Infection Genetics and Evolution最新文献

{"title":"Screening for Borna disease virus 1 (BoDV-1) in Austria: Absence of human cases in a retrospective case-finding study.","authors":"Markus Bauswein, Lisa Arnold, David N Springer, Monika Redlberger-Fritz","doi":"10.1016/j.meegid.2025.105806","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105806","url":null,"abstract":"<p><strong>Background: </strong>Borna disease virus 1 (BoDV-1) is a zoonotic virus with a recently confirmed potential to cause rare but severe cases of encephalitis in humans. While the bicolored white-toothed shrew (Crocidura leucodon) representing the reservoir is widely distributed over eastern, central and southern Europe as well as south-west Asia, human infections have only been reported from Germany so far. As infections in sentinels such as horses indicate the endemic circulation of the virus also in circumscribed regions of neighboring countries (Austria, Liechtenstein, Switzerland), we initiated a retrospective case-finding study to investigate whether there were so far undetected human infections in Austria.</p><p><strong>Methods: </strong>For this purpose, a total of 859 samples were selected from the biobank of the Center for Virology in Vienna based on available clinical characteristics matching with possible neurological symptoms of human BoDV-1 infections to screen for BoDV-1 RNA (859 cerebrospinal fluid samples) and anti-BoDV-1 IgG antibodies (366 corresponding serum samples).</p><p><strong>Results: </strong>BoDV-1 RNA or confirmed anti-BoDV-1 IgG antibodies were not detected in any of the CSF or serum samples, respectively.</p><p><strong>Conclusion: </strong>Our result demonstrates that if human BoDV-1 infections occur in Austria, they must be very rare even in patients with neurological symptoms. Further research using samples with a more distinct geographical link to the circumscribed endemic rural region in Upper Austria, however, is necessary to complement the preliminary finding of this study.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105806"},"PeriodicalIF":2.6,"publicationDate":"2025-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144762354","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":"Tracking changes in antimicrobial resistance and clone replacement of Neisseria gonorrhoeae in Rio de Janeiro from 2015 to 2022.","authors":"Raphael Cavalcante de Medeiros, Késia Thaís Barros Dos Santos, Larissa Brasil Skaf, Adriane Meira Mercadante, Matheus Henrique Banchete Rosa, Luiz Eduardo Teixeira de Araújo Pacheco, Sergio Eduardo Longo Fracalanzza, Adriana Lúcia Pires Ferreira, Jennifer L Reimche, Kim M Gernert, Ellen N Kersh, Raquel Regina Bonelli","doi":"10.1016/j.meegid.2025.105807","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105807","url":null,"abstract":"<p><p>Neisseria gonorrhoeae poses a significant global public health challenge due to its ability to rapidly evolve antimicrobial resistance. In this study, we analyzed 141 isolates of N. gonorrhoeae obtained between 2015 and 2022 from clinical laboratories in the metropolitan region of Rio de Janeiro. Antimicrobial susceptibility, resistance mechanisms, and clonal diversity were investigated. Whole-genome sequencing and multilocus sequence typing (MLST) revealed the circulation of internationally relevant sequence types (STs) such as ST-1901, ST-7363, and ST-9363. While non-susceptibility rates to penicillin (98 %) and ciprofloxacin (73 %) remained stable compared to earlier data, tetracycline resistance decreased from 67 % (in 2015-2016) to 20 % (in 2019-2020), likely due to the reduced prevalence of ST-1588. However, mainly after 2020, tetM plasmids were detected in ST-7822 and the emerging ST-7363, suggesting the concern of a rising occurrence of these determinants in the near future. Azithromycin non-susceptibility varied between 15 and 33 % in the different time frames, associated with mutations in the mtrR promoter and rrl gene, affecting isolates across eleven STs. While no ceftriaxone non-susceptibility was identified, ST-1901 and ST-7363 isolates harbored unique mosaic penA 34 alleles, and ST-1580/ST-17526 carried semi-mosaic 93 alleles. These findings underscore the persistence of resistance to older antimicrobials, the spread of plasmid-mediated resistance in key clones, and the growing threat of azithromycin resistance, which could compromise the treatment of gonorrhea in patients allergic to beta-lactams.