Metagenomics: genomic analysis of microbial communities

CS Riesenfeld, PD Schloss, J Handelsman - Annu. Rev. Genet., 2004 - annualreviews.org
▪ Abstract Uncultured microorganisms comprise the majority of the planet's biological
diversity. Microorganisms represent two of the three domains of life and contain vast …

A survey of the methods for the characterization of microbial consortia and communities

D Spiegelman, G Whissell… - Canadian Journal of …, 2005 - cdnsciencepub.com
A survey of the available literature on methods most frequently used for the identification and
characterization of microbial strains, communities, or consortia is presented. The …

Bacterial Communities of Diverse Drosophila Species: Ecological Context of a Host–Microbe Model System

JA Chandler, J Morgan Lang, S Bhatnagar… - PLoS …, 2011 - journals.plos.org
Drosophila melanogaster is emerging as an important model of non-pathogenic host–
microbe interactions. The genetic and experimental tractability of Drosophila has led to …

High through put 16S rRNA gene-based pyrosequencing analysis of the fecal microbiota of high FCR and low FCR broiler growers

KM Singh, T Shah, S Deshpande, SJ Jakhesara… - Molecular biology …, 2012 - Springer
The performance of birds appears to vary among the flock of growing broilers which may in
part be due to variation in their gut microbiota. In the view of poultry industry, it is desirable to …

Characterization of intestinal microbiota and response to dietary virginiamycin supplementation in the broiler chicken

TJ Dumonceaux, JE Hill, SM Hemmingsen… - Applied and …, 2006 - Am Soc Microbiol
The inclusion of antibiotic growth promoters, such as virginiamycin, at subtherapeutic levels
in poultry feeds has a positive effect on health and growth characteristics, possibly due to …

cpnDB: a chaperonin sequence database

JE Hill, SL Penny, KG Crowell, SH Goh… - Genome …, 2004 - genome.cshlp.org
Type I chaperonins are molecular chaperones present in virtually all bacteria, some archaea
and the plastids and mitochondria of eukaryotes. Sequences of cpn 60 genes, encoding 60 …

The Chaperonin-60 Universal Target Is a Barcode for Bacteria That Enables De Novo Assembly of Metagenomic Sequence Data

MG Links, TJ Dumonceaux, SM Hemmingsen, JE Hill - PloS one, 2012 - journals.plos.org
Barcoding with molecular sequences is widely used to catalogue eukaryotic biodiversity.
Studies investigating the community dynamics of microbes have relied heavily on gene …

Specific Response of a Novel and Abundant Lactobacillus amylovorus-Like Phylotype to Dietary Prebiotics in the Guts of Weaning Piglets

SR Konstantinov, A Awati, H Smidt… - Applied and …, 2004 - Am Soc Microbiol
Using 16S rRNA gene-based approaches, we analyzed the responses of ileal and colonic
bacterial communities of weaning piglets to dietary addition of four fermentable …

Enterocyte proliferation and apoptosis in the caudal small intestine is influenced by the composition of colonizing commensal bacteria in the neonatal gnotobiotic pig

BP Willing, AG Van Kessel - Journal of animal science, 2007 - academic.oup.com
We previously reported marked differences in small intestinal morphology, including
changes in crypt depth and villous height, after inoculation of germ-free pigs with different …

Effects of commensal bacteria on intestinal morphology and expression of proinflammatory cytokines in the gnotobiotic pig

TW Shirkey, RH Siggers, BG Goldade… - Experimental …, 2006 - journals.sagepub.com
A germ-free neonatal pig model was established to determine the effects of bacterial
colonization by different species on small intestinal morphology and proinflammatory …