IF 2.8 3区医学

Virology Pub Date : 2025-04-29 DOI: 10.1016/j.virol.2025.110558

Billal M. Obeng , Roger D. Kouyos , Katharina Kusejko , Luisa Salazar-Vizcaya , Huldrych F. Günthard , Anthony D. Kelleher , Francesca Di Giallonardo , the Swiss HIV Cohort Study

{"title":"Threshold sensitivity analysis for HIV-1 transmission cluster detection using different genomic regions and subtypes","authors":"Billal M. Obeng , Roger D. Kouyos , Katharina Kusejko , Luisa Salazar-Vizcaya , Huldrych F. Günthard , Anthony D. Kelleher , Francesca Di Giallonardo , the Swiss HIV Cohort Study","doi":"10.1016/j.virol.2025.110558","DOIUrl":"10.1016/j.virol.2025.110558","url":null,"abstract":"<div><div>HIV-1 cluster analysis has been widely used in characterizing HIV-1 transmission and some countries have implemented such molecular epidemiology as part of their prevention strategy. However, HIV-1 sequences derive from varying genome regions, which affects phylogenetic clustering outputs. Here, we apply different tools to run a sensitivity analysis for assessing which threshold give the most cohesive clustering outputs for different data sources. We used a dataset of 174 full-length sequences of subtype B from the Swiss HIV Cohort Study and publicly available subtype C from South Africa. Each dataset was divided into sub-genomic sub-datasets covering <em>gag</em>, <em>pol</em>, and <em>en</em>v. <em>pol</em> was further subdivided into regions commonly used in HIV-1 genotyping laboratories (<em>pr-rt</em>, <em>rt-int</em>, and <em>pr-rt-int)</em>. Cluster analyses for each sub-genomic region was performed specifying varying distance thresholds of 0.5 %–4.5 % and tree branch support of 70 %, 90 % and 99 % in ClusterPicker. Tree topologies and clustering outputs were compared against each other to assess cluster similarity. Pylogenies using <em>pol</em>, <em>pr-rt-int</em>, or <em>rt-int</em> had more robust tree topologies compared to <em>gag</em> and <em>env</em>. Cluster composition changed with increasing genetic distance threshold but was not affected by branch support. Cluster identity was most similar around genetic distances of 2.5 (±0.5)% for all sub-genomic regions and for both subtype B and C. Our study demonstrated the value of performing a sensitivity analysis before setting a genetic distance threshold for clustering output and that the <em>pol</em> region is appropriate for clustering outputs and can be used for near real-time HIV-1 cluster detection.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110558"},"PeriodicalIF":2.8,"publicationDate":"2025-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143906777","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Interference between SARS-CoV-2 and influenza B virus during coinfection is mediated by induction of specific interferon responses in the lung epithelium SARS-CoV-2和乙型流感病毒在合并感染期间的干扰是通过诱导肺上皮中的特异性干扰素反应介导的

IF 2.8 3区医学

Virology Pub Date : 2025-04-25 DOI: 10.1016/j.virol.2025.110556

Dorothee Reuss , Jonathan C. Brown , Ksenia Sukhova , Wilhelm Furnon , Vanessa Cowton , Arvind H. Patel , Massimo Palmarini , Catherine Thompson , Wendy S. Barclay

{"title":"Interference between SARS-CoV-2 and influenza B virus during coinfection is mediated by induction of specific interferon responses in the lung epithelium","authors":"Dorothee Reuss , Jonathan C. Brown , Ksenia Sukhova , Wilhelm Furnon , Vanessa Cowton , Arvind H. Patel , Massimo Palmarini , Catherine Thompson , Wendy S. Barclay","doi":"10.1016/j.virol.2025.110556","DOIUrl":"10.1016/j.virol.2025.110556","url":null,"abstract":"<div><div>Coinfections with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and influenza virus have represented a major health concern since the beginning of the COVID-19 pandemic. The continued spread and constant emergence of new SARS-CoV-2 variants mean that cocirculation and coinfection with seasonal respiratory viruses will continue. Despite the considerable contribution of influenza B virus (IBV) infections to global disease burdens, its interactions with SARS-CoV-2 remain largely unstudied. In this study, we sequentially coinfected lung epithelial cells with representative SARS-CoV-2 variants and IBV strains. We found that prior infection with IBV impaired SARS-CoV-2 D614G, Delta and Omicron BA.1 replication, but did not affect replication of the more recent Omicron EG.5.1 variant. We additionally show that pre-infection with SARS-CoV-2 reduces live attenuated influenza vaccine (LAIV) replication, suggesting vaccine effectiveness in children carrying SARS-CoV-2 pre-infections can be negatively impacted in coinfection. Both SARS-CoV-2 and IBV induced strong type III interferon (IFN) responses, whereas SARS-CoV-2 drove type I IFN production not seen in IBV infection, suggesting viral interference through specific IFN responses. Treatment with innate immune response inhibitors BX795 and Ruxolitinib abrogated viral interference between IBV and SARS-CoV-2 in coinfection, demonstrating that IFN-stimulated gene (ISG) responses play a vital role in viral interference. More specifically, we show that the magnitude and timing of ISG expression, triggered by the primary infecting virus in sequential coinfection, facilitates viral interference between IBV and SARS-CoV-2.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110556"},"PeriodicalIF":2.8,"publicationDate":"2025-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143894751","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Ross River virus genomes from Australia and the Pacific display coincidental and antagonistic codon usage patterns with common vertebrate hosts and a principal vector 来自澳大利亚和太平洋的罗斯河病毒基因组与普通脊椎动物宿主和主要载体显示出一致和拮抗的密码子使用模式

IF 2.8 3区医学

Virology Pub Date : 2025-04-24 DOI: 10.1016/j.virol.2025.110530

Eugene T. Madzokere , Wesley Freppel , Alyssa T. Pyke , Stacey E. Lynch , Peter T. Mee , Stephen L. Doggett , John Haniotis , Richard Weir , Leon Caly , Julian Druce , Jennifer M. Robson , Andrew F. van den Hurk , Robert Edwards , Lara J. Herrero

{"title":"Ross River virus genomes from Australia and the Pacific display coincidental and antagonistic codon usage patterns with common vertebrate hosts and a principal vector","authors":"Eugene T. Madzokere , Wesley Freppel , Alyssa T. Pyke , Stacey E. Lynch , Peter T. Mee , Stephen L. Doggett , John Haniotis , Richard Weir , Leon Caly , Julian Druce , Jennifer M. Robson , Andrew F. van den Hurk , Robert Edwards , Lara J. Herrero","doi":"10.1016/j.virol.2025.110530","DOIUrl":"10.1016/j.virol.2025.110530","url":null,"abstract":"<div><div>Around 4500 Ross River virus (RRV) human cases are reported in Australia annually. To date, there is no registered nor licenced vaccine to protect against RRV disease. Identifying and substituting preferred with less-preferred codons and dinucleotides is a recognised strategy to attenuate viruses and may prove useful to vaccine development efforts for RRV and other related viruses. Here, we used bioinformatic approaches aimed at assessing evidence of codon usage and dinucleotide bias in 55 RRV whole genomes sampled from humans (<em>Homo sapiens</em>), macropods (<em>Notomacropus agilis</em>), and the <em>Aedes vigilax</em> mosquito. Our results indicate that RRV undergoes positive and negative codon usage bias with natural selection as the major force driving RRV codon usage patterns. RRV displays a bias towards codons with an A or C at the 3rd position while <em>H. sapiens</em> displays a G or C and <em>N. agilis</em> and <em>Ae. vigilax</em> both show bias towards codons with an A or U at the same 3rd position. RRVs codon usage patterns are coincidental to those displayed by common vertebrate hosts and antagonistic to patterns of <em>Ae. vigilax</em>. The coincidental bias identified suggests vertebrate host gene expression greatly influences RRV evolution. In addition, we show that the UG dinucleotides in RRV are overrepresented at all three codon sites, while CA dinucleotides are only overrepresented at codon sites 1–2 and 2–3. These over and under-representations can be exploited to develop attenuated RRV RNA vaccines. The approach utilised here could also be used to develop vaccines for other alphaviruses of global importance.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110530"},"PeriodicalIF":2.8,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143887167","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Structural biology of single-stranded, positive-sense RNA viruses in the age of accurate atomic-scale predictions of protein structures 单链阳性RNA病毒的结构生物学在蛋白质结构精确的原子尺度预测时代