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105807"},"PeriodicalIF":2.6,"publicationDate":"2025-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144762355","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":"Genomic characteristics and phylogenetic analysis of human adenovirus 14 in China during 2010-2016.","authors":"Liangning Liao, Yuehong Chen, Yuyang Wang, Ruiwen Ren, Jing Li, Sen Zhang, Xiaoping Kang, Yuchang Li, Ye Feng, Tao Jiang","doi":"10.1016/j.meegid.2025.105805","DOIUrl":"10.1016/j.meegid.2025.105805","url":null,"abstract":"<p><p>Human adenovirus (HAdV) is a common pathogen that causes various respiratory illnesses. Human adenovirus type 14 (HAdV-14) emerged in recent decades and has been reported sporadically and unevenly across the globe. In China, the first occurrence of HAdV-14 was reported in 2010, yet its genetic characteristics and transmission patterns remain unclear. This study performed a comprehensive phylogenetic analysis by integrating nine newly sequenced strains with all 67 available complete genome sequences of HAdV-14 strains from GenBank, which were submitted by eight countries where HAdV-14 is endemic. All examined strains were found to belong HAdV-14p1 clade, which was further classified into three major clusters. Notably, all strains identified in China belong to Cluster II and III. This study found that the initial isolates GZ01 and GZ02 from Guangzhou, China, in 2010 belonged to Cluster II, whereas the GZ25 isolate from the same location and year, identified through this study, belonged to Cluster III. Cluster III, which was sporadically epidemic, has formed a transmission circle in China. Despite multiple mutations in key genes between the two clusters, the homology of the Chinese isolates reached as high as 99.7 %. This study revealed that all HAdV-14 strains have highly conserved capsid proteins in China, which exhibit relative genome stability across time and geographic space. This study enhances our understanding of the genetic diversity and genomic characteristics of HAdV-14 and contributes to the prevention and control of HAdV-14 infection in the future.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105805"},"PeriodicalIF":2.6,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144755167","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":"Epidemiological profiles of norovirus genotypes in children with and without acute gastroenteritis from the northwestern Amazon region.","authors":"Yan Cardoso Pimenta, Glenda Maria Santos Moreira, Waldemar da Silva Souza, Alberto Ignacio Olivares Olivares, Lennart Svensson, José Paulo Gagliardi Leite, Johan Nordgren, Marcia Terezinha Baroni de Moraes","doi":"10.1016/j.meegid.2025.105804","DOIUrl":"10.1016/j.meegid.2025.105804","url":null,"abstract":"<p><p>Noroviruses causes acute gastroenteritis (AGE) worldwide, with children living in low-income areas aged ≤5 years being the most vulnerable. Histo-blood group antigens (HBGA) are recognized as attachment factors for human noroviruses and susceptibility of a given genotype is frequently dependent on the secretor phenotype mediated by FUT2 genotype. This retrospective study involved 734 children aged ≤5 years with AGE (cases group; 66 %, 485/734) or non-AGE (control group; 34 %, 249/734), from the Amazon rainforest (Brazil, Venezuela, and Guyana) and in our previous studies, 87 % of children were positive secretors (641/734). A total of 40.2 % (88/219; GII) and 14.6 % (7/48; GI) of noroviruses were successfully genotyped, being: GII.1 (n = 5), GII.2 (n = 25), GII.4 (n = 32), GII.6 (n = 19), GII.7 (n = 5), GII.14 (n = 2), GI.2 (n = 1), GI.3 (n = 4) and GI.7 (n = 2). Most genotyped GII norovirus including all 32 GII.4, were detected in secretor-positive children (94.3 %, 83/88). Only genotypes GII.2 (n = 2), GII.6 (n = 3), GI.2 (n = 1) and GI.7 (n = 1) were detected in secretor-negative children. Of note, the predominant GII.4 and the GII.6 were not significantly associated with AGE (OR 1.1; 95 % CI 0.5 to 2.4, P = 0.7 and OR 1.4; 95 % CI 0.5 to 4.0, P = 0.4, respectively), in contrast to GII.2 was associated with AGE (OR 6.1; 95 % CI 1.4 to 26.2, P = 0.01). Genotypes GII.2, and GII.4 were detected in all age groups at high frequencies. In conclusion a great diversity of norovirus genotypes circulating in the Amazon region. Only the GII.2 genotype was associated with AGE, while the predominant GII.4 was detected at similar frequencies in both children with AGE and children without AGE.