Infection Genetics and Evolution最新文献

{"title":"Corrigendum to “Pathogens and drug resistance or virulence genes from animals and surrounding environment in Shenzhen, 2023 using targeted next-generation sequencing” [Infection, Genetics and Evolution, volume 131, 105755].","authors":"Dandan Niu , Yankun Ke , Qiuying Lv , Zhen Zhang , Tengyingzi Liu , Zhongyao Xu , Tong Li , Yingluan Zhang , Renli Zhang , Xiaomin Zhang , Shunping Cai , Xiaonan You , Yuqing Chen , Hanguang Wu , Yingxin Li , Chan Yin , Danzhu Wang , Xinhua Duan , Yongchao Guo , Rongqi Liu , Tiejian Feng","doi":"10.1016/j.meegid.2025.105759","DOIUrl":"10.1016/j.meegid.2025.105759","url":null,"abstract":"","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105759"},"PeriodicalIF":2.6,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144071219","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Characterisation of M. tuberculosis isolates obtained from Tamil Nadu prevalence survey by whole genome sequencing analysis","authors":"Priya Rajendran ,&nbsp;Prathiksha Giridaran ,&nbsp;Silla Varghese Thomas ,&nbsp;Navinkumar Nagaraj ,&nbsp;Kannan Thiruvengadam ,&nbsp;Golla Radhika ,&nbsp;Roja Samyuktha ,&nbsp;Sriram Selvaraju ,&nbsp;Asha Frederick ,&nbsp;Chandrasekaran Padmapriyadarsini ,&nbsp;Sivakumar Shanmugam","doi":"10.1016/j.meegid.2025.105763","DOIUrl":"10.1016/j.meegid.2025.105763","url":null,"abstract":"<div><div>Recent advances in whole genome sequencing have facilitated the understanding of drug resistance patterns and lineage distribution of <em>M. tuberculosis</em> worldwide. In this study, we aimed to determine the genetic diversity of MTB isolates from presumptive pulmonary TB patients obtained from a state prevalence survey. A total of 124 isolates were available for further characterisation, out of which 71 (57.2 %) and 47 (37.9 %) were subjected to sequencing and phenotypic DST, respectively. The phenotypic resistance profile revealed 3 isolates with multidrug resistance and 3 with mono-INH resistance. Out of 71 isolates, sequencing data were available for 61 (85.9 %), where the lineage distribution and drug resistance profile were analysed in comparison with phenotypic DST results. All the mutations were significant, accounting for one or the other resistance pattern. The concordance between pDST and gDST for the drugs was above 90 % except for ETH (77 %) and INH (87 %). The phylogenetic analysis of the lineage distribution revealed three clusters with MDR isolates belonging to lineage 1 and lineage 3. While lineage 2 is more frequently associated with MDR distribution both in India and worldwide, we did not find any lineage 2 MDR-TB isolates in our study. The use of WGS analysis improved our understanding of the genetic characteristics of MTB and its correlation with DR-TB transmission.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"132 ","pages":"Article 105763"},"PeriodicalIF":2.6,"publicationDate":"2025-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143947249","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular sequence typing of carbapenem-resistant Acinetobacter baumannii clinical isolates: A comprehensive global update","authors":"Kamonwan Taesoongnern ,&nbsp;Krit Thirapanmethee ,&nbsp;Mullika Traidej Chomnawang","doi":"10.1016/j.meegid.2025.105762","DOIUrl":"10.1016/j.meegid.2025.105762","url":null,"abstract":"<div><div>The emergence and spread of antimicrobial resistance (AMR) pose significant challenges to public health worldwide. Understanding the dynamics of AMR within bacterial populations is crucial for devising effective strategies to mitigate its impact. Clonal lineages, representing genetically related group of bacteria, play a vital role in shaping the landscape of AMR dissemination. This review endeavors to provide a comprehensive update on the molecular sequence typing of carbapenem-resistant <em>Acinetobacter baumannii</em> (CRAB) clinical isolates across various geographical regions, with particular emphasis on the application of multilocus sequence typing (MLST). CRAB poses a silent threat in healthcare settings, emerging as a public health concern globally corporate with limited treatment options due to the resistance to carbapenems, the last-line antibiotics, leading to increased mortality rates. This review will serve as invaluable resources, offering in-depth analysis and interpretation of epidemiological data related to CRAB. Through meticulous examination of this data, healthcare professionals will be equipped with a nuanced understanding of the spread and prevalence of this pathogen across diverse geographic regions. Additionally, by incorporating evidence-based strategies informed by epidemiological insights, stakeholders can enhance their ability to effectively combat this formidable pathogen, thereby safeguarding public health and promoting optimal patient outcomes.