IF 2.8 3区医学

Virology Pub Date : 2025-04-24 DOI: 10.1016/j.virol.2025.110546

Stéphane Bressanelli, Sonia Fieulaine, Thibault Tubiana

{"title":"Structural biology of single-stranded, positive-sense RNA viruses in the age of accurate atomic-scale predictions of protein structures","authors":"Stéphane Bressanelli, Sonia Fieulaine, Thibault Tubiana","doi":"10.1016/j.virol.2025.110546","DOIUrl":"10.1016/j.virol.2025.110546","url":null,"abstract":"<div><div>For decades atomic structures of proteins could only be determined experimentally and at a very slow pace. This was a particular problem for RNA viruses, for which sequences diverge fast and horizontal transfers are common. This made modeling from known structures difficult and uncertain. Only hard experimental structural data could allow accurate atomic descriptions of viral proteins and subsequent analyses, from mutant phenotype prediction to drug design. This has changed. With the advent of AlphaFold, that allows accurate protein structure prediction from sequence only, it is now possible in most cases to have the structure of a new protein of interest in a matter of minutes. In this mini review we focus on important consequences of this new state of affairs. While most of our conclusions are likely relevant to RNA viruses in general, here we focus on single-stranded, positive-sense RNA viruses. Taking as case studies proteins that are studied in our lab, we highlight why these viruses generally encode proteins that are particularly tough cases, being membrane-associated proteins with alternate conformations, structures, and interactions that may not be conserved even between close relatives. For these proteins AlphaFold may even fail or at least mislead, but with a proper approach it may also allow jump-starting the study of difficult or understudied viruses.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110546"},"PeriodicalIF":2.8,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143876550","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Identification of a broad-spectrum lytic Bordetella phage and assessments of its potential for combating Bordetella infections 一种广谱溶波德氏菌噬菌体的鉴定及其抗波德氏菌感染潜力的评估

IF 2.8 3区医学

Virology Pub Date : 2025-04-24 DOI: 10.1016/j.virol.2025.110545

Xi Huang , Yanyan Hou , Mengfei Zhao , Jian Chen , Zhanwei Zhu , Hanyuan Liu , Minghao Wang , Lin Hua , Huanchun Chen , Bin Wu , Zhong Peng

