Genomic Epidemiology and Global Population Structure of Exfoliative Toxin A-Producing Staphylococcus aureus Strains Associated With Staphylococcal Scalded Skin Syndrome.
Genomic Epidemiology and Global Population Structure of Exfoliative Toxin A-Producing Staphylococcus aureus Strains Associated With Staphylococcal Scalded Skin Syndrome.
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DOI：
10.3389/fmicb.2021.663831
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发表时间：
2021
影响因子：
5.2
通讯作者：
David MZ
中科院分区：
文献类型：
--
作者：
Azarian T;Cella E;Baines SL;Shumaker MJ;Samel C;Jubair M;Pegues DA;David MZ
产剥脱性毒素的葡萄球菌是葡萄球菌烫伤样皮肤综合征（SSSS）的病原体。剥脱性毒素A（ETA）由eta编码，其存在于温和噬菌体ΦETA上。最近已观察到SSSS在北美的发病率增加;但很大程度上尚不清楚这是ΦETA宿主范围扩大的结果还是已建立谱系的迁移和出现。在这里，我们详细介绍了SSSS在新生儿重症监护病房的爆发调查，我们应用全基因组测序（WGS）和系统发育分析的金黄色葡萄球菌分离株收集病例和筛选的医护人员。我们鉴定了致病菌株为甲氧西林敏感的S。金黄色葡萄球菌（MSSA）序列类型582（ST 582）具有ΦETA。为了阐明ΦETA在葡萄球菌中的全球分布，我们使用最近开发的工具来查询含有eta的生物样本的现存细菌WGS数据，这些数据产生了1994年至2019年从32个国家收集的436个基因组。应用群体基因组分析方法，解决了S.金黄色葡萄球菌与溶原化ΦETA，并评估抗生素耐药决定簇以及ΦETA的多样性。该群体具有高度结构化的8个显性序列簇（SC），通常与S。金黄色ST克隆复合体。最常见的ST包括ST 109（24.3%）、ST 15（13.1%）、ST 121（10.1%）和ST 582（7.1%）。在有数据的菌株中，来自携带和疾病的菌株分布均匀。只有含有ST 121的SC具有从疾病收集的显著更多的分离株（69%，n = 46）而不是携带（31%，n = 21）。此外，我们鉴定了10.6%（46/436）的菌株为耐甲氧西林的S。金黄色葡萄球菌（MRSA）的mecA和SCCmec元件的存在。基于核苷酸同一性的ΦETA多样性评估揭示了27个聚簇，并且原噬菌体基因含量进一步解析了62个聚簇。ΦETA在谱系内相对稳定，但原噬菌体变异具有地理结构。这表明报告的发病率增加与现有谱系的迁移和扩增有关，而不是ΦETA向新基因组背景的移动。这一修订后的全球观点表明，ΦETA是多样的，广泛分布在多种基因组背景上，其分布在地理上各不相同。
Staphylococci producing exfoliative toxins are the causative agents of staphylococcal scalded skin syndrome (SSSS). Exfoliative toxin A (ETA) is encoded by eta, which is harbored on a temperate bacteriophage ΦETA. A recent increase in the incidence of SSSS in North America has been observed; yet it is largely unknown whether this is the result of host range expansion of ΦETA or migration and emergence of established lineages. Here, we detail an outbreak investigation of SSSS in a neonatal intensive care unit, for which we applied whole-genome sequencing (WGS) and phylogenetic analysis of Staphylococcus aureus isolates collected from cases and screening of healthcare workers. We identified the causative strain as a methicillin-susceptible S. aureus (MSSA) sequence type 582 (ST582) possessing ΦETA. To then elucidate the global distribution of ΦETA among staphylococci, we used a recently developed tool to query extant bacterial WGS data for biosamples containing eta, which yielded 436 genomes collected between 1994 and 2019 from 32 countries. Applying population genomic analysis, we resolved the global distribution of S. aureus with lysogenized ΦETA and assessed antibiotic resistance determinants as well as the diversity of ΦETA. The population is highly structured with eight dominant sequence clusters (SCs) that generally aligned with S. aureus ST clonal complexes. The most prevalent STs included ST109 (24.3%), ST15 (13.1%), ST121 (10.1%), and ST582 (7.1%). Among strains with available data, there was an even distribution of isolates from carriage and disease. Only the SC containing ST121 had significantly more isolates collected from disease (69%, n = 46) than carriage (31%, n = 21). Further, we identified 10.6% (46/436) of strains as methicillin-resistant S. aureus (MRSA) based on the presence of mecA and the SCCmec element. Assessment of ΦETA diversity based on nucleotide identity revealed 27 phylogroups, and prophage gene content further resolved 62 clusters. ΦETA was relatively stable within lineages, yet prophage variation is geographically structured. This suggests that the reported increase in incidence is associated with migration and expansion of existing lineages, not the movement of ΦETA to new genomic backgrounds. This revised global view reveals that ΦETA is diverse and is widely distributed on multiple genomic backgrounds whose distribution varies geographically.
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DOI：
10.3390/v9040070
发表时间：
2017-04-03
期刊：
Viruses
影响因子：
--
作者：
Adriaenssens E;Brister JR
通讯作者：
Brister JR
特应性湿疹病耀斑期间金黄色葡萄球菌定殖的微观进化和流行病学。
DOI：
10.1016/j.jid.2017.09.023
发表时间：
2018-03
期刊：
The Journal of investigative dermatology
影响因子：
--
作者：
Harkins CP;Pettigrew KA;Oravcová K;Gardner J;Hearn RMR;Rice D;Mather AE;Parkhill J;Brown SJ;Proby CM;Holden MTG
通讯作者：
Holden MTG
DOI：
10.1093/cid/ciz323
发表时间：
2020-03-03
期刊：
Clinical infectious diseases : an official publication of the Infectious Diseases Society of America
影响因子：
--
作者：
Jackson KA;Gokhale RH;Nadle J;Ray SM;Dumyati G;Schaffner W;Ham DC;Magill SS;Lynfield R;See I
通讯作者：
See I
影响因子：
4.5
作者：
Gonzalez, Blanca E.;Rueda, Adriana M.;Hulten, Kristina G.
通讯作者：
Hulten, Kristina G.
影响因子：
3.7
作者：
Azarian, Taj;Maraqa, Nizar F.;Salemi, Marco
通讯作者：
Salemi, Marco