Virus Genes最新文献

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Expanding the diversity of Celavirus, the most divergent genus in the family Potyviridae. 扩大了痘病毒的多样性,这是痘病毒科中最具多样性的属。
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-09-11 DOI: 10.1007/s11262-025-02184-w
Myeung Seok Choi, Yoonsoo Hahn
{"title":"Expanding the diversity of Celavirus, the most divergent genus in the family Potyviridae.","authors":"Myeung Seok Choi, Yoonsoo Hahn","doi":"10.1007/s11262-025-02184-w","DOIUrl":"https://doi.org/10.1007/s11262-025-02184-w","url":null,"abstract":"<p><p>Celavirus is a genus within the family Potyviridae, currently comprising a single recognized species, Celavirus apii, represented by celery latent virus (CeLV), and one additional potential member, Striga-associated poty-like virus 2 (SaPlV2). The Celavirus genome is highly divergent from those of other potyvirids, and its polyprotein architecture remains incompletely resolved. In this study, we conducted systematic mining of publicly available transcriptome datasets and identified eight novel celavirus-like viral genome contigs from five distinct sources, including Chrysanthemum × morifolium, Leucadendron linifolium, L. muirii, Dalzellia ubonensis, and mycorrhizal protocorms formed by Serapias vomeracea and Tulasnella calospora. Based on sequence comparisons and species demarcation criteria, these genome contigs likely represent four novel viral species. Phylogenetic analysis placed all novel viruses in a monophyletic clade with CeLV and SaPlV2, distinct from all other approved genera in the family Potyviridae. Conserved functional domains typical of potyvirid polyproteins, including CI, NIa-Pro, and NIb, were identified, whereas other canonical domains such as P1, HC-Pro, and CP were not detected, likely due to high sequence divergence. These findings expand the known diversity of Celavirus and offer new insights into its genome organization, host associations, and evolutionary position within the Potyviridae.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145034614","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}
引用次数: 0
Detection of hepatitis B virus (HBV) genotypes and co-infection with Torque Teno Virus (TTV) in HBV-positive patients at a tertiary care center in Puducherry, India. 在印度普杜切里的一个三级保健中心检测乙型肝炎病毒(HBV)基因型和在HBV阳性患者中合并感染Torque Teno病毒(TTV)
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-09-11 DOI: 10.1007/s11262-025-02183-x
Anuja George, Mailan Natarajan, Srinivasan Sampath
{"title":"Detection of hepatitis B virus (HBV) genotypes and co-infection with Torque Teno Virus (TTV) in HBV-positive patients at a tertiary care center in Puducherry, India.","authors":"Anuja George, Mailan Natarajan, Srinivasan Sampath","doi":"10.1007/s11262-025-02183-x","DOIUrl":"https://doi.org/10.1007/s11262-025-02183-x","url":null,"abstract":"<p><p>Hepatitis B Virus (HBV) infection is a global health concern. HBV genotypes differ in disease potential and geographical distribution. These genotypes impact the diagnostic and preventive strategies. Furthermore, limited data are available on Torque Teno Virus (TTV) co-infections with HBV. Hence, this study evaluated HBV infection prevalence, genotype distribution, and the presence of TTV among HBV-positive patients. During the study period, a total of 1820 serum samples were collected and tested for HBsAg using ELISA method. Of this, 43 (2.36%) were HBsAg positive. These HBsAg-positive samples were further subjected to conventional PCR followed by Sanger sequencing for HBV and TTV genotype detection. In this study, only HBV genotypes D (subgenotype D2) (97%) and A (subgenotype A1) (3%) were detected. 15% of HBV-infected patients were positive for TTV in which genotype 1A was detected in 66.67% of cases and 1B in 33.33% of cases. To the best of our knowledge, this study represents the first of its kind from Puducherry to document Torque Teno Virus (TTV) co-infection in HBV-positive cases from the non-renal transplant population. This study underscores the significance of HBV genotypes and TTV co-infection in HBV patients. Further studies and surveillance are needed to monitor circulating HBV genotypes and explore TTV's role in co-infection, particularly its pathogenesis and clinical implications.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145034575","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}
