Literature DB >> 20435766

Improvement of the representation of bifidobacteria in fecal microbiota metagenomic libraries by application of the cpn60 universal primer cocktail.

Janet E Hill1, W M Ursla Fernando, Gordon A Zello, Robert T Tyler, Wendy J Dahl, Andrew G Van Kessel.   

Abstract

Actinobacteria, particularly bifidobacteria, are widely observed to be underrepresented in metagenomic studies of microbial communities. We have compared human fecal microbiota clone libraries based on 16S rRNA and cpn60 PCR products. Taxonomic profiles were similar except that the cpn60 libraries contained large numbers of bifidobacterial sequences.

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Year:  2010        PMID： 20435766      PMCID： PMC2897446          DOI： 10.1128/AEM.01510-09

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


  34 in total

1.  Extensive profiling of a complex microbial community by high-throughput sequencing.

Authors:  Janet E Hill; Robyn P Seipp; Martin Betts; Lindsay Hawkins; Andrew G Van Kessel; William L Crosby; Sean M Hemmingsen
Journal:  Appl Environ Microbiol       Date:  2002-06       Impact factor: 4.792

2.  New real-time quantitative PCR procedure for quantification of bifidobacteria in human fecal samples.

Authors:  Miguel Gueimonde; Satu Tölkkö; Teemu Korpimäki; Seppo Salminen
Journal:  Appl Environ Microbiol       Date:  2004-07       Impact factor: 4.792

3.  Basic local alignment search tool.

Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

4.  Diets supplemented with chickpea or its main oligosaccharide component raffinose modify faecal microbial composition in healthy adults.

Authors:  W M U Fernando; J E Hill; G A Zello; R T Tyler; W J Dahl; A G Van Kessel
Journal:  Benef Microbes       Date:  2010-06       Impact factor: 4.205

5.  Improved tools for biological sequence comparison.

Authors:  W R Pearson; D J Lipman
Journal:  Proc Natl Acad Sci U S A       Date:  1988-04       Impact factor: 11.205

6.  Quantitative fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific 16S rRNA-targeted probes and its application in fecal samples.

Authors:  P S Langendijk; F Schut; G J Jansen; G C Raangs; G R Kamphuis; M H Wilkinson; G W Welling
Journal:  Appl Environ Microbiol       Date:  1995-08       Impact factor: 4.792

7.  Use of nonprotein nitrogen in pigs: effects of dietary urea on the intestinal microflora.

Authors:  Y Benno; K Endo; K Suzuki; T Mitsuoka; S Namioka
Journal:  Am J Vet Res       Date:  1985-04       Impact factor: 1.156

8.  cpnDB: a chaperonin sequence database.

Authors:  Janet E Hill; Susanne L Penny; Kenneth G Crowell; Swee Han Goh; Sean M Hemmingsen
Journal:  Genome Res       Date:  2004-08       Impact factor: 9.043

9.  The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations.

Authors:  M D Collins; P A Lawson; A Willems; J J Cordoba; J Fernandez-Garayzabal; P Garcia; J Cai; H Hippe; J A Farrow
Journal:  Int J Syst Bacteriol       Date:  1994-10

10.  Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov.

Authors:  Sylvia H Duncan; Georgina L Hold; Hermie J M Harmsen; Colin S Stewart; Harry J Flint
Journal:  Int J Syst Evol Microbiol       Date:  2002-11       Impact factor: 2.747
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  20 in total

1.  Controlled gene expression in bifidobacteria by use of a bile-responsive element.

Authors:  Lorena Ruiz; Pablo Álvarez-Martín; Baltasar Mayo; Clara G de los Reyes-Gavilán; Miguel Gueimonde; Abelardo Margolles
Journal:  Appl Environ Microbiol       Date:  2011-11-11       Impact factor: 4.792

2.  A molecular enrichment strategy based on cpn60 for detection of epsilon-proteobacteria in the dog fecal microbiome.

Authors:  Bonnie Chaban; Matthew G Links; Janet E Hill
Journal:  Microb Ecol       Date:  2011-09-01       Impact factor: 4.552

3.  Microbial community analysis and identification of alternative host-specific fecal indicators in fecal and river water samples using pyrosequencing.

Authors:  Ju-Yong Jeong; Hee-Deung Park; Kyong-Hee Lee; Hang-Yeon Weon; Jong-Ok Ka
Journal:  J Microbiol       Date:  2011-09-02       Impact factor: 3.422

Review 4.  Molecular perspectives and recent advances in microbial remediation of persistent organic pollutants.

Authors:  Jaya Chakraborty; Surajit Das
Journal:  Environ Sci Pollut Res Int       Date:  2016-05-28       Impact factor: 4.223

5.  Promiscuity in mice is associated with increased vaginal bacterial diversity.

Authors:  Matthew David MacManes
Journal:  Naturwissenschaften       Date:  2011-10-01

6.  Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice.

Authors:  Andrew L Goodman; George Kallstrom; Jeremiah J Faith; Alejandro Reyes; Aimee Moore; Gautam Dantas; Jeffrey I Gordon
Journal:  Proc Natl Acad Sci U S A       Date:  2011-03-21       Impact factor: 11.205

Review 7.  How glycan metabolism shapes the human gut microbiota.

Authors:  Nicole M Koropatkin; Elizabeth A Cameron; Eric C Martens
Journal:  Nat Rev Microbiol       Date:  2012-04-11       Impact factor: 60.633

8.  16S rDNA and ITS Sequence Diversity of Burkholderia mallei Isolated from Glanders-Affected Horses and Mules in India (2013-2019).

Authors:  Karuppusamy Shanmugasundaram; Harisankar Singha; Sheetal Saini; Bhupendra N Tripathi
Journal:  Curr Microbiol       Date:  2021-12-18       Impact factor: 2.188

9.  Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3-V5 region of the 16S rRNA gene.

Authors:  Marcio C Costa; Luis G Arroyo; Emma Allen-Vercoe; Henry R Stämpfli; Peter T Kim; Amy Sturgeon; J Scott Weese
Journal:  PLoS One       Date:  2012-07-31       Impact factor: 3.240

10.  Characterization of the upper respiratory tract microbiomes of patients with pandemic H1N1 influenza.

Authors:  Bonnie Chaban; Arianne Albert; Matthew G Links; Jennifer Gardy; Patrick Tang; Janet E Hill
Journal:  PLoS One       Date:  2013-07-02       Impact factor: 3.240
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