Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill

Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume

(2011) Zhenmei Lu et al.   ISME Journal

A Persistent Oxygen Anomaly Reveals the Fate of Spilled Methane in the Deep Gulf of Mexico

(2011) J. D. Kessler et al.   SCIENCE

Identifying biologically relevant differences between metagenomic communities

(2010) Donovan H. Parks et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Microbial communities acclimate to recurring changes in soil redox potential status

(2010) Kristen M. DeAngelis et al.   ENVIRONMENTAL MICROBIOLOGY

Assembly algorithms for next-generation sequencing data

(2010) Jason R. Miller et al.   GENOMICS

GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity

(2010) Zhili He et al.   ISME Journal

Genomic and functional adaptation in surface ocean planktonic prokaryotes

(2010) Shibu Yooseph et al.   NATURE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Targeted Discovery of Glycoside Hydrolases from a Switchgrass-Adapted Compost Community

(2010) Martin Allgaier et al.   PLoS One

Tracking Hydrocarbon Plume Transport and Biodegradation at Deepwater Horizon

(2010) Richard Camilli et al.   SCIENCE

Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria

(2010) Terry C. Hazen et al.   SCIENCE

Propane Respiration Jump-Starts Microbial Response to a Deep Oil Spill

(2010) David L. Valentine et al.   SCIENCE

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates

(2009) Victor Kunin et al.   ENVIRONMENTAL MICROBIOLOGY

Whole Genome Amplification and De novo Assembly of Single Bacterial Cells

(2009) Sébastien Rodrigue et al.   PLoS One

Identification of ancient remains through genomic sequencing

(2008) M. J. Blow et al.   GENOME RESEARCH

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

iPath: interactive exploration of biochemical pathways and networks

(2008) Ivica Letunic et al.   TRENDS IN BIOCHEMICAL SCIENCES