PLoS ONE, 2019 Variable region analysis of 16S rRNA gene sequences is the most common tool in bacterial taxonomic studies. Although used for distinguishing bacterial species, its use remains limited due to the presence of variable copy numbers with sequence variation ...
Jerald Conrad Ibal +3 more
doaj +1 more source
The active microbial community more accurately reflects the anaerobic digestion process: 16S rRNA (gene) sequencing as a predictive tool [PDF]
, 2018 Background: Amplicon sequencing methods targeting the 16S rRNA gene have been used extensively to investigate microbial community composition and dynamics in anaerobic digestion.
de Vrieze, Jo +3 more
core +2 more sources
Novel hemotropic mycoplasmas are widespread and genetically diverse in vampire bats [PDF]
, 2017 Bats (Order: Chiroptera) have been widely studied as reservoir hosts for viruses of concern for human and animal health. However, whether bats are equally competent hosts of non-viral pathogens such as bacteria remains an important open question. Here,
Altizer, S.M. +7 more
core +1 more source
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
Diversity of culturable moderately halophilic and halotolerant bacteria in a marsh and two salterns a protected ecosystem of Lower Loukkos (Morocco) [PDF]
, 2012 To study the biodiversity of halophilic bacteria in a protected wetland located in Loukkos (Northwest, Morocco), a total of 124 strains were recovered from sediment samples from a marsh and salterns.
Amar, Mohamed +7 more
core +1 more source
Microorganisms, 2023 In order to intensify and guarantee the agricultural productivity and thereby to be able to feed the world’s rapidly growing population, irrigation has become very important. In parallel, the limited water resources lead to an increase in usage of poorly
Botond Bendegúz Surányi +4 more
doaj +1 more source
A pipeline for targeted metagenomics of environmental bacteria. [PDF]
, 2020 BackgroundMetagenomics and single cell genomics provide a window into the genetic repertoire of yet uncultivated microorganisms, but both methods are usually taxonomically untargeted.
Bowers, Robert M +7 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
Primer selection impacts specific population abundances but not community dynamics in a monthly time-series 16S rRNA gene amplicon analysis of coastal marine bacterioplankton. [PDF]
, 2018 Primers targeting the 16S small subunit ribosomal RNA marker gene, used to characterize bacterial and archaeal communities, have recently been re-evaluated for marine planktonic habitats.
Carlson, Craig A +3 more
core +1 more source
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