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105804"},"PeriodicalIF":2.6,"publicationDate":"2025-07-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144746005","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":"Phylogenomic evidence for host specialization and genetic divergence in OsHV-1 infecting Magallana gigas and Ostrea edulis","authors":"Camille Pelletier ,&nbsp;Germain Chevignon ,&nbsp;Nicole Faury ,&nbsp;Isabelle Arzul ,&nbsp;Céline Garcia ,&nbsp;Bruno Chollet ,&nbsp;Tristan Renault ,&nbsp;Benjamin Morga ,&nbsp;Maude Jacquot","doi":"10.1016/j.meegid.2025.105803","DOIUrl":"10.1016/j.meegid.2025.105803","url":null,"abstract":"<div><div>Understanding how pathogens adapt to new hosts is critical to elucidating the evolutionary mechanisms driving disease emergence. This study investigates the evolutionary dynamics of <em>Ostreid herpesvirus 1</em> (OsHV-1) in two host species—the Pacific oyster <em>Magallana gigas</em> and the European flat oyster <em>Ostrea edulis</em>—to address the question of host specificity and cross-species transmission. While OsHV-1 is primarily associated with mortality in <em>M. gigas</em>, its detection in <em>O. edulis</em> raises concerns about its potential host range and evolutionary trajectory. We aimed to determine whether viral populations in these two hosts show genetic differentiation and to identify the evolutionary forces shaping this divergence. Using high-throughput sequencing, we assembled 40 OsHV-1 genomes from both oyster species and applied comparative genomics, population genetics, and phylodynamic approaches. Our results show that host species significantly influence viral genetic structure, with two distinct lineages emerging after a cross-species transmission event likely following the introduction of <em>M. gigas</em> into Europe. Selection signals were detected in viral genes related to host interaction, replication, and membrane-associated functions, suggesting host-driven adaptation. These findings underscore the importance of host-specific evolutionary pressures in shaping viral diversity and provide a framework for future studies on host-virus coevolution in marine ecosystems.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"134 ","pages":"Article 105803"},"PeriodicalIF":2.6,"publicationDate":"2025-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144719179","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":"Global genetic diversity of Mycobacterium tuberculosis L2.1 based on pe-ppe gene family","authors":"Olabisi Flora Davies-Bolorunduro ,&nbsp;Bharkbhoom Jaemsai ,&nbsp;Wuthiwat Ruangchai ,&nbsp;Thanakron Noppanamas ,&nbsp;Manon Boonbangyang ,&nbsp;Prasit Palittapongarnpim","doi":"10.1016/j.meegid.2025.105802","DOIUrl":"10.1016/j.meegid.2025.105802","url":null,"abstract":"<div><div>There are four major lineages of <em>Mycobacterium tuberculosis</em> (Mtb) whose geographic ranges vary considerably. Mtb lineage 2 (L2) or the East Asia lineage is particularly common in East and Southeast Asia, and also reported worldwide. Most L2 isolates belong to a sublineage L2.2 while L2.1 is more restricted to the Southern part of East Asia. It was reported that the L2.1 isolates in Thailand usually resisted isoniazid, rifampin and fluoroquinolones, <em>i.e.</em>, being pre-XDR strains. It is, therefore, of particular public health concern. Our previous study in a limited number of available complete genomes of L2.1 suggested unique structural variations of some <em>pe-ppe</em> genes. The gene family plays roles in immune evasion and host-pathogen interactions and, hence, is integral to the bacterium's virulence. Here we examine the identified structural variations of the <em>pe-ppe</em> gene family among all 180 L2.1 samples from eight countries, whose WGS data with high-quality are available in GenBank. We identified the deletion of the <em>esxR-esxS</em> gene segment in 26 L2.1 genomes, 19 of which, primarily restricted to Vietnam, Thailand, and China, belonged to a single clade. Additionally, we confirmed the deletions of four <em>pe-ppe</em> genes, <em>wag22, ppe38, ppe50</em> and <em>ppe66</em>, in all L2.1 samples. These genetic deletions may contribute to the virulence, pathogenesis, and evolutionary dynamics of the L2.1 strains, with significant implications for understanding the molecular mechanisms underlying the persistence and spread of this lineage.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"134 ","pages":"Article 105802"},"PeriodicalIF":2.6,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144709942","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":"Detection of initial intra-cellular functional, structural and ultra-structural changes in virus-inoculated cells: A pilot study","authors":"Iskra Sainova ,&nbsp;Radka Hadjiolova ,&nbsp;Andrey Petrov ,&nbsp;Dimitrina Dimitrova-Dikanarova ,&nbsp;Tzvetanka Markova","doi":"10.1016/j.meegid.2025.105801","DOIUrl":"10.1016/j.meegid.2025.105801","url":null,"abstract":"<div><div>Mammalian cells from embryonic mouse 3 T3 and bovine trachea (EBTr) lines were incubated in <em>in vitro</em>-conditions. A