Dispersing misconceptions and identifying opportunities for the use of 'omics' in soil microbial ecology

Impact of fire on active layer and permafrost microbial communities and metagenomes in an upland Alaskan boreal forest

(2014) Neslihan Taş et al.   ISME Journal

Single-cell enabled comparative genomics of a deep ocean SAR11 bathytype

(2014) J Cameron Thrash et al.   ISME Journal

Implications of streamlining theory for microbial ecology

(2014) Stephen J Giovannoni et al.   ISME Journal

TheSphagnummicrobiome supports bog ecosystem functioning under extreme conditions

(2014) Anastasia Bragina et al.   MOLECULAR ECOLOGY

Spatial Ecology of Bacteria at the Microscale in Soil

(2014) Xavier Raynaud et al.   PLoS One

Tackling soil diversity with the assembly of large, complex metagenomes

(2014) Adina Chuang Howe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microspatial gene expression patterns in the Amazon River Plume

(2014) B. M. Satinsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptional Response of Nitrifying Communities to Wetting of Dry Soil

(2013) Sarah A. Placella et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Mastering methodological pitfalls for surviving the metagenomic jungle

(2013) Tom O. Delmont et al.   BIOESSAYS

Comparative genomics in acid mine drainage biofilm communities reveals metabolic and structural differentiation of co-occurring archaea

(2013) Alexis P Yelton et al.   BMC GENOMICS

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Soil Bacterial Community Shifts after Chitin Enrichment: An Integrative Metagenomic Approach

(2013) Samuel Jacquiod et al.   PLoS One

Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum

(2013) J. S. McLean et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomes from Metagenomics

(2013) I. Sharon et al.   SCIENCE

Functional assignment of metagenomic data: challenges and applications

(2012) T. Prakash et al.   BRIEFINGS IN BIOINFORMATICS

Single cell genomics: an individual look at microbes

(2012) Ramunas Stepanauskas   CURRENT OPINION IN MICROBIOLOGY

Metagenomics: microbial diversity through a scratched lens

(2012) Ben Temperton et al.   CURRENT OPINION IN MICROBIOLOGY

Ecosystem processes and interactions in a morass of diversity

(2012) James I. Prosser   FEMS MICROBIOLOGY ECOLOGY

Sizing up metatranscriptomics

(2012) Mary Ann Moran et al.   ISME Journal

Expression patterns reveal niche diversification in a marine microbial assemblage

(2012) Scott M Gifford et al.   ISME Journal

Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms

(2012) Alexander Tveit et al.   ISME Journal

Application of metatranscriptomics to soil environments

(2012) Lilia C. Carvalhais et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Rainfall-induced carbon dioxide pulses result from sequential resuscitation of phylogenetically clustered microbial groups

(2012) S. A. Placella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Archaeal and bacterial ammonia-oxidisers in soil: the quest for niche specialisation and differentiation

(2012) James I. Prosser et al.   TRENDS IN MICROBIOLOGY

Microbial control over carbon cycling in soil

(2012) Joshua P. Schimel et al.   Frontiers in Microbiology

Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis

(2011) Matthew B. Scholz et al.   CURRENT OPINION IN BIOTECHNOLOGY

Metagenomic exploration of antibiotic resistance in soil

(2011) Jean-Michel Monier et al.   CURRENT OPINION IN MICROBIOLOGY

Soil-specific limitations for access and analysis of soil microbial communities by metagenomics

(2011) Nathalie Lombard et al.   FEMS MICROBIOLOGY ECOLOGY

De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities

(2011) Priya Narasingarao et al.   ISME Journal

Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw

(2011) Rachel Mackelprang et al.   NATURE

Horizon-Specific Bacterial Community Composition of German Grassland Soils, as Revealed by Pyrosequencing-Based Analysis of 16S rRNA Genes

(2010) C. Will et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Recent application of metagenomic approaches toward the discovery of antimicrobials and other bioactive small molecules

(2010) Jacob J Banik et al.   CURRENT OPINION IN MICROBIOLOGY

A review of molecular methods to study the microbiota of soil and the mycosphere

(2010) J.D. van Elsas et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Linking bacterial identities and ecosystem processes: can ‘omic’ analyses be more than the sum of their parts?

(2010) Sergio E. Morales et al.   FEMS MICROBIOLOGY ECOLOGY

Combined niche and neutral effects in a microbial wastewater treatment community

(2010) I. D. Ofiteru et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Size does matter: Application-driven approaches for soil metagenomics

(2010) Kavita S. Kakirde et al.   SOIL BIOLOGY & BIOCHEMISTRY

Culture-independent molecular techniques for soil microbial ecology

(2010) Penny R. Hirsch et al.   SOIL BIOLOGY & BIOCHEMISTRY

A Primer on Metagenomics

(2010) John C. Wooley et al.   PLoS Computational Biology

The Systemic Imprint of Growth and Its Uses in Ecological (Meta)Genomics

(2010) Sara Vieira-Silva et al.   PLoS Genetics

One gram of soil: a microbial biochemical gene library

(2009) J. T. Trevors   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Metabolism, cell growth and the bacterial cell cycle

(2009) Jue D. Wang et al.   NATURE REVIEWS MICROBIOLOGY

The genomic basis of trophic strategy in marine bacteria

(2009) F. M. Lauro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Bioinformatician's Guide to Metagenomics

(2008) V. Kunin et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS