Bacterial diversity and community in Qula from the Qinghai–Tibetan Plateau in China [PDF]
PeerJ, 2018 Qula is a cheese-like product usually prepared with unpasteurized yak milk under open conditions, with both endogenous and exogenous microorganisms involved in the fermentation process.
Yan Zhu +7 more
doaj +2 more sources
Scientific Reports, 2021 Environmental DNA (eDNA) analysis is a method of detecting DNA from environmental samples and is used as a biomonitoring tool. In recent studies, Illumina MiSeq has been the most extensively used tool for eDNA metabarcoding.
Ryohei Nakao +5 more
doaj +1 more source
PIPITS: an automated pipeline for analyses of fungal internal transcribed spacer sequences from the Illumina sequencing platform [PDF]
, 2015 1. Studying fungal biodiversit y using data generated from Illumina MiSeq sequencing platforms poses a number of bioinformatic challenges with the analysis typically involving a large number of tools for each analytical step from quality filtering to ...
Booth, Tim +7 more
core +1 more source
Sample preparation for Illumina MiSeq Dual Index metabarcoding v1 [PDF]
, 2020 The protocol shows amplicon sequencing samples preoared by Illumina Dual Index strategy, and sequened with Illumina MiSeq (RRID:SCR_016379) for bacteria and microeukaryotes.
Xiaohuan Sun, Yuehua Hu, Zewei Song
openaire +1 more source
Metagenomic investigation of faecal microbiota in sheep and goats of the same ages
Journal of Taibah University for Science, 2021 Despite the significant influence of the microbial communities that inhabit the ruminant’s gastrointestinal tract on their health and production, the study of the composition and variations in sheep and goats gut microbiome is limited.
I. I. Shabana +2 more
doaj +1 more source
cpn60 metagenomic amplicon library preparation for the Illumina Miseq platform
, 2021 Abstract This protocol can be applied to determine the composition of a microbial community. The cpn60 gene (also known as groEL, hsp60) is present in almost all bacteria and a 552-558 bp region of the gene has been established as a barcode for species level identification of bacteria. The primer cocktail used in this
Champika Fernando, Janet E. Hill
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Hepatology, EarlyView., 2022 In this study of the gut mucosal microbiota in primary sclerosing cholangitis (PSC), we found consistent microbiota features associated with PSC and recurrent PSC, PSC with inflammatory bowel disease and a persistent gut dysbiosis after liver transplantation Abstract Background and Aims Several characteristic features of the fecal microbiota have been ...
Mikal Jacob Hole +12 more
wiley +1 more source
Double-digest RADseq loci using standard Illumina indexes improve deep and shallow phylogenetic resolution of Lophodermium, a widespread fungal endophyte of pine needles. [PDF]
, 2018 The phylogenetic and population genetic structure of symbiotic microorganisms may correlate with important ecological traits that can be difficult to directly measure, such as host preferences or dispersal rates.
Oono, Ryoko, Salas-Lizana, Rodolfo
core +1 more source
Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis [PDF]
BMC Microbiology, 2015 Although high-throughput sequencing, such as Illumina-based technologies (e.g. MiSeq), has revolutionized microbial ecology, adaptation of amplicon sequencing for environmental microbial community analysis is challenging due to the problem of low base diversity.A new phasing amplicon sequencing approach (PAS) was developed by shifting sequencing phases
Wu, Liyou +9 more
openaire +2 more sources
Diversity of immunoglobulin light chain genes in non-teleost ray-finned fish uncovers IgL subdivision into five ancient isotypes [PDF]
, 2018 The aim of this study was to fill important gaps in the evolutionary history of immunoglobulins by examining the structure and diversity of IgL genes in non-teleost ray-finned fish.
Andreyushkova, Daria A +14 more
core +5 more sources