引用次数: 0
RNA-viromics unveils diverse RNA viral communities in Large-billed crows and Northern Ravens. RNA病毒组学揭示了大喙乌鸦和北方乌鸦的不同RNA病毒群落。
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-23 DOI: 10.1007/s11262-025-02182-y
Yonggang Dong, Sitong Fan, Shunfu He, Wenxin Zhao, Zhuoma Lancuo, Kirill Sharshov, Ying Li, Wen Wang
{"title":"RNA-viromics unveils diverse RNA viral communities in Large-billed crows and Northern Ravens.","authors":"Yonggang Dong, Sitong Fan, Shunfu He, Wenxin Zhao, Zhuoma Lancuo, Kirill Sharshov, Ying Li, Wen Wang","doi":"10.1007/s11262-025-02182-y","DOIUrl":"https://doi.org/10.1007/s11262-025-02182-y","url":null,"abstract":"<p><p>Birds have historically served as key vectors for viruses causing significant diseases. Corvid birds, often living in close proximity to livestock, poultry, and humans, provide substantial opportunities for cross-species viral transmission. Such transmission can occur through their feces or via ectoparasites (such as ticks, mites, and fleas) on their bodies, thereby releasing viruses into the environment. Despite the development of viral metagenomics, an increasing number of RNA viruses are being characterized across different species. RNA viruses in birds' gut microbial communities remain poorly studied. Here we report an extensive analysis of an RNA virome in fecal samples from Large-billed crows (Corvus macrorhynchos) and Northern Ravens (Corvus corax), both of which are common Corvus species found in the high-altitude forest and grassland regions of the Qinghai-Tibetan Plateau. This study aims to assess the RNA viruses present in the intestines of these corvids and provides the first comprehensive characterization of the diversity of gut-colonizing viruses in these two crow species.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":""},"PeriodicalIF":1.9,"publicationDate":"2025-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144977845","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}
引用次数: 0
Global population dynamics and evolutionary selection in classical swine fever virus complete genomes: insights from Bayesian coalescent analysis. 经典猪瘟病毒全基因组的全球种群动态和进化选择:来自贝叶斯聚结分析的见解。
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-04-08 DOI: 10.1007/s11262-025-02154-2
Roopa Mahadevaswamy, Vijay Muruganantham, Varsha Ramesh, Shijili Mambully, Kuralayanapalya Puttahonnappa Suresh, Jagadish Hiremath, Shivasharanappa Nayakvadi, Baldev Gulati, Sharanagouda Patil
{"title":"Global population dynamics and evolutionary selection in classical swine fever virus complete genomes: insights from Bayesian coalescent analysis.","authors":"Roopa Mahadevaswamy, Vijay Muruganantham, Varsha Ramesh, Shijili Mambully, Kuralayanapalya Puttahonnappa Suresh, Jagadish Hiremath, Shivasharanappa Nayakvadi, Baldev Gulati, Sharanagouda Patil","doi":"10.1007/s11262-025-02154-2","DOIUrl":"10.1007/s11262-025-02154-2","url":null,"abstract":"<p><p>Classical swine fever virus (CSFV) is a pathogen that affects pigs and wild boars. This contagious RNA virus is a high threat to swine industries throughout the world because it has high mortality and morbidity rates, leading to economic losses. Although some studies have analyzed whole-genome sequences, but often focus on isolates from only a few countries, while others started with whole-genome analysis before narrowing down to specific gene region like E2. In addition, several studies have predominantly focused on isolated geographic regions. Our study leverages a global dataset of 220 CSFV whole-genome sequences retrieved from the NCBI repository along with two CSFV complete genome sequence from our laboratory (Accession Number: MH734359.1 and OR4282229.1) and carefully curated to 66 sequences. The refined dataset was subjected to Bayesian analysis along with selection pressure analysis. The outcome of this experiment, the mean substitution rate was estimated at 2.06 × 10<sup>-3</sup> substitutions/site/year with the