{"title":"Identification of a broad-spectrum lytic Bordetella phage and assessments of its potential for combating Bordetella infections","authors":"Xi Huang , Yanyan Hou , Mengfei Zhao , Jian Chen , Zhanwei Zhu , Hanyuan Liu , Minghao Wang , Lin Hua , Huanchun Chen , Bin Wu , Zhong Peng","doi":"10.1016/j.virol.2025.110545","DOIUrl":"10.1016/j.virol.2025.110545","url":null,"abstract":"<div><div><em>Bordetella bronchiseptica</em> (Bb) is a zoonotic respiratory pathogen that frequently causes infections in farming and companion animals, posing threats to agricultural economics and public health. However, Bb strains are intrinsically resistant to several antibiotics commonly used to treat respiratory infections. Phage therapy has been recognized as a promising strategy to combat bacterial infections. In this study, a novel <em>Bordetella</em> phage, designated PY223, was isolated using Bb strains as indicators. Genome network analysis with different phages showed PY223 was related to 15 viral clusters but was not included in any of these clusters. PY223 did not carry any known genes involved in lysogeny and/or horizontal gene transfer. Host range analysis showed that PY223 exhibited the capacity to lyse 70 Bb strains isolated from pigs and/or cats. Measurement of the one-step growth curve showed that PY223 had an incubation period of 10 min and a rapid growth period of 80 min. The burst size was estimated to be approximately 10<sup>9</sup> PFU/cell. In addition, PY223 displayed the capacity to inhibit the growth of Bb for up to 17 h. PY223 was stable under environmental temperatures ranging from 4 °C to 60 °C and/or pH values between 5.0 and 9.0. It remained stable even when exposed to UV light for 30 min. Notably, PY223 effectively eliminated Bb biofilms, inhibited the growth of prophage-harboring Bb strains, and cleared Bb from the environment. <em>In vivo</em> testing in mouse models highlighted its excellent potential for treating respiratory <em>Bordetella</em> infections.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110545"},"PeriodicalIF":2.8,"publicationDate":"2025-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143881586","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Targeting the host protein G3BP1 for the discovery of novel antiviral inhibitors against Chikungunya virus 靶向宿主蛋白G3BP1发现新的基孔肯雅病毒抗病毒抑制剂

IF 2.8 3区医学

Virology Pub Date : 2025-04-22 DOI: 10.1016/j.virol.2025.110551

Supreeti Mahajan , Ravi Kumar , Ankur Singh , Preeti Dhaka , Akshay Pareek, Pravindra Kumar, Shailly Tomar

{"title":"Targeting the host protein G3BP1 for the discovery of novel antiviral inhibitors against Chikungunya virus","authors":"Supreeti Mahajan , Ravi Kumar , Ankur Singh , Preeti Dhaka , Akshay Pareek, Pravindra Kumar, Shailly Tomar","doi":"10.1016/j.virol.2025.110551","DOIUrl":"10.1016/j.virol.2025.110551","url":null,"abstract":"<div><div>The molecular interactions between Chikungunya virus (CHIKV) non-structural protein 3 (nsP3) and the host GTPase Activating SH3 Domain Binding Protein 1 (G3BP1) are critical for CHIKV replication. The C-terminus hypervariable domain (HVD) of nsP3 protein binds to the nuclear transport factor 2 (NTF2)-like domain of G3BP1 through two tandem FGDF motifs, aiding in the disruption of stress granule (SG) formation. Given G3BP1's role in the antiviral response, it presents an attractive target for antiviral drug development. In this study, seven potential small molecules targeting the FGDF motif binding pocket of G3BP1 were identified using a structure-based virtual screening approach. The binding modes of these molecules were further investigated through molecular docking and simulations. Surface Plasmon Resonance (SPR) and Isothermal Titration Calorimetry (ITC) experiments confirmed their binding to purified G3BP1 with micromolar (μM) affinity. The antiviral efficacy of these molecules was assessed using <em>in vitro</em> cell culture-based assays, revealing that L-7, WIN, SB2, NAL, DHD, GSK, and FLU effectively inhibited CHIKV replication with EC<sub>50</sub> values of 1.99, 0.40, 5.38, 1.52, 7.39, 3.66, and 0.61 μM, respectively. Additionally, CHIKV-infected cells treated with these compounds exhibited fewer virus-induced SGs compared to untreated controls without affecting SG formation under oxidative stress conditions. These findings indicate that identified inhibitors successfully block G3BP1-nsP3 interactions and suppress CHIKV replication. This is one of the first reports of small antiviral molecules targeting G3BP1, a host protein essential for stress granule formation in the antiviral cellular response and CHIKV replication.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110551"},"PeriodicalIF":2.8,"publicationDate":"2025-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143881585","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Emerging structure of chlorovirus PBCV-1 氯病毒PBCV-1的新结构

IF 2.8 3区医学

Virology Pub Date : 2025-04-22 DOI: 10.1016/j.virol.2025.110552

James L. Van Etten , Irina V. Agarkova , David D. Dunigan , Qianqian Shao , Qianglin Fang

引用次数: 0

The isolation and identification of a novel flavivirus from diseased Chinese soft-shelled turtle (Pelodiscus sinensis) 一种新型黄病毒的分离与鉴定

IF 2.8 3区医学

Virology Pub Date : 2025-04-18 DOI: 10.1016/j.virol.2025.110547

Qi Guo , Sunjian Lyu , Weifeng Shen , Li Liu , Wenjun Ma , Mingxing Zhang , Weishao Bu , Bao Lou

{"title":"The isolation and identification of a novel flavivirus from diseased Chinese soft-shelled turtle (Pelodiscus sinensis)","authors":"Qi Guo , Sunjian Lyu , Weifeng Shen , Li Liu , Wenjun Ma , Mingxing Zhang , Weishao Bu , Bao Lou","doi":"10.1016/j.virol.2025.110547","DOIUrl":"10.1016/j.virol.2025.110547","url":null,"abstract":"<div><div>In recent years, mass mortality of <em>Pelodiscus sinensis</em> has occurred in many Chinese turtle farms and no etiological research on this disease has been conducted to date. The main clinical manifestation of sick <em>P. sinensis</em> was telangiectasis induced bleeding occurred in the limbs, calipash and plastron. After dissection, we found that the blood viscosity was reduced. Typical clinical manifestations included light abdominal cavity effusion, intestine and gastric wall edema and transparency. HE staining showed distinct lesions in liver, intestine, kidney, spleen, heart and lung tissues of infected <em>P. sinensis</em>. TEM observation showed that the spherical virions were approximately 30 nm in diameter. Partial genome of the pathogen was obtained by Illumina sequencing and then assembled and annotated. Phylogenetic analysis of the polyprotein amino acid sequences of this pathogen and other flaviviruses showed that it was closely related to Chinese soft-shelled turtle flavivirus isolate HZ-2017. RT-PCR detection of this virus in the sick <em>P. sinensis</em> from turtle farms showed a high infection rate. QRT-PCR analysis of viral distribution in <em>P. sinensis</em> tissues indicated that the kidney contains the highest amount of virus. The virus was tentatively named “Pelodiscus sinensis flavivirus” (PSFV). In this study, the results of PSFV pathological characteristic and genome information laid a good foundation for further study of this virus.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110547"},"PeriodicalIF":2.8,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143858734","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Multi-epitope microsphere vaccine modified immunological efficacy against LMBV in largemouth bass (Micropterus salmoides) 多表位微球疫苗对大口黑鲈LMBV免疫效果的影响

