Protocols for metagenomic DNA extraction and Illumina amplicon library preparation for faecal and swab samples

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Molecular tools reveal diets of insectivorous birds from predator fecal matter

(2013) Julie A. Jedlicka et al.   Conservation Genetics Resources

PANDAseq: paired-end assembler for illumina sequences

(2012) Andre P Masella et al.   BMC BIOINFORMATICS

Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture

(2012) N. Rohland et al.   GENOME RESEARCH

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

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

Generalized DNA Barcode Design Based on Hamming Codes

(2012) Leonid V. Bystrykh   PLoS One

Co-habiting amphibian species harbor unique skin bacterial communities in wild populations

(2011) Valerie J McKenzie et al.   ISME Journal

Pyrosequencing of prey DNA in reptile faeces: analysis of earthworm consumption by slow worms

(2011) DAVID S. BROWN et al.   Molecular Ecology Resources

Decoding a Substantial Set of Samples in Parallel by Massive Sequencing

(2011) Mårten Neiman et al.   PLoS One

A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries

(2011) Sheila Fisher et al.   GENOME BIOLOGY

A Hard Look at Blood Sampling of Birds

(2010) Margaret Voss et al.   AUK

Pyrosequencing faecal DNA to determine diet of little penguins: is what goes in what comes out?

(2010) Bruce E. Deagle et al.   CONSERVATION GENETICS

Comparative analysis of fecal DNA extraction methods with phylogenetic microarray: Effective recovery of bacterial and archaeal DNA using mechanical cell lysis

(2010) Anne Salonen et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Ecogenomics: using massively parallel pyrosequencing to understand virus ecology

(2010) MARILYN J. ROOSSINCK et al.   MOLECULAR ECOLOGY

Diversity and temporal stability of bacterial communities in a model passerine bird, the zebra finch

(2010) CLARE McW. H. BENSKIN et al.   MOLECULAR ECOLOGY

Taxon-specific PCR for DNA barcoding arthropod prey in bat faeces

(2010) MATT R. K. ZEALE et al.   Molecular Ecology Resources

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Comparison of DNA extraction kits for PCR-DGGE analysis of human intestinal microbial communities from fecal specimens

(2010) Merlin W Ariefdjohan et al.   Nutrition Journal

Increased Throughput by Parallelization of Library Preparation for Massive Sequencing

(2010) Sverker Lundin et al.   PLoS One

Bacteroidales Diversity in Ring-Billed Gulls (Laurus delawarensis) Residing at Lake Michigan Beaches

(2009) S. N. Jeter et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Direct multiplex sequencing (DMPS)--a novel method for targeted high-throughput sequencing of ancient and highly degraded DNA

(2009) M. Stiller et al.   GENOME RESEARCH

Skin microbes on frogs prevent morbidity and mortality caused by a lethal skin fungus

(2009) Reid N Harris et al.   ISME Journal

Advancing ecological understandings through technological transformations in noninvasive genetics

(2009) ALBANO BEJA-PEREIRA et al.   Molecular Ecology Resources

Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes

(2009) Iwanka Kozarewa et al.   NATURE METHODS

Comparative Analysis of Pyrosequencing and a Phylogenetic Microarray for Exploring Microbial Community Structures in the Human Distal Intestine

(2009) Marcus J. Claesson et al.   PLoS One

Cloacal microbial communities of female spotted towheesPipilo maculatus: microgeographic variation and individual sources of variability

(2008) Jennifer E. Klomp et al.   JOURNAL OF AVIAN BIOLOGY

An effective method for isolation of DNA from pig faeces and comparison of five different methods

(2008) Jun-ni Tang et al.   JOURNAL OF MICROBIOLOGICAL METHODS