Deciphering chicken gut microbial dynamics based on high-throughput 16S rRNA metagenomics analyses

Microbiota of the chicken gastrointestinal tract: influence on health, productivity and disease

(2014) Dragana Stanley et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

Highly Variable Microbiota Development in the Chicken Gastrointestinal Tract

(2014) Dragana Stanley et al.   PLoS One

The mRNA expression of amino acid transporters, aminopeptidase N, and the di- and tri-peptide transporter PepT1 in the embryo of the domesticated chicken (Gallus gallus) shows developmental regulation

(2014) Katarzyna B. Miska et al.   POULTRY SCIENCE

The interplay between Campylobacter and Helicobacter species and other gastrointestinal microbiota of commercial broiler chickens

(2014) Nadeem O Kaakoush et al.   Gut Pathogens

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Species Identification and Profiling of Complex Microbial Communities Using Shotgun Illumina Sequencing of 16S rRNA Amplicon Sequences

(2013) Swee Hoe Ong et al.   PLoS One

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Next-generation sequencing: The future of molecular genetics in poultry production and food safety

(2013) S. Diaz-Sanchez et al.   POULTRY SCIENCE

Bacterial census of poultry intestinal microbiome

(2013) S. Wei et al.   POULTRY SCIENCE

Intestinal microbiota associated with differential feed conversion efficiency in chickens

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

Microbial culturomics: paradigm shift in the human gut microbiome study

(2012) J.-C. Lagier et al.   CLINICAL MICROBIOLOGY AND INFECTION

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

(2012) K. M. Singh et al.   MOLECULAR BIOLOGY REPORTS

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Comparative metabolic pathway analysis with special reference to nucleotide metabolism-related genes in chicken primordial germ cells

(2012) Deivendran Rengaraj et al.   THERIOGENOLOGY

Host Epithelial Cell Invasion by Campylobacter jejuni: Trigger or Zipper Mechanism?

(2012) Tadhg Ó Cróinín et al.   Frontiers in Cellular and Infection Microbiology

Assessing and Improving Methods Used in Operational Taxonomic Unit-Based Approaches for 16S rRNA Gene Sequence Analysis

(2011) Patrick D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Influence of Antimicrobial Feed Additives on Broiler Commensal Posthatch Gut Microbiota Development and Performance

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

Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads

(2011) Andrea K. Bartram et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Key two-component regulatory systems that control biofilm formation in Pseudomonas aeruginosa

(2011) Helga Mikkelsen et al.   ENVIRONMENTAL MICROBIOLOGY

Enterotypes of the human gut microbiome

(2011) Manimozhiyan Arumugam et al.   NATURE

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

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

Metagenomic Analyses: Past and Future Trends

(2010) Carola Simon et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Growth Phase-Dependent Activation of the DccRS Regulon of Campylobacter jejuni

(2010) M. M. S. M. Wosten et al.   JOURNAL OF BACTERIOLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Exposure of different bacterial inocula to newborn chicken affects gut microbiota development and ileum gene expression

(2009) Yeshi Yin et al.   ISME Journal

Effects of zinc bacitracin, bird age and access to range on bacterial microbiota in the ileum and caeca of broiler chickens

(2008) J. Gong et al.   JOURNAL OF APPLIED MICROBIOLOGY

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

(2008) Ani Qu et al.   PLoS One