Independent, ongoing clade-specific expansions of IS 5 elements in Pseudomonas syringae [0.03%]
假单胞菌天蓝种中IS5类元素的独立、持续的谱系特异性扩张
David A Baltrus,Audrey Sweten,Thomas Conomos et al.
David A Baltrus et al.
Insertion sequence (IS) elements are transposable regions of DNA present in a majority of bacterial genomes. It is hypothesized that differences in distributions of IS elements across bacterial strains and species reflect underlying differe...
The Mpox contextual data specification package: a data curation toolkit to support collaborative pathogen genomic surveillance [0.03%]
猴痘情境数据规范包：支持病原体基因组监测的合作的数据管理工具包
Emma J Griffiths,Rhiannon Cameron,Charlotte Barclay et al.
Emma J Griffiths et al.
A sudden increase in the number of Mpox virus (MPXV) cases worldwide prompted the WHO to declare a Public Health Emergency of International Concern in 2022 and again in 2024. Public health genomic surveillance of MPXV in impacted areas is o...
The rise and spread of invasive emm 49 Streptococcus pyogenes in the USA [0.03%]
美国侵袭性emm49型A群链球菌的流行情况及其传播分析
Benjamin Metcalf,Srinivas Nanduri,Yuan Li et al.
Benjamin Metcalf et al.
Background. The propensity of Streptococcus pyogenes (group A Streptococcus) to invade normally sterile sites and cause invasive group A Streptococcus (iGAS) disease varies across strains, which are classified using the emm gene. Between 20...
Integration of bioinformatic tools for the detection of SARS-CoV-2 co-infection cases [0.03%]
用于检测SARS-CoV-2合并感染病例的生物信息工具整合
Adeliza Mae L Realingo,Francisco Gerardo M Polotan,Miguel Francisco B Abulencia et al.
Adeliza Mae L Realingo et al.
Co-infection with multiple severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants, though rare, may have clinical and public health implications, including facilitating variant recombination. Early detection of co-infections ...
Novel features of Mycoplasma genitalium genomes identified through Oxford Nanopore sequence analysis of isolates from Australia [0.03%]
通过纳米孔测序分析来自澳大利亚的解脲原体基因组发现的新特征
Jose L Huaman,Catriona S Bradshaw,Teck-Phui Chua et al.
Jose L Huaman et al.
Mycoplasma genitalium is a fastidious human pathogen with increasing antimicrobial resistance, yet its genomic landscape remains poorly characterized due to difficulties with culture, including prolonged incubation periods and low DNA yield...
Optimizing data-driven excellence: Canada's approach to using pathogen test datasets for quality control, pipeline development and training initiatives [0.03%]
基于数据驱动的质量提升：加拿大利用病原体检测数据集进行质量控制、开发分析流程和培训项目的方法
Kara D Loos,Mark Horsman,Jeff Tuff et al.
Kara D Loos et al.
Pathogen genomic surveillance is globally recognized as a pillar of public health. This field has expanded rapidly following the onset of the coronavirus disease 2019 (COVID-19) pandemic, and there is an urgent need to ensure the quality, c...
Adaptive evolution of Pseudomonas aeruginosa ST299 population colonizing a hospital copper water network over a 2.5-year period [0.03%]
铜水管网络中铜假单胞菌ST299种群适应性演化两年半动态
Maxine Virieux-Petit,Fabien Aujoulat,Chloé Dupont et al.
Maxine Virieux-Petit et al.
Background. Descriptions of genomic characters and dynamics related to Pseudomonas aeruginosa (PA) adaptation and survival in hospital water networks remain scarce but necessary for sustainable water management in hospitals.Methods. A new c...
Global population structure of Shiga toxin-producing Escherichia coli O103:H2 and the variation in their major virulence factor-encoding genetic elements [0.03%]
致病性大肠杆菌O103:H2的全球种群结构及其主要毒力因子遗传元件的变异分析
Itsuki Taniguchi,Yo Morimoto,Yoko Kimura et al.
Itsuki Taniguchi et al.
Shiga toxin (Stx)-producing Escherichia coli (STEC) is a major cause of serious gastrointestinal illness, including diarrhoea, haemorrhagic colitis and life-threatening haemolytic-uraemic syndrome. Although O157:H7 STEC strains are the most...
Exploring the IS-capades of Klebsiella pneumoniae: insertion sequences drive metabolic loss in obscure sub-lineages [0.03%]
探究克雷伯氏肺炎菌的IS元件：插入序列驱动代谢丢失在鲜为人知的亚谱系中发生
Ben Vezina,Claire White,Helena B Cooper et al.
Ben Vezina et al.
Introduction. Klebsiella pneumoniae is an opportunistic pathogen that causes a wide spectrum of infections within healthcare settings and the community. Four K. pneumoniae sub-lineages, defined using core gene multi-locus sequence types, ar...
Mitigation and detection of putative microbial contaminant reads from long-read metagenomic datasets [0.03%]
长读长元基因组数据集中潜在微生物污染物序列的鉴定与剔除
Stefany Ayala-Montaño,Ayorinde O Afolayan,Raisa Kociurzynski et al.
Stefany Ayala-Montaño et al.
Metagenomic sequencing of clinical samples has significantly enhanced our understanding of microbial communities. However, microbial contamination and host-derived DNA remain a major obstacle to accurate data interpretation. Here, we presen...