Investigation of bacterial and archaeal communities: novel protocols using modern sequencing by Illumina MiSeq and traditional DGGE-cloning

Water-related environments: a multistep procedure to assess the diversity and enzymatic properties of cultivable bacteria

(2016) Tomáš Grivalský et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Response of rhizosphere microbial community structure and diversity to heavy metal co-pollution in arable soil

(2015) Linjing Deng et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Microbial community development on the surface of Hans and Werenskiold Glaciers (Svalbard, Arctic): a comparison

(2015) Jakub Grzesiak et al.   EXTREMOPHILES

Thermophilic prokaryotic communities inhabiting the biofilm and well water of a thermal karst system located in Budapest (Hungary)

(2015) Dóra Anda et al.   EXTREMOPHILES

Purification and characterization of a thermo-halophilic, alkali-stable and extremely benzene tolerant esterase from a thermo-halo tolerant Bacillus cereus strain AGP-03, isolated from ‘Bakreshwar’ hot spring, India

(2015) Amit Ghati et al.   PROCESS BIOCHEMISTRY

Diversity and space–time dynamics of endophytic archaea from sugar beet in the north slope of Tianshan Mountain revealed by 454 pyrosequencing and T-RFLP

(2015) YingWu Shi et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Biogas production and methanogenic archaeal community in mesophilic and thermophilic anaerobic co-digestion processes

(2014) D. Yu et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Evidence of Novel Phylogenetic Lineages of Methanogenic Archaea from Hypersaline Microbial Mats

(2014) José Q. García-Maldonado et al.   MICROBIAL ECOLOGY

Diversity and Community Composition of Methanogenic Archaea in the Rumen of Scottish Upland Sheep Assessed by Different Methods

(2014) Timothy J. Snelling et al.   PLoS One

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

(2013) J. Zhang et al.   BIOINFORMATICS

Ecological coherence of diversity patterns derived from classical fingerprinting and Next Generation Sequencing techniques

(2013) Angélique Gobet et al.   ENVIRONMENTAL MICROBIOLOGY

Archaeal and bacterial diversity in two hot spring microbial mats from a geothermal region in Romania

(2013) Cristian Coman et al.   EXTREMOPHILES

Microbial diversity and dynamics during the production of May bryndza cheese

(2013) Domenico Pangallo et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

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

Impact of subacute ruminal acidosis on the diversity of liquid and solid-associated bacteria in the rumen of goats

(2013) Wenjie Huo et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Microbial diversity and methanogenic activity of Antrim Shale formation waters from recently fractured wells

(2013) Cornelia Wuchter et al.   Frontiers in Microbiology

Denaturing Gradient Gel Electrophoresis and Barcoded Pyrosequencing Reveal Unprecedented Archaeal Diversity in Mangrove Sediment and Rhizosphere Samples

(2012) Ana C. C. Pires et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Bacterial and archaeal diversities in Yunnan and Tibetan hot springs, China

(2012) Zhao-Qi Song et al.   ENVIRONMENTAL MICROBIOLOGY

Methanomassiliicoccus luminyensis gen. nov., sp. nov., a methanogenic archaeon isolated from human faeces

(2012) B. Dridi et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

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

(2012) J Gregory Caporaso et al.   ISME Journal

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

Testing the Limits of 454 Pyrotag Sequencing: Reproducibility, Quantitative Assessment and Comparison to T-RFLP Fingerprinting of Aquifer Microbes

(2012) Giovanni Pilloni et al.   PLoS One

Cross-biome metagenomic analyses of soil microbial communities and their functional attributes

(2012) N. Fierer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Interactive metagenomic visualization in a Web browser

(2011) Brian D Ondov et al.   BMC BIOINFORMATICS

Archaeal and bacterial diversity in hot springs on the Tibetan Plateau, China

(2011) Qiuyuan Huang et al.   EXTREMOPHILES

Characterization of microbial biofilms in a thermophilic biogas system by high-throughput metagenome sequencing

(2011) Antje Rademacher et al.   FEMS MICROBIOLOGY ECOLOGY

Molecular diversity of methanogens and identification of Methanolobus sp. as active methylotrophic Archaea in Lonar crater lake sediments

(2011) Chakkiath Paul Antony et al.   FEMS MICROBIOLOGY ECOLOGY

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas et al.   GENOME RESEARCH

Phylogenetic Diversity of Bacterial Communities Associated with Sulfurous Karstic Well Waters of a Hungarian Spa

(2011) Roland Miseta et al.   GEOMICROBIOLOGY JOURNAL

Hot-spring Systems Geobiology: abiotic and biotic influences on travertine formation at Mammoth Hot Springs, Yellowstone National Park, USA

(2011) BRUCE W. FOUKE   SEDIMENTOLOGY

Sulfur-metabolizing bacterial populations in microbial mats of the Nakabusa hot spring, Japan

(2011) Kyoko Kubo et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

(2011) Christopher S Miller et al.   GENOME BIOLOGY

BIPES, a cost-effective high-throughput method for assessing microbial diversity

(2010) Hong-Wei Zhou et al.   ISME Journal

Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes

(2010) Minseok Kim et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Metagenomic study of the oral microbiota by Illumina high-throughput sequencing

(2009) Vladimir Lazarevic et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Crenarchaeota and Their Role in the Nitrogen Cycle in a Subsurface Radioactive Thermal Spring in the Austrian Central Alps

(2008) G. W. Weidler et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Analysis of yeast and archaeal population dynamics in kimchi using denaturing gradient gel electrophoresis

(2008) H CHANG et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY