Results 21 to 30 of about 245,723 (333)

OTU analysis using metagenomic shotgun sequencing data. [PDF]

PLoS ONE, 2012
Because of technological limitations, the primer and amplification biases in targeted sequencing of 16S rRNA genes have veiled the true microbial diversity underlying environmental samples. However, the protocol of metagenomic shotgun sequencing provides
Xiaolin Hao, Ting Chen
doaj   +1 more source

The profiling of microbiota in vaginal swab samples using 16S rRNA gene sequencing and IS-pro analysis

BMC Microbiology, 2021
Background 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host ...
M. Singer, R. Koedooder, M. P. Bos, L. Poort, S. Schoenmakers, P. H. M. Savelkoul, J. S. E. Laven, J. D. de Jonge, S. A. Morré, A. E. Budding   +9 more
doaj   +1 more source

Identification of Comamonas species using 16S rRNA gene sequence [PDF]

Bioinformation, 2009
A bacterial strain Bz02 was isolated from a water sample collected from river Gomti at the Indian city of Lucknow. We characterized the strain using 16S rRNA sequence. Phylogenetic analysis showed that the strain formed a monophyletic clade with members of the genus Comamonas.
Vimlesh, Yadav, Satya, Prakash, Shipra, Srivastava, Praveen Chandra, Verma, Vijayta, Gupta, Vaishali, Basu, Anil Kumar, Rawat   +6 more
openaire   +2 more sources

Strategy for the identification of micro-organisms producing food and feed products : bacteria producing food enzymes as study case [PDF]

, 2020
Recent European regulations require safety assessments of food enzymes (FE) before their commercialization. FE are mainly produced by micro-organisms, whose viable strains nor associated DNA can be present in the final products.
De Keersmaecker, Sigrid C. J., Deckers, Marie, Deforce, Dieter, Denayer, Sarah, Fraiture, Marie-Alice, Heyndrickx, Marc, Roosens, Nancy H. C., Vanneste, Kevin, Winand, Raf   +8 more
core   +2 more sources

Comparison of 16S rRNA gene sequences of genus Methanobrevibacter [PDF]

BMC Microbiology, 2004
The phylogeny of the genus Methanobrevibacter was established almost 25 years ago on the basis of the similarities of the 16S rRNA oligonucleotide catalogs. Since then, many 16S rRNA gene sequences of newly isolated strains or clones representing the genus Methanobrevibacter have been deposited.
Patole Milind S, Pidiyar Vyankatesh J, González José M, Jangid Kamlesh, Dighe Abhijit S, Ranade Dilip R, Shouche Yogesh S   +6 more
openaire   +3 more sources

Reprocessing 16S rRNA Gene Amplicon Sequencing Studies: (Meta)Data Issues, Robustness, and Reproducibility [PDF]

Frontiers in Cellular and Infection Microbiology, 2021
High-throughput sequencing technology provides an efficient method for evaluating microbial ecology. Different bioinformatics pipelines can be used to convert 16S ribosomal RNA gene amplicon sequencing data into an operational taxonomic unit (OTU) table that is used to analyze microbial communities.
Xiongbin Kang, Xiongbin Kang, Dong Mei Deng, Wim Crielaard, Bernd W. Brandt   +4 more
openaire   +5 more sources

Full-length 16S rRNA gene amplicon analysis of human gut microbiota using MinION™ nanopore sequencing confers species-level resolution

BMC Microbiology, 2021
Background Species-level genetic characterization of complex bacterial communities has important clinical applications in both diagnosis and treatment. Amplicon sequencing of the 16S ribosomal RNA (rRNA) gene has proven to be a powerful strategy for the ...
Yoshiyuki Matsuo, Shinnosuke Komiya, Yoshiaki Yasumizu, Yuki Yasuoka, Katsura Mizushima, Tomohisa Takagi, Kirill Kryukov, Aisaku Fukuda, Yoshiharu Morimoto, Yuji Naito, Hidetaka Okada, Hidemasa Bono, So Nakagawa, Kiichi Hirota   +13 more
doaj   +1 more source

16S classifier: a tool for fast and accurate taxonomic classification of 16S rRNA hypervariable regions in metagenomic datasets. [PDF]

PLoS ONE, 2015
The diversity of microbial species in a metagenomic study is commonly assessed using 16S rRNA gene sequencing. With the rapid developments in genome sequencing technologies, the focus has shifted towards the sequencing of hypervariable regions of 16S ...
Nikhil Chaudhary, Ashok K Sharma, Piyush Agarwal, Ankit Gupta, Vineet K Sharma   +4 more
doaj   +1 more source

A Quantitative Sequencing Framework for Absolute Abundance Measurements of Mucosal and Lumenal Microbial Communities [PDF]

, 2020
A fundamental goal in microbiome studies is determining which microbes affect host physiology. Standard methods for determining changes in microbial taxa measure relative, rather than absolute abundances.
Barlow, Jacob T., Bogatyrev, Said R., Ismagilov, Rustem F.   +2 more
core   +1 more source

Sequence Diversity of Neisseria meningitidis 16S rRNA Genes and Use of 16S rRNA Gene Sequencing as a Molecular Subtyping Tool [PDF]

Journal of Clinical Microbiology, 2002
ABSTRACT We investigated the diversity of the primary sequences of 16S rRNA genes among Neisseria meningitidis strains (Men) and evaluated the use of this approach as a molecular subtyping tool. We aligned and compared a 1,417-bp fragment of the 16S rRNA gene from 264 Men strains of serogroups A, B, C, and
Claudio T, Sacchi, Anne M, Whitney, Michael W, Reeves, Leonard W, Mayer, Tanja, Popovic   +4 more
openaire   +2 more sources