bifidoAnnotator: fine-grained annotation of bifidobacterial glycoside hydrolases for human milk glycan utilization [0.03%]
BifidoAnnotator：细粒度注释双歧杆菌糖苷水解酶以利用人类乳寡糖
Nicholas Pucci,Daniel R Mende
Nicholas Pucci
Human milk glycan (HMG) metabolism, especially by bifidobacteria, is crucial for infant gut colonization and healthy microbiome development. Bifidobacterial species and even strains are highly variable in their ability and in their enzymati...
Rolling out Plaque-2-seq: a single plaque sequencing approach enabling rapid, low-cost sequencing of phages directly from plaques [0.03%]
斑块测序（Plaque-2-seq）的推出：一种快速、低成本的直接从噬菌斑中进行噬菌体测序的方法
Slawomir Michniewski,Rebecca Glenny,Andrew Kinsella et al.
Slawomir Michniewski et al.
Rapid, accurate and scalable sequencing of bacteriophage genomes is critical to advance phage therapy, build phage biobanks and understand phage genomic diversity. Current methods are based on sequencing and assembling complete bacteriophag...
Factors contributing to the frequent interspecies transmission of G4P[6] Rotavirus alphagastroenteritidis strains from pigs to humans in Vietnam: molecular epidemiological insights [0.03%]
越南G4P[6]轮状病毒alphagastroenteritidis菌株从猪到人类频繁跨物种传播的影响因素：分子流行病学见解
Miho Kaneko,Thi Nguyen Hoa-Tran,Toyoko Nakagomi et al.
Miho Kaneko et al.
In parts of Asia, including Vietnam, Rotavirus alphagastroenteritidis (formerly known as Rotavirus A; RVA) strains of porcine origin, particularly G4P[6] strains, have been detected in humans at relatively high frequencies. This study inves...
Max L Cummins,Anne E Watt,Celeste M Donato et al.
Max L Cummins et al.
ColV/ColBM and ColIa/senB F virulence plasmids feature prominently in Escherichia coli associated with urinary tract and bloodstream infections globally. Australian-sourced E. coli that carry these plasmids were examined among 5,471 isolate...
Are the genomes of motile Aeromonas species from the aquatic environment shaped by local geography and host species? [0.03%]
水环境中运动型气单胞菌基因组是否受到当地地理环境和宿主种类的影响？
Christopher J Payne,Vo Hong Phuong,Heri Kurniawan et al.
Christopher J Payne et al.
Aeromonas dhakensis and Aeromonas hydrophila cause significant economic losses within the global aquaculture sector, affecting numerous farmed fish species and posing a zoonotic threat to human health. In this study, we sequenced, assembled...
Emergence of outbreak-driving high-risk Pseudomonas aeruginosa lineages in Taiwan: phylogenomic insights into ST292 and the ST235* sublineage [0.03%]
台湾爆发流行的高风险绿脓杆菌谱系的出现及其ST292和ST235*亚谱系的基因组见解
Chih-Ming Chen,Hui-Ling Tang,Se-Chin Ke et al.
Chih-Ming Chen et al.
The global rise of carbapenem-resistant Pseudomonas aeruginosa (CRPA) poses a significant threat to public health. Through active surveillance conducted between 2021 and 2022, we collected 92 distinct CRPA isolates and identified a clonal s...
Genome-based source attribution using a One Health Escherichia coli isolate collection from 2013 to 2023 in Scotland [0.03%]
基于基因组的来源归属：利用2013年至2023年苏格兰“同一健康”大肠杆菌分离株集合进行分析
Antonia Chalka,Louise Crozier,Adriana Vallejo-Trujillo et al.
Antonia Chalka et al.
Random forest-based source attribution models were developed from a 'One Health' resource comprising 4,230 high-quality whole-genome assemblies from Escherichia coli. These were isolated from a wide range of sources, predominantly originati...
Screen for signatures of positive selection in the core genome of Staphylococcus epidermidis [0.03%]
筛选表皮葡萄球菌核心基因组中正选择的信号
Callum O Rimmer,Jonathan C Thomas
Callum O Rimmer
Staphylococcus epidermidis is a commensal skin bacterium and the leading cause of medical-device-associated infections. Although previous studies have investigated the phylogenetic diversity of the species, the level of positive selection o...
Harnessing gastrointestinal microbial co-association networks to predict feed efficiency and methane emissions across beef and dairy cattle [0.03%]
利用胃肠微生物共联网络预测牛和奶牛的饲料效率和甲烷排放量
Pamela A Alexandre,Yuliaxis Ramayo-Caldas,Milka Popova et al.
Pamela A Alexandre et al.
Enteric methane emissions from cattle pose a significant environmental concern and represent a substantial energy loss for the animal, necessitating the development of effective mitigation strategies. The gastrointestinal microbiota plays a...
Reducing mapping reference and lineage bias in Mycobacterium tuberculosis [0.03%]
减少结核分枝杆菌基因组组装中的参考序列和系谱偏差
Arturo Torres Ortiz,Xavier Didelot,Louis Grandjean
Arturo Torres Ortiz
Whole-genome sequencing provides a vast amount of genetic information, but its use in clinical and epidemiological studies often depends on the accurate inference of genomic variants. Comparative genomic studies in Mycobacterium tuberculosi...