Results 11 to 20 of about 237,694 (293)

Evaluating the Reproducibility of Amplicon Sequencing Data Derived from Deep-Sea Cold Seep Sediment-Associated Microbiota

Microbiology Spectrum, 2023
Benefiting from the rapid developments and wide applications of high-throughput sequencing, great advancements have been made in investigating microbiota, which are highly diverse and play key roles in both element cycling and the energy flow of ...
Jie Kong, Jingchun Feng, Liwei Sun, Si Zhang   +3 more
doaj   +1 more source

SESAME (SEquence Sorter & AMplicon Explorer): genotyping based on high-throughput multiplex amplicon sequencing [PDF]

Bioinformatics, 2010
Abstract Summary: Characterizing genetic diversity through genotyping short amplicons is central to evolutionary biology. Next-generation sequencing (NGS) technologies changed the scale at which these type of data are acquired. SESAME is a web application package that assists genotyping of multiplexed individuals for several markers ...
Meglécz, Emese, Piry, Sylvain, Desmarais, Erick, Galan, Maxime, Gilles, André, Guivier, Emmanuel, Pech, Nicolas, Martin, Jean-François   +7 more
openaire   +5 more sources

Establishment and assessment of an amplicon sequencing method targeting the 16S-ITS-23S rRNA operon for analysis of the equine gut microbiome

Scientific Reports, 2021
Microbial communities are commonly studied by using amplicon sequencing of part of the 16S rRNA gene. Sequencing of the full-length 16S rRNA gene can provide higher taxonomic resolution and accuracy.
Yuta Kinoshita, Hidekazu Niwa, Eri Uchida-Fujii, Toshio Nukada   +3 more
doaj   +1 more source

Species Identification and Profiling of Complex Microbial Communities Using Shotgun Illumina Sequencing of 16S rRNA Amplicon Sequences [PDF]

, 2013
The high throughput and cost-effectiveness afforded by short-read sequencing technologies, in principle, enable researchers to perform 16S rRNA profiling of complex microbial communities at unprecedented depth and resolution. Existing Illumina sequencing
Hibberd, Martin Lloyd, Ho, Eliza Xin Pei, Kukkillaya, Vinutha Uppoor, Lay, Christophe, Low, Louie, Nagarajan, Niranjan, Ong, Swee Hoe, Wilm, Andreas   +7 more
core   +8 more sources

Bacterial Contamination of the Surgical Site at the Time of Elective Caesarean Section in Belgian Blue Cows—Part 2: Identified by 16Sr DNA Amplicon Sequencing

Veterinary Sciences, 2023
This study aimed to describe the bacterial composition of the surgical site during elective caesarean sections (CSs) using the 16Sr DNA amplicon sequencing performed in parallel to bacterial culture.
Salem Djebala, Elise Coria, Florian Munaut, Linde Gille, Justine Eppe, Nassim Moula, Bernard Taminiau, Georges Daube, Philippe Bossaert   +8 more
doaj   +1 more source

Predicting environmental stressor levels with machine learning: a comparison between amplicon sequencing, metagenomics, and total RNA sequencing based on taxonomically assigned data

Frontiers in Microbiology, 2023
IntroductionMicrobes are increasingly (re)considered for environmental assessments because they are powerful indicators for the health of ecosystems.
Christopher A. Hempel, Christopher A. Hempel, Dominik Buchner, Leoni Mack, Marie V. Brasseur, Dan Tulpan, Dan Tulpan, Florian Leese, Florian Leese, Dirk Steinke, Dirk Steinke   +10 more
doaj   +1 more source

HiMAP: robust Phylogenomics from Highly Multiplexed Amplicon sequencing [PDF]

Molecular Ecology Resources, 2017
ABSTRACTHigh-throughput sequencing has fundamentally changed how molecular phylogenetic datasets are assembled, and phylogenomic datasets commonly contain 50-100-fold more loci than those generated using traditional Sanger-based approaches. Here, we demonstrate a new approach for building phylogenomic datasets using single tube, highly multiplexed ...
Dupuis, Julian R., Bremer, Forest T., Kauwe, Angela, Jose, Michael San, Leblanc, Luc, Rubinoff, Daniel, Geib, Scott M.   +6 more
openaire   +3 more sources

Ultrahigh-Throughput Multiplexing and Sequencing of >500-Base-Pair Amplicon Regions on the Illumina HiSeq 2500 Platform

mSystems, 2019
Amplification, sequencing, and analysis of the 16S rRNA gene affords characterization of microbial community composition. As this tool has become more popular and amplicon-sequencing applications have grown in the total number of samples, growth in ...
Johanna B. Holm, Michael S. Humphrys, Courtney K. Robinson, Matthew L. Settles, Sandra Ott, Li Fu, Hongqiu Yang, Pawel Gajer, Xin He, Elias McComb, Patti E. Gravitt, Khalil G. Ghanem, Rebecca M. Brotman, Jacques Ravel   +13 more
doaj   +3 more sources

A rapid, cost-effective tailed amplicon method for sequencing SARS-CoV-2

BMC Genomics, 2020
Background The global COVID-19 pandemic has led to an urgent need for scalable methods for clinical diagnostics and viral tracking. Next generation sequencing technologies have enabled large-scale genomic surveillance of SARS-CoV-2 as thousands of ...
Daryl M. Gohl, John Garbe, Patrick Grady, Jerry Daniel, Ray H. B. Watson, Benjamin Auch, Andrew Nelson, Sophia Yohe, Kenneth B. Beckman   +8 more
doaj   +1 more source

Nanopore Is Preferable over Illumina for 16S Amplicon Sequencing of the Gut Microbiota When Species-Level Taxonomic Classification, Accurate Estimation of Richness, or Focus on Rare Taxa Is Required

Microorganisms, 2023
Nanopore sequencing is a promising technology used for 16S rRNA gene amplicon sequencing as it can provide full-length 16S reads and has a low up-front cost that allows research groups to set up their own sequencing workflows.
Márton Szoboszlay, Laetitia Schramm, David Pinzauti, Jeanesse Scerri, Anna Sandionigi, Manuele Biazzo   +5 more
doaj   +1 more source