Results 221 to 230 of about 743,554 (284)

Characterization of the dynamic microbiome evolution across thrips species

Insect Science, EarlyView.
Comprehensive survey of the microbiome in thrips. The dominant bacterial genera found in thrips include intracellular ones, such as Wolbachia and Spiroplasma, and extracellular ones, including Serratia, Pantoea, and Acinetobacter. We isolated and sequenced high‐quality genomes of two dominant symbionts, Pantoea dispersa and Serratia marcescens.
Xiaodi Hu, Zhaohui Shi, Yangwei Gao, Hanze Zheng, Lin Lin, Jian‐Ping Chen, Yong Chen, Chuan‐Xi Zhang, Yiyuan Li   +8 more
wiley   +1 more source

MethyNano: supervised contrastive pretraining enables robust and generalizable methylation detection from nanopore sequencing. [PDF]

Bioinformatics
Yan J, Chen Y, Gong Y, Zhang C, Yang J.
europepmc   +1 more source

Decoding Dual Regulatory Layers: Integrating Differential Expression and Alternative Splicing Dynamics in the Evolution of Laryngeal Echolocation Across Chiropteran Lineages

Integrative Zoology, EarlyView.
We integrated short‐read and long‐read RNA‐seq data from cochlear tissues of echolocating and non‐echolocating bats to disentangle transcriptional and post‐transcriptional regulation. Echolocating bats showed neural‐function enrichment among differentially expressed genes, while alternatively spliced genes were linked to epigenetic regulation. Overlaps
Jianyu Wu, Daoyuan Hu, Min Chen, Xiuguang Mao   +3 more
wiley   +1 more source

Performance of mechanically sheared DNA in multiplexed Oxford Nanopore sequencing for <i>Salmonella</i> Typhi genomic surveillance. [PDF]

Microb Genom
Maung HT, Morita M, Han SM, Mishima H, Koga C, Evangelista JWC, Girasol MJ, Suzuki S, Yoshiura KI, Kodama T, Smith C, Hiyoshi H.   +11 more
europepmc   +1 more source

Evolutionary and Epidemiological Characterization of Multidrug‐Resistant Escherichia coli Isolated From Pangolins in China

Integrative Zoology, EarlyView.
ABSTRACT Malayan pangolin populations have fallen to a critically endangered level, and illegal trafficking of wild pangolins is a global problem. Little is known about antimicrobial‐resistant bacteria (MDRB) harbored by pangolins, although pangolins are frequently consumed as food or used in traditional medicine. In this study, we report for the first
Yawen Wang, Xue Wang, Jianan Zhao, Jun Zeng, Shijia Hu, Fang Ji, Guoying Dong, Hongxuan He, Chengmin Wang   +8 more
wiley   +1 more source

DNA methylation profiles of quail blood cells by whole-genome bisulfite and Oxford Nanopore sequencing. [PDF]

Sci Data
Cerutti C, Leroux S, Terzian P, Gourichon D, Lledo J, Iampietro C, Sabban J, Vernette C, Klopp C, Donnadieu C, Devailly G, Pitel F, Vandecasteele C.   +12 more
europepmc   +1 more source

Microbiome Insights Into Zoonotic Risk at Wildlife–Human Interfaces in a Transitioning Landscape in Thailand

Integrative Zoology, EarlyView.
This study shows how ecological transitions, such as reforestation in Southeast Asia, reshape host–microbe–pathogen dynamics at the wildlife–domestic interface. By integrating long‐read microbiome sequencing, ecological gradients, and statistical and network analysis, we identify host species that disproportionately contribute to pathogen diversity and
Pauline Van Leeuwen, Chuanpot Thinphovong, Vincent Sluydts, Alix Nicolas, Anamika Kritiyakan, Areeya Kriengudom, Pipat Soisook, Kittipong Chaisiri, Serge Morand, Johan Michaux   +9 more
wiley   +1 more source

Benchmarking Full-Length ITS Metabarcoding Across Illumina 2 × 500, PacBio, and Oxford Nanopore Sequencing Using Mock and Soil Communities. [PDF]

Mol Ecol Resour
Tedersoo L, Prous M, Chen M, Anslan S, Saar I, Dubois B, Mikryukov V.   +6 more
europepmc   +1 more source

ITSxRust: ITS Region extraction with partial‐chain recovery and structured diagnostics for long‐read amplicon sequencing

Methods in Ecology and Evolution, EarlyView.
Abstract Long‐read amplicon sequencing is now routine for fungal metabarcoding, and locating the internal transcribed spacer (ITS) subregions within reads has become a throughput bottleneck. Existing extractors were designed for shorter reads and for datasets in which near‐identical sequences are common, and neither assumption holds for Oxford Nanopore
Aaron O'Brien, Catalina Lagos, Kiara Fernández, Bárbara Ojeda, Pilar Parada   +4 more
wiley   +1 more source

Evaluation of Oxford nanopore sequencing for antimicrobial resistance surveillance in <i>Salmonella</i>: comparison with phenotypic antimicrobial susceptibility in a large-scale study. [PDF]

Microbiol Spectr
Hong Y-P, Liao Y-S, Wang Y-W, Kuo S-C, Teng R-H, Liang S-Y, Chang J-H, Wei HL, Chiou C-S.   +8 more
europepmc   +1 more source