Results 11 to 20 of about 327,715 (297)
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
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Dumpster diving for diatom plastid 16S rRNA genes
PeerJ, 2021 High throughput sequencing is improving the efficiency of monitoring diatoms, which inhabit and support aquatic ecosystems across the globe. In this study, we explored the potential of a standard V4 515F-806RB primer pair in recovering diatom plastid 16S rRNA sequences.
Krista L. Bonfantine +4 more
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Data in Brief, 2021 The potential for aerobic and anaerobic microbial natural attenuation of PCBs in freshwater sediments is described by PCB congener, quantitative PCR, and 16S rRNA gene amplicon sequencing datasets generated, in duplicate, from 27 sediment samples ...
Timothy E. Mattes +6 more
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Reconstructing 16S rRNA genes in metagenomic data [PDF]
Bioinformatics, 2015 Abstract Metagenomic data, which contains sequenced DNA reads of uncultured microbial species from environmental samples, provide a unique opportunity to thoroughly analyze microbial species that have never been identified before. Reconstructing 16S ribosomal RNA, a phylogenetic marker gene, is usually required to analyze the composition
Yuan, Cheng +3 more
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Phylogenetic Clustering of Soil Microbial Communities by 16S rRNA but Not 16S rRNA Genes [PDF]
Applied and Environmental Microbiology, 2012 ABSTRACT We evaluated phylogenetic clustering of bacterial and archaeal communities from redox-dynamic subtropical forest soils that were defined by 16S rRNA and rRNA gene sequences. We observed significant clustering for the RNA-based communities but not the DNA-based communities, as well as increasing clustering over time of the highly ...
Kristen M, DeAngelis, Mary K, Firestone
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F1000Research, 2023 Background: Microscopic, biochemical, molecular, and computer-based approaches are extensively used to identify and classify bacterial populations.
Bobby Paul
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A renaissance for the pioneering 16S rRNA gene [PDF]
Current Opinion in Microbiology, 2008 Culture-independent molecular surveys using the 16S rRNA gene have become a mainstay for characterizing microbial community structure over the past quarter century. More recently this approach has been overshadowed by metagenomics, which provides a global overview of a community's functional potential rather than just an inventory of its inhabitants ...
Tringe, SG, Hugenholtz, P
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Amplicon Sequence Variants Artificially Split Bacterial Genomes into Separate Clusters
mSphere, 2021 16S rRNA gene sequencing has engendered significant interest in studying microbial communities. There has been tension between trying to classify 16S rRNA gene sequences to increasingly lower taxonomic levels and the reality that those levels were ...
Patrick D. Schloss
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Virtual metagenome reconstruction from 16S rRNA gene sequences [PDF]
Nature Communications, 2012 Microbial ecologists have investigated roles of species richness and diversity in a wide variety of ecosystems. Recently, metagenomics have been developed to measure functions in ecosystems, but this approach is cost-intensive. Here we describe a novel method for the rapid and efficient reconstruction of a virtual metagenome in environmental microbial ...
Shujiro, Okuda +4 more
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Microbiome, 2020 Background High-throughput sequencing of bacterial 16S rRNA gene (16S-seq) is a useful and common method for studying bacterial community structures. However, contamination of the 16S rRNA genes from the mitochondrion and plastid hinders the sensitive ...
Luyang Song, Kabin Xie
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