Results 81 to 90 of about 47,490 (285)

Assessing the Gene Content of the Megagenome: Sugar Pine (Pinus lambertiana). [PDF]

, 2016
Sugar pine (Pinus lambertiana Douglas) is within the subgenus Strobus with an estimated genome size of 31 Gbp. Transcriptomic resources are of particular interest in conifers due to the challenges presented in their megagenomes for gene identification ...
Delfino-Mix, Annette, Famula, Randi A, Gonzalez-Ibeas, Daniel, Langley, Charles H, Loopstra, Carol A, Martinez-Garcia, Pedro J, Neale, David B, Stevens, Kristian A, Wegrzyn, Jill L   +8 more
core   +2 more sources

The ageing holobiont: crosstalk between telomere dynamics, oxidative stress and the gut microbiome

Biological Reviews, EarlyView.
ABSTRACT The gut tissue is at the frontline of early onset of ageing. It exhibits high cell turnover rates and rapid telomere shortening, which can have systemic effects on the developing or senescing organism. We conducted a literature review of studies on the crosstalk between telomere length dynamics, telomerase activity, oxidative stress, and gut ...
Michael L. Pepke, Søren B. Hansen, Morten T. Limborg   +2 more
wiley   +1 more source

Long-read next-generation sequencing for molecular diagnosis of pediatric endocrine disorders [PDF]

Annals of Pediatric Endocrinology & Metabolism
Recent advances in long-read next-generation sequencing (NGS) have enabled researchers to identify several pathogenic variants overlooked by short-read NGS, array-based comparative genomic hybridization, and other conventional methods.
Yoko Kuroki, Atsushi Hattori, Keiko Matsubara, Maki Fukami   +3 more
doaj   +1 more source

PacBio Long Reads Improve Metagenomic Assemblies, Gene Catalogs, and Genome Binning

Frontiers in Genetics, 2020
PacBio long reads sequencing presents several potential advantages for DNA assembly, including being able to provide more complete gene profiling of metagenomic samples.
Haiying Xie, Haiying Xie, Caiyun Yang, Yamin Sun, Yasuo Igarashi, Tao Jin, Feng Luo, Feng Luo   +7 more
doaj   +1 more source

Recent Advances in Chemical Probing Strategies for RNA Structure Determination in Vivo

Chemistry – A European Journal, EarlyView.
This Review illustrates how structural probes combined with advanced sequencing technologies are revolutionizing our ability to map RNA structures and interactions within living cells. It highlights the development of innovative strategies tailored to probe RNA structures in particular biological contexts.
Maryana Yarshova, Jieyu Zhao, Chun Kit Kwok   +2 more
wiley   +1 more source

Genome-wide profiling of highly similar paralogous genes using HiFi sequencing

Nature Communications
Variant calling is hindered in segmental duplications by sequence homology. We developed Paraphase, a HiFi-based informatics method that resolves highly similar genes by phasing all haplotypes of paralogous genes together.
Xiao Chen, Daniel Baker, Egor Dolzhenko, Joseph M. Devaney, Jessica Noya, April S. Berlyoung, Rhonda Brandon, Kathleen S. Hruska, Lucas Lochovsky, Paul Kruszka, Scott Newman, Emily Farrow, Isabelle Thiffault, Tomi Pastinen, Dalia Kasperaviciute, Christian Gilissen, Lisenka Vissers, Alexander Hoischen, Seth Berger, Eric Vilain, Emmanuèle Délot, UCI Genomics Research to Elucidate the Genetics of Rare diseases (UCI GREGoR) Consortium, Michael A. Eberle   +22 more
doaj   +1 more source

Improve homology search sensitivity of PacBio data by correcting frameshifts [PDF]

Bioinformatics, 2016
Single-molecule, real-time sequencing developed by Pacific BioSciences produces longer reads than secondary generation sequencing technologies such as Illumina. However, PacBio data has high sequencing error rate and most of the errors are insertion or deletion errors, causing frameshifts and leading to marginal alignment scores and short alignments in
Nan, Du, Yanni, Sun
openaire   +2 more sources

Draft genome sequences of gammaproteobacterial methanotrophs isolated from lake washington sediment. [PDF]

, 2015
The genomes of Methylosarcina lacus LW14(T) (=ATCC BAA-1047(T) = JCM 13284(T)), Methylobacter sp. strain 21/22, Methylobacter sp. strain 31/32, Methylomonas sp. strain LW13, Methylomonas sp. strain MK1, and Methylomonas sp.
Chistoserdova, Ludmila, Kalyuzhnaya, Marina G, Lamb, Andrew E, McTaggart, Tami L, Oshkin, Igor Y, Shapiro, Nicole, Woyke, Tanja   +6 more
core   +1 more source

Desulfovibrio‐Hydrogen Sulfide Mediates Capsaicin‐Induced Oxidative Stress and Gut Inflammation via TXNIP/NLRP3 Pathway

Food Bioengineering, EarlyView.
ABSTRACT The intake of capsaicin can disrupt the gut microecology and impact health, yet its underlying mechanism is not fully elucidated. This study, by establishing capsaicin‐induced human microbiota‐associated (HMA) mouse models revealed the molecular mechanism by which capsaicin perturbs the gut microbiota and metabolites, leading to intestinal ...
Liangliang Zhu, Xiangru Feng, Xiaoxuan Lu, Geng Han, Jiaqi Zou, Zhaoyang Dong, Ting Luo, Jiayang Jin, Mengyao Zhao, Xiaoguo Ji, Liming Zhao   +10 more
wiley   +1 more source

Soil Metagenome PacBio v1

This protocol describes the sample collection to sequence acquisition workflow for PacBio Revio long-read sequencing of a complex soil sample using SMRT Bell library prep kit 2.0 and Revio SMRT cells.
Robert S James, Gaetan Benoit, Sebastian Raguideau, Georgina Alabone, Christopher Quince   +4 more
openaire   +1 more source