Highest Posterior Density (HPD) (95% HPD 6.8012 × 10<sup>-4</sup> to 3.3044 × 10<sup>-3</sup>), and the estimated average time to the most recent common ancestor (tMRCA) for the analyzed dataset was the year 1877 (95% HPD 1833.8181-1932.3176). Among the curated dataset, 2 CSFV complete genome sequences (Accession Number: MH734359.1 and OR428229.1) from our laboratory showed a Chinese origin. In addition, pervasive and episodic selection pressure revealed that both had ongoing diversifying natural positive selection, which could lead to increased genetic diversity and possibly emergence of the new lineage. This potential information could be used for future evaluation of strategies to control emerging new genotypes of CSFV with high mortality and morbidity.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"464-473"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812628","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}
引用次数: 0
Prevalence of Epstein-Barr virus and JC virus in tissue samples of gastric cancer, non-malignant, and controls by polymerase chain reaction in northwest Iran. 聚合酶链反应检测伊朗西北部地区胃癌、非恶性和对照组织标本中eb病毒和JC病毒的流行情况
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-05-28 DOI: 10.1007/s11262-025-02165-z
Abolfazl Jafari-Sales, Afsoon Shariat, Hossein Bannazadeh-Baghi, Behzad Baradaran, Behboud Jafari
{"title":"Prevalence of Epstein-Barr virus and JC virus in tissue samples of gastric cancer, non-malignant, and controls by polymerase chain reaction in northwest Iran.","authors":"Abolfazl Jafari-Sales, Afsoon Shariat, Hossein Bannazadeh-Baghi, Behzad Baradaran, Behboud Jafari","doi":"10.1007/s11262-025-02165-z","DOIUrl":"10.1007/s11262-025-02165-z","url":null,"abstract":"<p><p>Gastric cancer (GC) ranks as the fourth most common cancer worldwide and is a leading cause of cancer-related deaths globally. The development of GC is influenced by multiple factors. This study aimed to detect the presence of Epstein-Barr virus (EBV) and JC virus (JCV) in cancerous, non-malignant, and control tissue samples using polymerase chain reaction (PCR) methodology. In this descriptive cross-sectional study, we analyzed 150 paraffin-embedded tissue samples collected over a seven-month period from laboratory archives in East Azerbaijan province. The samples comprised three groups: GC tissues (n = 50), non-malignant gastric tissues (n = 50), and control tissues (n = 50). PCR was performed to detect EBV and JCV. Then, Southern blot analysis was performed for EBV and JCV in PCR positive cases. Data analysis was conducted using SPSS version 18 software with chi-square testing. Among the cancer samples (mean age 61.7 ± 12.01 years), PCR analysis detected EBV in 5 samples (10%) and JCV in 2 samples (4%). The EBV-positive and JCV-positive cases had mean ages of 63.6 ± 13.31 and 61 ± 18.38 years, respectively. No viral DNA was detected in either the non-malignant or control groups. Southern blot analysis was positive in all PCR positive cases. As cancer incidence continues to rise, understanding its risk factors becomes increasingly critical. Our findings demonstrate the presence of EBV and JCV in GC tissues from this geographical region, suggesting their potential role in gastric carcinogenesis. However, the relationship between oncoviruses and GC risk remains understudied. Further research is warranted to elucidate the molecular mechanisms by which these viruses may contribute to GC development.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"455-463"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144174889","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}
引用次数: 0
Studies on insect virus-producing proteins as potential synergists for microbial insecticides: status and prospects. 昆虫产病毒蛋白作为微生物杀虫剂潜在增效剂的研究现状与展望。
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-05-01 DOI: 10.1007/s11262-025-02162-2
Wataru Mitsuhashi
{"title":"Studies on insect virus-producing proteins as potential synergists for microbial insecticides: status and prospects.","authors":"Wataru Mitsuhashi","doi":"10.1007/s11262-025-02162-2","DOIUrl":"10.1007/s11262-025-02162-2","url":null,"abstract":"<p><p>The use of microbial insecticides in crop fields has been very limited, especially in developed countries, compared with that of synthetic (chemical) insecticides, even though the former are friendly to vertebrates (including humans and livestock), most beneficial insects, plants, and the environment. This lower use rate is attributable mainly to their more expensive commercial production and lower effectiveness compared to synthetic insecticides. The combined use of microbial insecticides and synergistic agents would strengthen the potency of these insecticides and decrease the amounts of the microbial insecticides used. This, in turn, would lead to lower costs and wider adoption. Therefore, it is important to develop an efficient method of the combined use. Natural synergists are generally less harmful to vertebrates and the environment than synthetic synergists. Here, I review recent studies on two major natural synergists derived from insect viruses: the proteins enhancin and fusolin. Enhancin originates from baculoviruses that infect insects, while fusolin is found in the insect virus group entomopoxviruses and in baculoviruses; the fusolin in baculoviruses is also referred to as GP37. In addition, I discuss prospects for the development of technologies for the use of the proteins in the fields, including the improvement of gene expression systems and genetically modified plants, and the engineering of the two proteins.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"389-399"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144040070","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}
引用次数: 0
Prevalence and genetic diversity of HTLV-1 among blood donors in Jiroft, Iran: a comprehensive study. 伊朗吉洛夫特献血者中HTLV-1的患病率和遗传多样性:一项综合研究
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-04-28 DOI: 10.1007/s11262-025-02159-x
Fahime Edalat, Amir Gholamzad, Zohreh-Al-Sadat Ghoreshi, Mohammad Dalfardi, Ahmad Golkar, Emad Behboudi, Nasir Arefinia
{"title":"Prevalence and genetic diversity of HTLV-1 among blood donors in Jiroft, Iran: a comprehensive study.","authors":"Fahime Edalat, Amir Gholamzad, Zohreh-Al-Sadat Ghoreshi, Mohammad Dalfardi, Ahmad Golkar, Emad Behboudi, Nasir Arefinia","doi":"10.1007/s11262-025-02159-x","DOIUrl":"10.1007/s11262-025-02159-x","url":null,"abstract":"<p><p>This study aimed to investigate the prevalence and phylogenetic characteristics of Human T-cell lymphotropic virus type 1 (HTLV-1) among blood donors in Jiroft Province, southeast Iran, a region previously under-studied regarding this virus. A total of 405 blood donor samples were collected from six cities within Jiroft Province. Serum samples were screened for HTLV-1 antibodies using the ELISA method, while peripheral blood mononuclear cells (PBMCs) were analyzed via PCR targeting the long terminal repeat (LTR) and TAX regions of the virus. The study identified 6 out of 405 blood donors (1.5%) as positive for HTLV-1. Prevalence was higher among females (1.6%) compared to males (1.2%), with the age group of 46-64 years showing the highest positivity rate (4%). Phylogenetic analysis revealed that the LTR sequences of HTLV-1 in Jiroft were comparable to those circulating in Mashhad Province, with nine single-nucleotide polymorphisms (SNPs) identified in the LTR region of the isolates. The findings highlight the necessity for routine HTLV-1 screening among blood donors in Jiroft to ensure blood safety and mitigate the risk of transmission through transfusions. This study provides essential baseline data on HTLV-1 prevalence in Jiroft and contributes to the understanding of its genetic diversity, emphasizing the need for further research in this area.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"424-431"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144049749","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}
引用次数: 0
Pan-serotype reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay targeting 2B-NSP coding region for colorimetric detection of foot-and-mouth disease virus in clinical samples. 针对2B-NSP编码区的泛血清型逆转录环介导等温扩增(RT-LAMP)法检测临床样品中口蹄疫病毒
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-04-26 DOI: 10.1007/s11262-025-02158-y