IF 2.8 3区医学

Virology Pub Date : 2025-04-18 DOI: 10.1016/j.virol.2025.110553

Fu-Yi Jiang , Jun-Yao Xia , Yi-Jun Jia , Bin Zhu

{"title":"Multi-epitope microsphere vaccine modified immunological efficacy against LMBV in largemouth bass (Micropterus salmoides)","authors":"Fu-Yi Jiang , Jun-Yao Xia , Yi-Jun Jia , Bin Zhu","doi":"10.1016/j.virol.2025.110553","DOIUrl":"10.1016/j.virol.2025.110553","url":null,"abstract":"<div><div>The largemouth bass <em>iridovirus</em> disease, caused by the largemouth bass virus (LMBV), has a mortality rate of up to 60 %, and no commercial vaccine is available. This study focused on developing a vaccine against LMBV by engineering <em>Escherichia coli</em> to express highly immunogenic antigen epitopes (S11, S12, S3) from preliminary research. A stable recombinant dodecapeptide antigen gene with flexible linkers was constructed, yielding a 25 kDa fusion protein (X1-J) confirmed by SDS-PAGE. The resulting antigen proteins were purified and combined with PLGA (poly (lactic-co-glycolic acid)) to form nanospheres (P-P) with a diameter of 17.2 μm, spherical shape, porous surface, and a 34.13 % drug loading efficiency. By day 21 post-vaccination, both the P groups (X1-J groups) and the P-P groups exhibited significantly elevated immune-related enzyme activities (AKP, CAT, SOD, ACP) in comparison to the controls (<em>P</em> < 0.05). Furthermore, the P-P groups exhibited elevated levels of immune-related gene expression, including <em>IgM</em>, <em>IL-8</em>, <em>TNF-α</em>, <em>IFN-γ</em>, <em>CD40</em>, <em>TGF-β</em>, and <em>IL-10</em>. Finally, we tested the relative percent survival values of the vaccine (P-P) using LMBV, which can reach 15.79 %, 31.58 %, and 47.37 % (5, 10, and 20 μg/g) at 14 days after the injection of the virus. These values were significantly higher than those of the P group at the same concentrations. Our study introduces a new strategy for against LMBV and a reference for developing vaccines using multi-epitope technology.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110553"},"PeriodicalIF":2.8,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143870033","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

The GI-19 dominant genotype of infectious bronchitis virus in chickens from 2021 to 2023 in Sichuan province is frequently involved in recombination events 2021 - 2023年四川省鸡传染性支气管炎病毒GI-19显性基因型频繁参与重组事件

IF 2.8 3区医学

Virology Pub Date : 2025-04-18 DOI: 10.1016/j.virol.2025.110543

Fuyan Wang , Wenjun Yan , Lijia Liu , Dongli Shu , Xin Yang , Wenlong Xu

{"title":"The GI-19 dominant genotype of infectious bronchitis virus in chickens from 2021 to 2023 in Sichuan province is frequently involved in recombination events","authors":"Fuyan Wang , Wenjun Yan , Lijia Liu , Dongli Shu , Xin Yang , Wenlong Xu","doi":"10.1016/j.virol.2025.110543","DOIUrl":"10.1016/j.virol.2025.110543","url":null,"abstract":"<div><div>Infectious bronchitis virus (IBV), the etiological agent of infectious bronchitis (IB) in chickens, is a highly contagious respiratory disease that poses significant economic burdens on the global poultry industry. Comprehensive knowledge of the epidemiological patterns and genetic variations of IBV is crucial for effective prevention and control strategies. In this study, we collected 684 suspected samples from Sichuan province between 2021 and 2023. PCR testing revealed a total positivity rate of 26.9 %, with the Guangyuan region exhibiting the highest positivity rate at 37.2 %. Subsequently, we obtained 21 complete IBV S1 gene sequences and the phylogenetic analysis identified the GI-19 type as the predominant strain. Comparing nucleic acid similarity among the 21 isolated strains, we observed a range of 66.48 %–99.69 % nucleotide similarity (56.22 %–99.45 % in amino acids). The QXL87 vaccine strain exhibited higher similarity to the isolated strains. Amino acid variations in the three hypervariable regions (HVRs) showed the highest variability in HVR I. The GVI type strain differed in amino acid composition from QXL87 in HVR I, resulting in reduced N-glycosylation sites on the S1 gene. Furthermore, all isolated strains displayed varying reductions in N-glycosylation sites on the S1 gene compared to the QXL87 vaccine strain. Ultimately, recombination analysis revealed frequent involvement of the GI-19 and GI-22 strains in gene recombination. The majority of recombined strains were derived from partial segments of the GI-19 strain, with no recombination observed in any of the isolated GI-19 strains. In summary, our findings elucidate the prevalence of IBV in Sichuan province and highlight the pivotal role of the GI-19 strain in IBV recombination, thereby offering valuable data support for IBV control.</div></div>","PeriodicalId":23666,"journal":{"name":"Virology","volume":"608 ","pages":"Article 110543"},"PeriodicalIF":2.8,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143873325","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

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