sub-population of from the EBTr cells was inoculated with low initial infectious titers of the vaccine avipoxviral strains FK (fowl), and another - with vaccine avipoxviral strain Dessau (pigeon) (Poxviridae family). Analogically, a subpopulation from the 3 T3 cells was pre-incubated in cultural fluid from transfected by recombinant DNA-plasmid P3-X63-Ag8 mouse malignant myeloma cells and cocultivated with them, another – co-cultivated with the same malignant cells. Although cytopathogenic effect, cell inclusions and mature virions were not observed, different methods of microscopic observations revealed molecular, structural and ultra-structural differences in the inoculated cells compared to the non-inoculated. Light microscopy observations of fixed and semi-thin slides revealed membrane excrescences, changed cell shape, size and nucleus-cytoplasm ratio, as well as activated lipid and protein synthesis (particularly of collagen and elastin). Transmission electron microscopy (TEM) of ultra-thin slides indicated cytoplasmic vacuolation and granulation, changes in the cytoplasmic organelles and in the nuclear chromatin. These changes were suggested as initial markers of cell (infectious, malignant or degenerative) injury and are underlining the initial cellular protective mechanisms. As one of the manifestations of these protective systems was proposed the production of immune molecules by non-immune cells in appropriate conditions. Also, a possibility about transfer of nucleotide (DNA- and/or RNA-) fragments between cellular and viral genomes was suggested. This phenomenon is probably due to activated fusion processes on the influence of organic detergent and drastic temperature changes.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"134 ","pages":"Article 105801"},"PeriodicalIF":2.6,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144686156","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":"The relationships of gene mutations between ESX and drug resistance in the patients with extra-pulmonary tuberculosis in local regions of Southwest China","authors":"Jiwen Fan ,&nbsp;Haoming Feng ,&nbsp;Dazhi Yang ,&nbsp;Haiyang Zhao ,&nbsp;Tao Shi ,&nbsp;Tongxin Li","doi":"10.1016/j.meegid.2025.105799","DOIUrl":"10.1016/j.meegid.2025.105799","url":null,"abstract":"<div><h3>Background</h3><div>Drug resistant extrapulmonary tuberculosis (DR-EPTB) is a major threat to human health. The mycobacterial ESAT-6 secretion (ESX) system is main virulence protein export system of <em>Mycobacterium tuberculosis</em> (MTB). This study aimed to determine the relationships between ESX and drug resistance (DR) in patients with DR-EPTB in local regions of Southwest China.</div></div><div><h3>Methods and design</h3><div>Patients were retrospectively studied from January 2020 to December 2021. All the isolates were cultured, drug susceptibility was detected, and gene mutations were detected using whole-genome sequencing (WGS). The correlations between the mutant genes of the ESX system and DR pattern, patient demographics, and DR mutant gene sites were analyzed.</div></div><div><h3>Results</h3><div>A total of 111 patients with DR-EPTB were enrolled including 40 females and 71 males. In the five ESX systems there were 1664 gene mutation sites and ESX-3 accounted for 32.6 %. The most common mutant gene site in all the ESX systems was eccC2. There was a significant difference in the number of mutant gene sites between ESX-1 and DR (<em>P</em> &lt; 0.01). There were significant correlations between the numbers of mutant gene sites in the different ESX systems and gender (<em>P</em> &lt; 0.05), age group (<em>P</em> &lt; 0.05), residence (<em>P</em> &lt; 0.01), type of treatment (<em>P</em> &lt; 0.01), lineage (<em>P</em> &lt; 0.01) and cluster (<em>P</em> &lt; 0.01).</div></div><div><h3>Conclusion</h3><div>In patients with DR-EPTB, ESX-3 was the system that included the most mutant gene sites and the eccC2 gene had the highest frequency. The gender, age group, residence, type of treatment, lineage and cluster were risk factors for gene mutations in the ESX system. The mutant gene sites of ESX-1 were correlated with those of DR and the mutations in espA and espK may be the main factors.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"133 ","pages":"Article 105799"},"PeriodicalIF":2.6,"publicationDate":"2025-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144668975","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":"Genomic characterization of a clinical Enterocloster aldenensis strain: First report in Thailand","authors":"Thunchanok Yaikhan ,&nbsp;Mingkwan Yingkajorn ,&nbsp;Worawut Duangsi-ngoen ,&nbsp;Ei Phway Thant ,&nbsp;Nattarika Chaichana ,&nbsp;Sirikan Suwannasin ,&nbsp;Kamonnut Singkhamanan ,&nbsp;Saranyou Churi ,&nbsp;Komwit Surachat","doi":"10.1016/j.meegid.2025.105800","DOIUrl":"10.1016/j.meegid.2025.105800","url":null,"abstract":"<div><div>This study presents the first comprehensive genome analysis of <em>Enterocloster aldenensis</em> in Thailand, an organism typically found in the gut but occasionally acting as an opportunistic pathogen. A scrotal tissue sample from a patient with suspected Fournier's gangrene was initially collected for <em>Bacteroides</em> surveillance in Southern Thailand, <em>E. aldenensis</em> PSUA25 was identified to <em>Bacteroides thetaiotaomicron</em> by Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) and later reclassified as <em>E. aldenensis</em> following whole-genome sequencing. Species confirmation via Average Nucleotide Identity analysis showed 97 % identity with the representative strain. Phylogenetic analysis using all available <em>E. aldenensis</em> genomes revealed that strain PSU25A is closely related to AM40-2 AC—an isolate from human feces in China (NCBI BioSample: SAMN11413088) selected for comparative analysis based on high genomic similarity.</div><div>Comparative analysis revealed shared antimicrobial resistance genes, including <em>poxtA, vanYG, vanWI</em>, and <em>vanTG</em>. Unique to PSU25A were two mobile genetic elements: a conjugative transposon (Tn<em>6009</em> with <em>tetM</em>) and a phage-associated region, suggesting horizontal gene transfer.</div><div>This study emphasizes the need for accurate microbial identification, as misidentification can impact treatment decisions. Understanding the genomic traits of <em>E. aldenensis</em> from specific regions provides valuable insights into its pathogenic potential.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"133 ","pages":"Article 105800"},"PeriodicalIF":2.6,"publicationDate":"2025-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144661998","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 insight into the characterization of L2 Beijing multi-drug resistant tuberculosis: Description of resistance-associated-variants and discovery of Modern 7 L2 sublineage","authors":"Marianne Antar Soutou ,&nbsp;Camille Allam ,&nbsp;Marianne Abi Fadel ,&nbsp;Josette Najjar ,&nbsp;Christophe Guyeux ,&nbsp;Emmanuelle Cambau ,&nbsp;Christophe Sola","doi":"10.1016/j.meegid.2025.105797","DOIUrl":"10.1016/j.meegid.2025.105797","url":null,"abstract":"<div><div>Drug-resistant tuberculosis (TB) complicates global efforts toward TB elimination. However, the introduction of new and repurposed drugs— particularly the all-oral BPaL regimen (bedaquiline, pretomanid, and linezolid)—has raised hopes due to its favorable treatment outcomes for multidrug-resistant (MDR) and extensively drug-resistant (XDR) TB. Susceptibility to these new drugs may vary depending on the lineage of the <em>Mycobacterium tuberculosis</em> (MTB) strain. Within the framework of a research project investigating the association between potential resistance-associated nucleotide variants and MTB lineages, we used the proprietary pipeline <em>TB-Annotator</em> to analyze 125,000 publicly available Short Read Archive datasets from NCBI.</div><div>We identified 65 mutations across 65 clonal complexes of the lineage 2 (L2), that share at least one SNP within a list of 14 genes potentially involved in drug resistance to BPaL. During this large-scale genomic screening, we identified a previously uncharacterized clonal complex of 49 SRAs that did not belong to any previously described ancient or modern L2-sublineages (modern 1 to modern 6). We therefore performed a comparative genomic analysis on a representative set of L2 isolates to fully characterize this group. These 49 SRAs are found in an independent branch of the L2 phylogenetic tree. They share 4 SNPs, including an Ile-to-Leu substitution in the product of <em>fbiD</em>, and are organized into two subclusters, with an intra-sublineage SNP distance of around 150 ± 50 SNPs. We named this novel sublineage L2.2-M7. Further functional validation—through phenotypic drug susceptibility testing and gene replacement—is needed to determine whether this <em>fbiD</em> mutation confers resistance to pretomanid. Global genomic surveillance of this emerging sublineage is warranted to monitor its spread and clinical relevance in the era of new TB treatment regimens.</div></div>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":"134 ","pages":"Article 105797"},"PeriodicalIF":2.6,"publicationDate":"2025-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144661098","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}