Jitendra K Biswal, Rajeev Ranjan, Jajati K Mohapatra, Nihar Ranjan Sahoo, Rabindra Prasad Singh
{"title":"Pan-serotype reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay targeting 2B-NSP coding region for colorimetric detection of foot-and-mouth disease virus in clinical samples.","authors":"Jitendra K Biswal, Rajeev Ranjan, Jajati K Mohapatra, Nihar Ranjan Sahoo, Rabindra Prasad Singh","doi":"10.1007/s11262-025-02158-y","DOIUrl":"10.1007/s11262-025-02158-y","url":null,"abstract":"<p><p>Foot-and-mouth disease (FMD) is a highly contagious viral disease of even-toed animals. Rapid, early, and accurate diagnosis of the disease is important for the swift control of FMD. Although PCR-based assays are being used routinely for the effective diagnosis of FMD, these assays require sophisticated equipment, dedicated manpower, and complex procedures for the detection of amplified viral-genome. Colorimetric isothermal amplification assay with a sharp contrast in colour changes for the positive amplification of viral-genome would be qualified for quick and simple diagnosis of FMDV in both laboratory and field. Here, we report the development and evaluation of FMDV 2B-NSP coding region-based colorimetric RT-LAMP assay for pan-serotypic detection of viral-genome. Addition of 1 mg/ml of bovine serum albumin (BSA) as an additive, could reduce the detection time of the RT-LAMP assay from 60 to 30 min/reaction. Analytical sensitivity test showed that the RT-LAMP assay can detect up to 1000 copies of FMDV genome/reaction, simultaneously, the assay was found specific for the detection of FMDV genome as revealed on testing with serotypes O, A and Asia1 circulating in India during the last two decades. In addition, analysis of 312 clinical samples from various field outbreaks of FMDV in the country showed that RT-LAMP assay exhibited a sensitivity of 96.07%, and a specificity of 100% with an overall accuracy of 97.12%. Therefore, owing to the naked eye distinct visualization of amplified product (pink to yellow colour change), the RT-LAMP assay may facilitate rapid screening of FMD-suspected clinical samples without the use of hazardous DNA-binding dyes and simultaneously prevents aerosolization of amplified product, and subsequent carry over contamination in the diagnostic laboratory.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"490-497"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144065093","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}
引用次数: 0
Molecular and phylogenetic analysis of influenza A and B viruses circulating in Sri Lanka following the COVID-19 pandemic. COVID-19大流行后在斯里兰卡流行的甲型和乙型流感病毒的分子和系统发育分析
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-04-25 DOI: 10.1007/s11262-025-02161-3
Thejanee Perera, Asanka Bowatte, Shanika Perera, Dinithi Rathnayaka, Vaithehi Francis, Shiyamalee Arunasalam, Sevwandi Abeywardana, Faseeha Noordeen, Saranga Sumathipala, Rohitha Muthugala
{"title":"Molecular and phylogenetic analysis of influenza A and B viruses circulating in Sri Lanka following the COVID-19 pandemic.","authors":"Thejanee Perera, Asanka Bowatte, Shanika Perera, Dinithi Rathnayaka, Vaithehi Francis, Shiyamalee Arunasalam, Sevwandi Abeywardana, Faseeha Noordeen, Saranga Sumathipala, Rohitha Muthugala","doi":"10.1007/s11262-025-02161-3","DOIUrl":"10.1007/s11262-025-02161-3","url":null,"abstract":"<p><p>Influenza viruses pose significant public health challenges, causing seasonal epidemics with high morbidity and mortality. This study sequenced influenza viral RNA from hospitalized patients with severe acute respiratory illness in Sri Lanka using an amplicon-based approach on the Illumina platform. Raw sequencing reads were quality checked using FASTP and Trimmomatic. Assembly was performed with SPAdes, and subtype identification was conducted using ABRIcate. Phylogenetic trees for HA and NA genes were generated in MEGA X and Geneious Prime and visualized with iTOL. Data analysis was performed using Galaxy and INSaFLU. Nineteen patient samples from different regions were successfully sequenced, identifying influenza A H1N1 (7/19), H3N2 (6/19), and influenza B (6/19). Notably, co-infection with