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Transcriptomics-Based Investigation of Resistance Differences to Swine Fever between Large White pigs and Min pigs.
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-26 DOI: 10.1016/j.virusres.2025.199536
Jia Li, Deming Ren, Xiangxu Meng, Yiyun He, Lixian Wang, Xihui Sheng, Ligang Wang
{"title":"Transcriptomics-Based Investigation of Resistance Differences to Swine Fever between Large White pigs and Min pigs.","authors":"Jia Li, Deming Ren, Xiangxu Meng, Yiyun He, Lixian Wang, Xihui Sheng, Ligang Wang","doi":"10.1016/j.virusres.2025.199536","DOIUrl":"https://doi.org/10.1016/j.virusres.2025.199536","url":null,"abstract":"<p><p>The genetic foundations underlying the observed disease resistance in certain indigenous pig breeds, notably the Min pigs of China, present a compelling underexplored subject of study. Exploring the mechanisms of disease resistance in these breeds could lay the groundwork for genetic improvements in pig immunity, potentially augmenting overall pig productivity. In this study, whole blood samples were collected from pre- and post- swine fever vaccinated Min and Large White pigs for transcriptome sequencing. The mRNA and lncRNA in both pig breeds were analyzed, and intra-group and inter-group comparisons were also conducted. The results indicated that a greater number of immune-related pathways such as the JAK-STAT and PI3K-AKT signaling were enriched in Min pigs. Furthermore, genes involved in inflammation and antiviral responses, including IL16, IL27, USP18, and DHX58, were upregulated in post-vaccination Min pigs compared to post-vaccination Large White pigs. This heightened immune responsiveness could contribute to the observed differences in disease resistance between Min pigs and Large White pigs.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199536"},"PeriodicalIF":2.5,"publicationDate":"2025-01-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143060869","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
Genomic evolution of SARS-CoV-2 in Morocco: Insights from Whole Genome Sequences collected from 2020 to 2024.
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-24 DOI: 10.1016/j.virusres.2025.199530
Hamza Ghammaz, Marouane Melloul, Ahlam Mbarki, Mouhssine Hemlali, Taha Chouati, Hicham El Annaz, Nadia Touil, Mostafa Elouennass, Khalid Ennibi, Elmostafa El Fahime
{"title":"Genomic evolution of SARS-CoV-2 in Morocco: Insights from Whole Genome Sequences collected from 2020 to 2024.","authors":"Hamza Ghammaz, Marouane Melloul, Ahlam Mbarki, Mouhssine Hemlali, Taha Chouati, Hicham El Annaz, Nadia Touil, Mostafa Elouennass, Khalid Ennibi, Elmostafa El Fahime","doi":"10.1016/j.virusres.2025.199530","DOIUrl":"https://doi.org/10.1016/j.virusres.2025.199530","url":null,"abstract":"<p><p>This study investigates the evolution and genetic diversity of SARS-CoV-2 strains circulating in Morocco to track the spread, clade distributions and mutations of the virus across various regions from February 2020 to June 2024. The genome sequences were retrieved from the GISAID database. A total of 2630 SARS-CoV-2 genome sequences were analyzed using bioinformatic tools such as Nextclade, followed by phylogenetic and statistical analyses. The study highlights the predominance of the GRA clade (Omicron variant) since November 2021, while clades such as G, GH, GR, and GRY were identified earlier. The GRA clade exhibited the highest number of non-synonymous mutations, particularly in the Spike (S) gene, suggesting strong evolutionary pressure. The correlation analysis between structural and non-structural proteins revealed key interactions between S and NSP5, providing insights into the viral replication and assembly processes. This work gives new insights to the dynamics of SARS-CoV-2 in Morocco and underscores the importance of ongoing genomic surveillance to respond to emerging variants and potential future outbreaks.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199530"},"PeriodicalIF":2.5,"publicationDate":"2025-01-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143048109","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
A Cell-penetrating bispecific antibody suppresses hepatitis B virus replication and secretion.
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-23 DOI: 10.1016/j.virusres.2025.199531
Chongwei Xie, Bing Zhou, Da Yao, Xin Wang, Lihong Zhou, Chuanghua Qiu, Junfang Zhang
{"title":"A Cell-penetrating bispecific antibody suppresses hepatitis B virus replication and secretion.","authors":"Chongwei Xie, Bing Zhou, Da Yao, Xin Wang, Lihong Zhou, Chuanghua Qiu, Junfang Zhang","doi":"10.1016/j.virusres.2025.199531","DOIUrl":"https://doi.org/10.1016/j.virusres.2025.199531","url":null,"abstract":"<p><p>Hepatitis B virus (HBV) represents one of the major pathogenic factor that leads to chronic liver diseases and the development of hepatocellular carcinoma (HCC). The currently approved anti-HBV drugs cannot eradicate the virus or block the development of HCC. HBV nucleocapsid consists of the hepatitis B core antigen (HBcAg) and the HBV relaxed-circular partially double-stranded DNA (rcDNA), indispensable in virus replication. The present study reported a cell-penetrating bispecific antibody targeting HBcAg and preS1, fused with the cell-penetrating peptide R9TAT, named Anti-preS1 × Anti-HBcAg-R9TAT. The antibody could recognize preS1 and HBcAg and internalize into living cells efficiently, suppressing the extracellular hepatitis B surface antigen (HBsAg) and hepatitis B envelope antigen, and the intracellular HBsAg and HBcAg in vitro. This cell-penetrating bispecific antibody is a novel approach to suppressing HBV replication and secretion and is a promising anti-HBV therapeutic antibody candidate.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199531"},"PeriodicalIF":2.5,"publicationDate":"2025-01-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143041678","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
Analysis of Synonymous Codon Usage bias of Lassa virus. 拉沙病毒同义密码子使用偏差分析。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-18 DOI: 10.1016/j.virusres.2025.199528
Siddiq Ur Rahman, Yikui Hu, Hassan Ur Rehman, May M Alrashed, Kotb A Attia, Ubaid Ullah, Huiying Liang
{"title":"Analysis of Synonymous Codon Usage bias of Lassa virus.","authors":"Siddiq Ur Rahman, Yikui Hu, Hassan Ur Rehman, May M Alrashed, Kotb A Attia, Ubaid Ullah, Huiying Liang","doi":"10.1016/j.virusres.2025.199528","DOIUrl":"https://doi.org/10.1016/j.virusres.2025.199528","url":null,"abstract":"<p><p>Lassa virus genome consists of two single-stranded, negative-sense RNA segments that lie in the genus Arenavirus. The disease associated with the Lassa virus is distributed all over the world, with approximately 3,000,000-5,000,000 infections diagnosed annually in West Africa. It shows high health risks to the human being. Previous research used the evolutionary time scale and adaptive evolution to describe the Lassa virus population pattern. However, it is still unclear how the Lassa virus takes advantage of synonymous codons. In this study, we analyzed the codon usage bias in 162 Lassa virus strains by calculating and comparing the nucleotide contents, effective number of codons (ENC), codon adaptation index (CAI), relative synonymous codon usage (RSCU), and others. The results disclosed that LASV strains are rich in A/T. The average ENC value indicated a low codon usage bias in LASVs. The ENC-plot, neutrality plot and parity rule 2 plot demonstrated that, besides mutational pressure, other factors like natural selection also contributed to codon usage bias. This study is significant because it described the pattern of codon usage in the genomes of the Lassa viruses and provided the information needed for a fundamental evolutionary study of them.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199528"},"PeriodicalIF":2.5,"publicationDate":"2025-01-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143012481","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
Novel bacteriophages targeting wheat phyllosphere bacteria carry DNA modifications and single-strand breaks. 针对小麦叶球细菌的新型噬菌体带有 DNA 修饰和单链断裂。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-08 DOI: 10.1016/j.virusres.2024.199524
Peter Erdmann Dougherty, Maja Schmidt Pedersen, Laura Milena Forero-Junco, Alexander Byth Carstens, Jos M Raaijmakers, Leise Riber, Lars Hestbjerg Hansen
{"title":"Novel bacteriophages targeting wheat phyllosphere bacteria carry DNA modifications and single-strand breaks.","authors":"Peter Erdmann Dougherty, Maja Schmidt Pedersen, Laura Milena Forero-Junco, Alexander Byth Carstens, Jos M Raaijmakers, Leise Riber, Lars Hestbjerg Hansen","doi":"10.1016/j.virusres.2024.199524","DOIUrl":"10.1016/j.virusres.2024.199524","url":null,"abstract":"<p><p>The phyllosphere microbiome can positively or negatively impact plant health and growth, but we currently lack the tools to control microbiome composition. Contributing to a growing collection of bacteriophages (phages) targeting bacteria living in the wheat phyllosphere, we here isolate and sequence eight novel phages targeting common phyllosphere Erwinia and Pseudomonas strains, including two jumbo phages. We characterize genomic, phylogenetic, and morphological traits from these phages and argue for establishing four novel viral genera. We also search the genomes for anti-defense systems and investigate DNA modifications using Nanopore sequencing. In Pseudomonas phage Rembedalsseter we find evidence of 13 motif-associated single-stranded DNA breaks. A bioinformatics search revealed that 60 related Pseudomonas phages are enriched in the same motif, suggesting these single-stranded nicks may be widely distributed in this family of phages. Finally, we also search the Sequence Read Archive for similar phages in public metagenomes. We find close hits to the Erwinia jumbo-phage Kaldavass in a wide variety of plant, food, and wastewater metagenomes including a near-perfect hit from a Spanish spinach sample, illustrating how interconnected geographically distant phages can be.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199524"},"PeriodicalIF":2.5,"publicationDate":"2025-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142915651","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
Infectivity in full-term placenta of Zika viruses with different lipid profiles. 不同脂质谱的寨卡病毒在足月胎盘中的传染性。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-06 DOI: 10.1016/j.virusres.2024.199518
Eva Mazzetto, Alessio Bortolami, Davide Bovo, Matteo Stocchero, Elisa Mazzacan, Alessandra Napolitan, Valentina Panzarin, Maria Rosa Tran, Gianpiero Zamperin, Adelaide Milani, Andrea Fortin, Michela Bigolaro, Paola Pirillo, Matteo Pagliari, