; Christoph W Sensen; Christa Schleper
Journal:  Environ Microbiol       Date:  2002-10       Impact factor: 5.491

Review 5.  Phylogenetic identification and in situ detection of individual microbial cells without cultivation.

Authors:  R I Amann; W Ludwig; K H Schleifer
Journal:  Microbiol Rev       Date:  1995-03

6.  Optimization strategies for DNA microarray-based detection of bacteria with 16S rRNA-targeting oligonucleotide probes.

Authors:  Jörg Peplies; Frank Oliver Glöckner; Rudolf Amann
Journal:  Appl Environ Microbiol       Date:  2003-03       Impact factor: 4.792

7.  Cell-free cloning using phi29 DNA polymerase.

Authors:  Clyde A Hutchison; Hamilton O Smith; Cynthia Pfannkoch; J Craig Venter
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-14       Impact factor: 11.205

8.  Customized cDNA microarray for expression profiling of environmentally important genes of Pseudomonas stutzeri strain KC.

Authors:  Javed Musarrat; Syed A Hashsham
Journal:  Teratog Carcinog Mutagen       Date:  2003

9.  Detection of genes involved in biodegradation and biotransformation in microbial communities by using 50-mer oligonucleotide microarrays.

Authors:  Sung-Keun Rhee; Xueduan Liu; Liyou Wu; Song C Chong; Xiufeng Wan; Jizhong Zhou
Journal:  Appl Environ Microbiol       Date:  2004-07       Impact factor: 4.792

10.  Development of microbial genome-probing microarrays using digital multiple displacement amplification of uncultivated microbial single cells.

Authors:  Ho-Won Chang; Youlboong Sung; Kyoung-Ho Kim; Young-Do Nam; Seong Woon Roh; Min-Soo Kim; Che Ok Jeon; Jin-Woo Bae
Journal:  Environ Sci Technol       Date:  2008-08-15       Impact factor: 9.028
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