Results 11 to 20 of about 246,967 (290)

16S-FASAS: an integrated pipeline for synthetic full-length 16S rRNA gene sequencing data analysis [PDF]

PeerJ, 2022
Background The full-length 16S rRNA sequencing can better improve the taxonomic and phylogenetic resolution compared to the partial 16S rRNA gene sequencing.
Ke Zhang, Rongnan Lin, Yujun Chang, Qing Zhou, Zhi Zhang   +4 more
doaj   +2 more sources

Microbial communities in polychlorinated biphenyl (PCB)-contaminated wastewater lagoon sediments: PCB congener, quantitative PCR, and 16S rRNA gene amplicon sequencing datasets

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, Jessica M. Ewald, Yi Liang, Andres Martinez, Andrew M. Awad, Keri C. Hornbuckle, Jerald L. Schnoor   +6 more
doaj   +1 more source

Performance of Conventional Urine Culture Compared to 16S rRNA Gene Amplicon Sequencing in Children with Suspected Urinary Tract Infection

Microbiology Spectrum, 2021
Because some organisms causing urinary tract infection (UTI) may be difficult to culture, examination of bacterial gene sequences in the urine may provide a more accurate view of bacteria present during a UTI.
Christopher W. Marshall, Marcia Kurs-Lasky, Christi L. McElheny, Sophia Bridwell, Hui Liu, Nader Shaikh   +5 more
doaj   +1 more source

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, Yuki, Tsuchiya, Chiho, Kiriyama, Masumi, Itoh, Hisao, Morisaki   +4 more
openaire   +2 more sources

Benchmarking of 16S rRNA gene databases using known strain sequences [PDF]

Bioinformation, 2021
16S rRNA gene analysis is the most convenient and robust method for microbiome studies. Inaccurate taxonomic assignment of bacterial strains could have deleterious effects as all downstream analyses rely heavily on the accurate assessment of microbial taxonomy.
Dixit, Kunal, Davray, Dimple, Chaudhari, Diptaraj, Kadam, Pratik, Kshirsagar, Rudresh, Shouche, Yogesh, Dhotre, Dhiraj, Saroj, Sunil D   +7 more
openaire   +2 more sources

Long-read MinION™ sequencing of 16S and 16S-ITS-23S rRNA genes provides species-level resolution of Lactobacillaceae in mixed communities

Frontiers in Microbiology, 2023
The Lactobacillaceae are lactic acid bacteria harnessed to deliver important outcomes across numerous industries, and their unambiguous, species-level identification from mixed community environments is an important endeavor.
Sandra A. Olivier, Sandra A. Olivier, Michelle K. Bull, Michelle K. Bull, Mikael Lenz Strube, Robert Murphy, Tom Ross, John P. Bowman, Belinda Chapman, Belinda Chapman   +9 more
doaj   +1 more source

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

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