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105762"},"PeriodicalIF":2.6,"publicationDate":"2025-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143937503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Emerging genetic diversity of Mycoplasma gallisepticum in Mexican house finches: Evidence of possible independent spillover events","authors":"María Teresa Reinoso-Pérez ,&nbsp;Luz Elena Díaz Ávila ,&nbsp;Santiago García Jacobo ,&nbsp;Víctor Manuel Rodríguez-García ,&nbsp;André A. Dhondt","doi":"10.1016/j.meegid.2025.105761","DOIUrl":"10.1016/j.meegid.2025.105761","url":null,"abstract":"<div><div>In a previous study, we reported for the first time the detection of <em>Mycoplasma gallisepticum</em> (MG) in Mexican house finches (<em>Haemorhous mexicanus</em>). Building on this finding, we explored the genetic diversity of MG, addressing the potential independent spillover events. Samples from 247 wild finches across Mexico revealed MG infection in 72 % of choanal swabs and 24 % of conjunctival swabs, with no clinical signs observed. Phylogenetic analysis identified two novel MG clades distinct from U.S. house finch-associated and poultry-associated MG strains, suggesting independent evolution within Mexico. Coinfections with diverse haplotypes were common, raising concerns about recombination and shifts in virulence. This research highlights the asymptomatic carrier state of Mexican house finches, their potential as reservoirs, and the ecological implications of pathogen spread and adaptation. These findings underscore the need for enhanced surveillance and further study on MG's dynamics in Mexican avifauna.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"132 ","pages":"Article 105761"},"PeriodicalIF":2.6,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144040804","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A highly virulent BA-producing Burkholderia gladioli strain linked to a fatal foodborne outbreak in China, 2020","authors":"Jinrui Hu ,&nbsp;Yucheng Xue ,&nbsp;Jinhui Zhang ,&nbsp;Jinyue Liu ,&nbsp;Xiaohua Zheng ,&nbsp;Jing Bai ,&nbsp;Zhigang Cui ,&nbsp;Weiqi Zhong ,&nbsp;Haijian Zhou","doi":"10.1016/j.meegid.2025.105760","DOIUrl":"10.1016/j.meegid.2025.105760","url":null,"abstract":"<div><h3>Background</h3><div><em>Burkholderia gladioli,</em> particularly its pathovar <em>cocovenenans</em>, poses a significant public health threat through the production of bongkrekic acid (BA), a lethal tricarboxylic fatty acid encoded by the <em>bon</em> gene cluster. Despite the rarity of BA-associated outbreaks, historical cases in Asia and Mozambique demonstrate mortality rates exceeding 30 %.</div></div><div><h3>Methods</h3><div>In October 2020, a foodborne outbreak occurred in Heilongjiang, China, linked to homemade fermented corn. Nine symptomatic patients developed acute gastroenteritis within 3 h and died within 14 days. Routine pathogen screening, aflatoxin quantification, and toxicological analyses were performed. <em>B. gladioli</em> was isolated from contaminated corn flour, identified via VITEK 2 Compact and genomic sequencing. Antimicrobial susceptibility testing was conducted using the BD Phoenix system. Genomic analysis characterized the <em>bon</em> cluster, resistance genes, and phylogeny.