Gut Microbial Dynamics during Conventionalization of Germfree Chicken

The chicken gut metagenome and the modulatory effects of plant-derived benzylisoquinoline alkaloids

(2018) Peng Huang et al.   Microbiome

Pasture flock chicken cecal microbiome responses to prebiotics and plum fiber feed amendments

(2017) S. H. Park et al.   POULTRY SCIENCE

Metagenomic characterization of the effect of feed additives on the gut microbiome and antibiotic resistome of feedlot cattle

(2017) Milton Thomas et al.   Scientific Reports

Bacterial Succession in the Broiler Gastrointestinal Tract

(2016) Samir Ranjitkar et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Feralisation targets different genomic loci to domestication in the chicken

(2016) M. Johnsson et al.   Nature Communications

Age-Related Differences in the Luminal and Mucosa-Associated Gut Microbiome of Broiler Chickens and Shifts Associated with Campylobacter jejuni Infection

(2016) Wageha A. Awad et al.   Frontiers in Cellular and Infection Microbiology

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

Successional changes in the chicken cecal microbiome during 42 days of growth are independent of organic acid feed additives

(2014) Brian B Oakley et al.   BMC Veterinary Research

Inhibition ofSalmonellaby Bacteriocin-Producing Lactic Acid Bacteria Derived from U.S. Kimchi and Broiler Chicken

(2014) Ji Yeun Kim et al.   JOURNAL OF FOOD SAFETY

Microbial Succession in the Gut: Directional Trends of Taxonomic and Functional Change in a Birth Cohort of Spanish Infants

(2014) Yvonne Vallès et al.   PLoS Genetics

Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data

(2013) C. E. Robertson et al.   BIOINFORMATICS

Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by Caesarean section

(2013) Hedvig E Jakobsson et al.   GUT

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Intestinal microbiota associated with differential feed conversion efficiency in chickens

(2012) Dragana Stanley et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

New Insights in Gut Microbiota Establishment in Healthy Breast Fed Neonates

(2012) Ted Jost et al.   PLoS One

Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts

(2012) L. Fan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification and Characterization of Potential Performance-Related Gut Microbiotas in Broiler Chickens across Various Feeding Trials

(2011) Valeria A. Torok et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Modulations of the Chicken Cecal Microbiome and Metagenome in Response to Anticoccidial and Growth Promoter Treatment

(2011) Jessica L. Danzeisen et al.   PLoS One

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

Succession of microbial consortia in the developing infant gut microbiome

(2010) J. E. Koenig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Comparison of the Cecal Microbiota of Domestic and Wild Turkeys

(2008) Alexandra J Scupham et al.   MICROBIAL ECOLOGY

Comparative Metagenomics Reveals Host Specific Metavirulomes and Horizontal Gene Transfer Elements in the Chicken Cecum Microbiome

(2008) Ani Qu et al.   PLoS One