Accurate Identification of Common Pathogenic Nocardia Species: Evaluation of a Multilocus Sequence Analysis Platform and Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry. [PDF]
PLoS ONE, 2016 Species identification of Nocardia is not straightforward due to rapidly evolving taxonomy, insufficient discriminatory power of conventional phenotypic methods and also of single gene locus analysis including 16S rRNA gene sequencing.
Meng Xiao +10 more
doaj +1 more source
High-throughput sequencing of 16S rRNA gene amplicons : effects of extraction procedure, primer length and annealing temperature [PDF]
, 2012 The analysis of 16S-rDNA sequences to assess the bacterial community composition of a sample is a widely used technique that has increased with the advent of high throughput sequencing.
Cogan, Tristan +4 more
core +3 more sources
Substrate-specific clades of active marine methylotrophs associated with a phytoplankton bloom in a temperate coastal environment [PDF]
, 2008 Marine microorganisms that consume one-carbon (C1) compounds are poorly described, despite their impact on global climate via an influence on aquatic and atmospheric chemistry.
Boden, Rich +4 more
core +2 more sources
Characterising the Canine Oral Microbiome by Direct Sequencing of Reverse-Transcribed rRNA Molecules. [PDF]
PLoS ONE, 2016 PCR amplification and sequencing of phylogenetic markers, primarily Small Sub-Unit ribosomal RNA (SSU rRNA) genes, has been the paradigm for defining the taxonomic composition of microbiomes.
James E McDonald +8 more
doaj +1 more source
Species-Specific Identification of Leptospiraceae by 16S rRNA Gene Sequencing [PDF]
Journal of Clinical Microbiology, 2006 ABSTRACT The genus Leptospira is classified into 13 named species and 4 genomospecies based upon DNA-DNA reassociation studies. Phenotypic tests are unable to distinguish between species of Leptospira , and there is a need for a simplified molecular approach to the identification of
Roger E. Morey +5 more
openalex +3 more sources
SituSeq: an offline protocol for rapid and remote Nanopore 16S rRNA amplicon sequence analysis
ISME Communications, 2023 Microbiome analysis through 16S rRNA gene sequencing is a crucial tool for understanding the microbial ecology of any habitat or ecosystem. However, workflows require large equipment, stable internet, and extensive computing power such that most of the ...
Jackie Zorz +8 more
doaj +1 more source
Individual-specific changes in the human gut microbiota after challenge with enterotoxigenic Escherichia coli and subsequent ciprofloxacin treatment [PDF]
, 2016 Acknowledgements The authors wish to thank Mark Stares, Richard Rance, and other members of the Wellcome Trust Sanger Institute’s 454 sequencing team for generating the 16S rRNA gene data. Lili Fox Vélez provided editorial support.
Astrovskaya, Irina +12 more
core +2 more sources
mSystems, 2021 A highly resolved taxonomy for ammonia-oxidizing archaea (AOA) based on the alpha subunit of ammonia monooxygenase (amoA) was recently established, which uncovered novel environmental patterns of AOA, challenging previous generalizations.
Haitao Wang +6 more
doaj +1 more source
Amniotic fluid from healthy term pregnancies does not harbor a detectable microbial community [PDF]
, 2018 Recent studies have conflicting data regarding the presence of intra-amniotic microbiota. Viral communities are increasingly recognized as important although overlooked components of the human microbiota.
Holtz, Lori R +2 more
core +2 more sources
Triplicate PCR Reactions for 16S rRNA Gene Amplicon Sequencing are Unnecessary [PDF]
BioTechniques, 2019 Conventional wisdom holds that PCR amplification for sequencing should employ pooled replicate reactions to reduce bias due to jackpot effects and chimera formation. However, modern amplicon data analysis employs methods that may be less sensitive to such artifacts.
Marotz, Clarisse +7 more
openaire +5 more sources