</div></div><div><h3>Results</h3><div>BA concentrations reached 330.16 mg/kg in corn flour and 3.16 mg/L in gastric fluid. One strain YD01, was isolated from the corn flour sample. The isolate exhibited elevated MIC values for β-lactams (e.g., ceftazidime, aztreonam), nitrofurantoin, and colistin, but susceptibility to tetracycline and meropenem using 2024 CLSI breakpoints. Whole-genome sequencing confirmed a 67.5-kbp <em>bon</em> cluster homologous to BA-producing strains and identified antibiotic resistance genes (<em>smeR</em>, <em>smeE</em>, <em>mexB</em>, <em>LRA-1</em>, and <em>B. pseudomallei</em> omp38) associated with efflux pumps and β-lactamases. Phylogenetically, YD01 clustered with clinical <em>B. gladioli</em> strains from the United States (ANI 99.21 %).</div></div><div><h3>Conclusions</h3><div>This outbreak highlights the dual threat of hypervirulent BA production and intrinsic multidrug resistance in <em>B. gladioli</em>. The absence of CLSI breakpoints for this pathogen complicates clinical susceptibility interpretations, yet YD01's resistance profile suggests limited therapeutic options in empirical treatment. Enhanced surveillance, species-specific antimicrobial guidelines, and rapid diagnostics targeting both <em>bon</em> and resistance genes are urgently needed to mitigate future risks.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105760"},"PeriodicalIF":2.6,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143929166","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Emerging threat of Human Metapneumovirus (HMPV) and strategies for its containment and control","authors":"Sridevi Gnanasekaran ,&nbsp;MD. Abu Bashar ,&nbsp;Abin K. Rajan ,&nbsp;Prabhat Prabhat","doi":"10.1016/j.meegid.2025.105758","DOIUrl":"10.1016/j.meegid.2025.105758","url":null,"abstract":"<div><div>Human Metapneumovirus (HMPV) has emerged as a significant respiratory pathogen, particularly affecting children, the elderly, and immunocompromised individuals. Although HMPV is commonly associated with mild to moderate respiratory illness, its potential to cause severe disease has raised concerns and has alarmed the global public health. This review aims to provide an overview of the current understanding of HMPV epidemiology, pathogenesis, clinical manifestations, diagnostic approaches, and available therapeutic options. Furthermore, we discuss strategies for the containment of HMPV, including preventive measures, surveillance programs, and the development of vaccines and antiviral therapies, with a focus on the International Health Regulations (IHR) and pandemic preparedness activities.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105758"},"PeriodicalIF":2.6,"publicationDate":"2025-05-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143922074","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"An integrated approach for genetic risk profiling of typhoid, tuberculosis, and cholera in local population of tehsil Haripur","authors":"Tahira Sher Afghan ,&nbsp;Sadiq Noor Khan ,&nbsp;Faryal Mehwish Awan ,&nbsp;Ayesha Obaid ,&nbsp;Rabea Basri ,&nbsp;Amin Ullah ,&nbsp;Saira Khan ,&nbsp;Anam Naz ,&nbsp;Kamran Ullah ,&nbsp;Abdul Jabbar","doi":"10.1016/j.meegid.2025.105756","DOIUrl":"10.1016/j.meegid.2025.105756","url":null,"abstract":"<div><div>Despite notable progress in public health throughout the 21st century, infectious diseases like tuberculosis, typhoid, and cholera remain serious threats to global health, particularly in high-risk regions. Understanding the genetic factors that influence susceptibility and resistance to these diseases is essential for developing more effective strategies for their prevention and treatment. This study investigates the genetic variations associated with these infectious diseases with a focus on regions where these diseases are most prevalent. The aim of this study is to identify genetic variants that may influence susceptibility to tuberculosis, typhoid, and cholera. A thorough analysis of genetic variants associated with susceptibility and resistance to tuberculosis, typhoid, and cholera was conducted. Using publicly available genetic data from various ethnic groups. The allele frequency of the prioritized variants was calculated to assess their distribution within the different populations, including Middle Eastern, Ashkenazi Jewish, European (Non-Finnish), Latino/Admixed American, South Asian, East Asian, European (Finnish), North Asian, Southeast Asian, African American, and Swedish populations. The variants of the <em>IL1β</em> gene exhibiting the highest allele frequencies in the South Asian population were identified and subsequently