Results 251 to 260 of about 237,694 (293)

The influence of ultra‐processed foods on gut microbiome and inflammatory markers in schoolchildren from Northeastern Brazil

Journal of Pediatric Gastroenterology and Nutrition, EarlyView.
Abstract Objective This study investigated the relationship between the consumption of ultra‐processed foods (UPF), dietary profile, and inflammation on the intestinal microbiome in children. Methods A cross‐sectional study was conducted using data from a community‐based controlled trial involving 82 children aged 7–11 years enrolled in public schools ...
Cristiane Cosmo Silva‐Luis, Paulo César Trindade da Costa, Vinicius José Baccin Martins, José Luiz de Brito Alves   +3 more
wiley   +1 more source

The unresolved struggle of 16S rRNA amplicon sequencing: a benchmarking analysis of clustering and denoising methods. [PDF]

Environ Microbiome
Fares M, Tharwat EK, Cleenwerck I, Monsieurs P, Van Houdt R, Vandamme P, El-Hadidi M, Mysara M.   +7 more
europepmc   +1 more source

Complete chloroplast genome of Triticum aestivum cultivar ‘Keumkang’ from Korea (Poaceae) and comparative chloroplast genomes of the members of the Triticum genus

Journal of the Science of Food and Agriculture, EarlyView.
Abstract BACKGROUND Bread wheat (Triticum aestivum L.) is a major global food crop, and understanding its maternal lineage and genetic diversity is essential for breeding, authentication, and evolutionary studies. Chloroplast genomes provide valuable markers for phylogenetic inference and cultivar discrimination; however, conventional plant DNA ...
Kang‐Rae Kim, Changhyun Choi, Jung Sun Kim, Myung‐Hee Kim, Hwa Jin Jung, DaHye Jeon, Jin‐Hyun Kim   +6 more
wiley   +1 more source

Benchmarking 16S rRNA Gene-Based Approaches to Bacterial Taxonomy Assignment Based on Amplicon Sequencing With Illumina and Oxford Nanopore. [PDF]

Int J Microbiol
Hoffbeck C, Middleton DMRL, Nelson NJ, Taylor MW.   +3 more
europepmc   +1 more source

Comparison of RNA- and DNA-based 16S amplicon sequencing to find the optimal approach for the analysis of the uterine microbiome. [PDF]

Sci Rep
Dyroff AI, López-Valiñas Á, Magalhaes HB, Podico G, Canisso IF, Almiñana C, Bauersachs S.   +6 more
europepmc   +1 more source

Computational Comparison of Differential Splicing Tools for Targeted RNA Long-Amplicon Sequencing (rLAS). [PDF]

Int J Mol Sci
Ura H, Hatanaka H, Togi S, Niida Y.
europepmc   +1 more source

A Short-Read Amplicon Sequencing Protocol and Bioinformatic Pipeline for Ecological Surveillance of Dipteran Disease Vectors. [PDF]

Mol Ecol Resour
Lima-Cordón R, Mohabir JT, Sooklall M, Zurita AM, Shieh M, Knox C, Gobran S, Johnson Z, Laws M, Panchal R, Niles-Robin R, Cox H, Grillet ME, Moreno JE, Herrera S, Quinones M, Early AM, Tennessen JA, Neafsey DE.   +18 more
europepmc   +1 more source

Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research? [PDF]

Poult Sci
Lyte JM, Seyoum MM, Ayala D, Kers JG, Caputi V, Johnson T, Zhang L, Rehberger J, Zhang G, Dridi S, Hale B, De Oliveira JE, Grum D, Smith AH, Kogut M, Ricke SC, Ballou A, Potter B, Proszkowiec-Weglarz M.   +18 more
europepmc   +1 more source

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Amplicon Sequencing Pipelines in Metagenomics

2023
Taxonomic profiling among a large number of samples is a fundamental task during amplicon sequencing analysis. The heterogeneity and technical noises in the sample handling, library preparation, and sequencing present a major challenge to how the biological conclusions are drawn from the data analysis, and accordingly, many tools have been developed to
openaire   +2 more sources

Practical innovations for high-throughput amplicon sequencing

Nature Methods, 2013
We describe improvements for sequencing 16S ribosomal RNA (rRNA) amplicons, a cornerstone technique in metagenomics. Through unique tagging of template molecules before PCR, amplicon sequences can be mapped to their original templates to correct amplification bias and sequencing error with software we provide.
Derek S, Lundberg, Scott, Yourstone, Piotr, Mieczkowski, Corbin D, Jones, Jeffery L, Dangl   +4 more
openaire   +2 more sources