H1N1 and the SARS-CoV-2 Omicron variant was observed, along with the co-circulation of influenza A H1N1, H3N2, and B strains in 2023. Molecular analysis revealed that all H1N1 and H3N2 strains carried mutations consistent with global strains. Influenza B strains also aligned with global trends. Key mutations affecting antigenicity and receptor binding were identified, highlighting viral evolution. This study explores the molecular evolution of influenza viruses in Sri Lanka (2021-2024) post-COVID-19. Findings underscore the need for continued molecular surveillance to inform public health strategies, particularly regarding co-infections and emerging mutations. However, this study did not assess the association between influenza genomic characteristics and disease severity; thus, future research could explore potential links between specific mutations, clades, or co-infections and clinical outcomes.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"444-454"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144004869","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}
引用次数: 0
Comparison of two continuous cell lines BHK-21 and IB-IS2 for isolating field serotypes O and A of Foot-and-Mouth disease virus. 两株连续细胞株BHK-21和IB-IS2分离口蹄疫病毒O型和A型的比较
IF 1.9 4区 医学
Virus Genes Pub Date : 2025-08-01 Epub Date: 2025-06-13 DOI: 10.1007/s11262-025-02166-y
Siamak Khoshnood, Seyed Mahmoud Azimi, Zahra Ziafati Kafi, Hamideh Najafi, Arash Ghalyanchi Langeroudi
{"title":"Comparison of two continuous cell lines BHK-21 and IB-IS2 for isolating field serotypes O and A of Foot-and-Mouth disease virus.","authors":"Siamak Khoshnood, Seyed Mahmoud Azimi, Zahra Ziafati Kafi, Hamideh Najafi, Arash Ghalyanchi Langeroudi","doi":"10.1007/s11262-025-02166-y","DOIUrl":"10.1007/s11262-025-02166-y","url":null,"abstract":"<p><p>Foot-and-mouth disease (FMD) is a highly infectious viral infection that has a significant economic impact on livestock farming worldwide. The adaptability of a field isolate of FMDV virus for rapid isolation and production of a high antigen titer is one of the concerns of vaccine preparation, which can delay and endanger effective control programs. During a period between 2019 and 2020, a total of 63 oral epithelial samples were collected from vaccinated cattle. These samples were first analyzed and typed to identify the virus using ELISA method. Subsequently, the field virus was isolated using two continuous cell lines, BHK-21 and IB-IS2. Cytopathic effects (CPE) were observed under an inverted microscope, and then viral titration of isolated viruses was determined. Of 63 samples received from 2019 to 2020, 50 samples (79.36%) were reported positive by type-specific ELISA and typed as follows: 32 samples (64%) were type O, and 18 samples (36%) were type A. Of 50 positive samples, 38 samples (76%) were isolated in the IB-IS2 cell culture (26 samples type O, 12 samples type A) and 12 samples (34%) were isolated in the BHK-21 cell culture (9 samples type O, 3 samples type A) during three consecutive passages. The mean virus titration of isolated viruses was 10<sup>-3.4</sup> TCID<sub>50</sub> in the IB-IS2 cell line and 10<sup>-4.2</sup> TCID<sub>50</sub> in BHK-21 cell line. 26 samples that were initially isolated on the IB-IS2 cell line but not on the BHK-21 cell line were successfully isolated on the BHK-21 cell line after three consecutive passages of culture on the IB-IS2 cell line. In these samples, an average increase of about 10<sup>-1.08</sup> in TCID50 was observed. Although both studied cell lines are suitable for the culture of Foot-and-mouth Disease virus, the IB-IS2 cell line is particularly suitable for the isolation of field viruses. While according to the virus titer (TCID50) produced in the BHK-21 cell line, this cell line is suitable for large-scale virus culture and appropriate for the production of inactivated vaccines.</p>","PeriodicalId":51212,"journal":{"name":"Virus Genes","volume":" ","pages":"498-504"},"PeriodicalIF":1.9,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144287066","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}
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