Mining microbial metatranscriptomes for expression of antibiotic resistance genes under natural conditions

Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology

(2014) Molly K Gibson et al.   ISME Journal

Bacterial phylogeny structures soil resistomes across habitats

(2014) Kevin J. Forsberg et al.   NATURE

Immunomodulatory Properties of Streptococcus and Veillonella Isolates from the Human Small Intestine Microbiota

(2014) Bartholomeus van den Bogert et al.   PLoS One

Widespread dissemination of class 1 integron components in soils and related ecosystems as revealed by cultivation-independent analysis

(2014) Sven Jechalke et al.   Frontiers in Microbiology

Seawater is a reservoir of multi-resistant Escherichia coli, including strains hosting plasmid-mediated quinolones resistance and extended-spectrum beta-lactamases genes

(2014) Marta S. Alves et al.   Frontiers in Microbiology

Aminoglycoside Cross-Resistance in Mycobacterium tuberculosis Due to Mutations in the 5′ Untranslated Region ofwhiB7

(2013) Analise Z. Reeves et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets

(2013) Milkha M Leimena et al.   BMC GENOMICS

Country-specific antibiotic use practices impact the human gut resistome

(2013) K. Forslund et al.   GENOME RESEARCH

Resistant Starch Induces Catabolic but Suppresses Immune and Cell Division Pathways and Changes the Microbiome in the Proximal Colon of Male Pigs

(2013) Daniëlle Haenen et al.   JOURNAL OF NUTRITION

Marine Sediment Bacteria Harbor Antibiotic Resistance Genes Highly Similar to Those Found in Human Pathogens

(2013) Jing Yang et al.   MICROBIAL ECOLOGY

Gene expression in the deep biosphere

(2013) William D. Orsi et al.   NATURE

Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota

(2013) Yongfei Hu et al.   Nature Communications

Culture-dependent and independent approaches for identifying novel halogenases encoded by Crambe crambe (marine sponge) microbiota

(2013) Başak Öztürk et al.   Scientific Reports

The multifaceted roles of antibiotics and antibiotic resistance in nature

(2013) Saswati Sengupta et al.   Frontiers in Microbiology

Natural Product Biosynthetic Gene Diversity in Geographically Distinct Soil Microbiomes

(2012) Boojala Vijay B. Reddy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

Pharmacologically prospective antibiotic agents and their sources: A marine microbial perspective

(2012) Ira Bhatnagar et al.   ENVIRONMENTAL TOXICOLOGY AND PHARMACOLOGY

Get pigs off antibiotics

(2012) Frank Aarestrup   NATURE

Human gut microbiome viewed across age and geography

(2012) Tanya Yatsunenko et al.   NATURE

Antibiotic Resistance Is Prevalent in an Isolated Cave Microbiome

(2012) Kirandeep Bhullar et al.   PLoS One

Distribution and Quantification of Antibiotic Resistant Genes and Bacteria across Agricultural and Non-Agricultural Metagenomes

(2012) Lisa M. Durso et al.   PLoS One

Distribution of antibiotic resistance genes in glacier environments

(2012) Takahiro Segawa et al.   Environmental Microbiology Reports

Antibiotic resistance gene spread due to manure application on agricultural fields

(2011) Holger Heuer et al.   CURRENT OPINION IN MICROBIOLOGY

Antibiotic resistance is ancient

(2011) Vanessa M. D’Costa et al.   NATURE

antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences

(2011) Marnix H. Medema et al.   NUCLEIC ACIDS RESEARCH

Pyrosequencing of Antibiotic-Contaminated River Sediments Reveals High Levels of Resistance and Gene Transfer Elements

(2011) Erik Kristiansson et al.   PLoS One

Selection of Resistant Bacteria at Very Low Antibiotic Concentrations

(2011) Erik Gullberg et al.   PLoS Pathogens

Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities

(2011) Frank J Stewart et al.   GENOME BIOLOGY

Metagenomic Analysis of Apple Orchard Soil Reveals Antibiotic Resistance Genes Encoding Predicted Bifunctional Proteins

(2010) J. J. Donato et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metagenomic Analyses: Past and Future Trends

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

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

Oral biofilms: a reservoir of transferable, bacterial, antimicrobial resistance

(2010) Adam P Roberts et al.   Expert Review of Anti-Infective Therapy

Quantitative analysis of a deeply sequenced marine microbial metatranscriptome

(2010) Scott M Gifford et al.   ISME Journal

Antibiotic resistance and its cost: is it possible to reverse resistance?

(2010) Dan I. Andersson et al.   NATURE REVIEWS MICROBIOLOGY

Call of the wild: antibiotic resistance genes in natural environments

(2010) Heather K. Allen et al.   NATURE REVIEWS MICROBIOLOGY

Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre

(2009) Rachel S. Poretsky et al.   ENVIRONMENTAL MICROBIOLOGY

Spatial distribution of bacteria associated with the marine sponge Tethya californiana

(2009) Detmer Sipkema et al.   MARINE BIOLOGY

Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity

(2009) Rotem Sorek et al.   NATURE REVIEWS GENETICS

Functional Characterization of the Antibiotic Resistance Reservoir in the Human Microflora

(2009) M. O. A. Sommer et al.   SCIENCE

Outwitting Multidrug Resistance to Antifungals

(2008) B. C. Monk et al.   SCIENCE