examined within the local population. Specifically, the variants rs1143627 and rs1143629, which demonstrate the highest allele frequencies and are associated with typhoid, tuberculosis, and cholera, were subjected to detailed analysis. To determine their distribution and potential impact on disease susceptibility. In the local population, statistical analysis of the available sample revealed allele frequencies of 0.1128 % for <em>IL1β</em> (rs1143627) and 0.18 % for <em>IL1β</em> (rs1143629). Furthermore, these findings revealed that certain genetic profiles may play a role in the population's overall response to infectious diseases such as tuberculosis, typhoid, and cholera. This research has the potential to guide future public health strategies for more effective management and prevention of these diseases.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105756"},"PeriodicalIF":2.6,"publicationDate":"2025-05-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143937505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Study of genetic diversity of Echinococcus granulosus sensu stricto in France based on full cox1 gene","authors":"Peytavin de Garam Carine ,&nbsp;Franck Boué ,&nbsp;Jenny Knapp ,&nbsp;Yannick Blanchard ,&nbsp;Gérald Umhang","doi":"10.1016/j.meegid.2025.105757","DOIUrl":"10.1016/j.meegid.2025.105757","url":null,"abstract":"<div><div>Cystic echinococcosis (CE) is a worldwide zoonosis caused by <em>Echinococcus granulosus sensu lato</em> (<em>s.l.</em>) complex with <em>E. granulosus sensu stricto</em> (<em>s.s.</em>) the main species responsible of humans CE. This study highlights the genetic diversity of <em>E. granulosus s.s.</em> in France to clarify the parasite's circulation in livestock, interactions with wildlife, and distinguish autochthonous from imported cases of human CE. A total of 129 full <em>cox1</em> gene sequences were obtained: 101 from livestock, 12 from wildlife, and 16 from human CE patients operated in France. This study reveals a broad genetic diversity of <em>E. granulosus s.s.</em> in France and little differentiation between sheep and cattle parasite populations, or between geographic areas. The G3 genotype (67 %) was predominant, mainly in sheep from the Alps, a historical focus in Southeast France. Despite farms being less than 20 km apart, no common haplotype was found, suggesting separate infections sources, without excluding the potential role of transhumance in parasite transmission. Haplotypes shared by livestock and wolves remain insignificant in maintaining the life cycle given the low occurrence of infection in wolves. Concerning the 16 cases of human CE, full <em>cox1</em> haplotypes provide additional genetic argument supporting their status as mainly imported cases. Nevertheless, as autochthonous human cases have already been reported, further genetic characterization of <em>E. granulosus s.s.</em> in both humans and livestock in France is important to identify epidemiologic links and develop action plans to prevent and control this parasite.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105757"},"PeriodicalIF":2.6,"publicationDate":"2025-05-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143917409","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pathogens and drug resistance or virulence genes from animals and surrounding environment in Shenzhen, 2023 using targeted next-generation sequencing","authors":"Dandan Niu ,&nbsp;Yankun Ke ,&nbsp;Qiuying Lv ,&nbsp;Zhen Zhang ,&nbsp;Tengyingzi Liu ,&nbsp;Zhongyao Xu ,&nbsp;Tong Li ,&nbsp;Yingluan Zhang ,&nbsp;Renli Zhang ,&nbsp;Xiaomin Zhang ,&nbsp;Shunping Cai ,&nbsp;Xiaonan You ,&nbsp;Yuqing Chen ,&nbsp;Hanguang Wu ,&nbsp;Yingxin Li ,&nbsp;Chan Yin ,&nbsp;Danzhu Wang ,&nbsp;Xinhua Duan ,&nbsp;Yongchao Guo ,&nbsp;Rongqi Liu ,&nbsp;Tiejian Feng","doi":"10.1016/j.meegid.2025.105755","DOIUrl":"10.1016/j.meegid.2025.105755","url":null,"abstract":"<div><div>Identifying the pathogen spectrum of animals and surrounding environment is essential for the prevention and control of zoonotic diseases. From February 1 to June 30, 2023, we randomly collected respiratory and intestinal samples from animals and swab samples from surrounding environment in 33 units in Shenzhen, and carried out pathogen/gene screening using pathogen targeted next-generation sequencing technology. A total of 2000 samples were collected and mixed to obtain 415 samples for detection. The detection rate of respiratory pathogens (76.9 %, χ2 = 15.892, <em>P</em> &lt; 0.001), drug resistance genes (59.0 %, χ2 = 52.888, <em>P</em> &lt; 0.001), the co-detection proportion of intestinal pathogens (87.0 %, χ2 = 9.605, <em>P</em> = 0.002) in livestock and poultry, and drug resistance genes in surrounding environment (30.5 %, χ2 = 14.932, <em>P</em> &lt; 0.001) were higher than dogs and cats, and wild animals. <em>Escherichia coli</em> (37.3 %, 30.5 %) and β-lactamase-resistance NDM genes (31.3 %, 27.1 %) were the main respiratory pathogens in livestock and poultry, and surrounding environment. The detection rate of <em>Pasteurella multocide</em> was 25.0 % in dogs and cats. The detection rates of intestinal pathogens <em>Campylobacter coli</em> and <em>Clostridium perfringens</em> in livestock and pourtry were 23.9 % and 17.9 %, and <em>Clostridium perfringens</em> in dogs and cats and wild animal was 18.2 % and 15.7 %. The total detection rate of intestinal pathogens of wild animals in wildlife parks (44.0 %) and indoor pet parks (38.9 %) was higher than that in animal nature reserves (χ2 = 15.686, <em>P</em> = 0.001). The respiratory/intestinal pathogens in animals and surrounding environment was common in Shenzhen. The drug resistance genes in livestock and poultry, and intestinal pathogens of wild animals in indoor pet parks needed more attention.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105755"},"PeriodicalIF":2.6,"publicationDate":"2025-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143891335","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Taxonomic reassessment of genomes from a divergent population of Streptococcus suis by average nucleotide identity analysis","authors":"Wenbo Luo ,&nbsp;Xueli Yi ,&nbsp;Xiyan Zhang ,&nbsp;Chaoyuan Yuan ,&nbsp;Wenfei Wei ,&nbsp;Xuezhen Li ,&nbsp;Danna Pu ,&nbsp;Jing Yang ,&nbsp;Han Zheng","doi":"10.1016/j.meegid.2025.105753","DOIUrl":"10.1016/j.meegid.2025.105753","url":null,"abstract":"<div><div><em>Streptococcus</em> spp., including the emerging zoonotic pathogen <em>S. suis</em>, represent a dominant bacterial population in the porcine nasopharynx. Species identification within the <em>Streptococcus</em> genus remains challenging and frequently ambiguous, resulting in indistinct species boundaries. By employing comparative genomic analyses, a previous study categorized <em>S. suis</em> into a central population and divergent lineages, based on the single nucleotide polymorphisms (SNPs) within core genes and the presence or absence of accessory genes, indicating evolutionary divergence. The divergent lineages were designated as the “out population” in this study for clarity. The <em>16S rRNA</em> gene sequences of seven putative novel <em>Streptococcus</em> strains isolated from the throats of healthy pigs in China exhibited 100 % similarity to that of the 684_17B strain of <em>S. suis</em>, which clustered in the out population. This study established a threshold average nucleotide identity (ANI) value of 93.17 % for the identification of authentic <em>S. suis</em>. All the 645 genomes from the out population fell below this threshold, indicating that they did not belong to <em>S. suis</em>. Further taxonomic assessment of the 645 genomes from the out population revealed 18 clusters based on pairwise ANI comparisons, using a 92.33 % threshold, determined by pairwise ANI comparisons among the 2422 genomes from the central population of <em>S. suis</em>. These clusters were identified as 12 novel <em>Streptococcus</em> spp. (<em>Streptococcus</em> sp. nov-1–12) and six known <em>Streptococcus</em> spp. by ANI comparisons with type or reference genomes of 98 known <em>Streptococcus</em> spp. The study provides a useful framework for the identification of authentic <em>S. suis</em> and the determination of <em>Streptococcus</em> sp. nov.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"131 ","pages":"Article 105753"},"PeriodicalIF":2.6,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143877486","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}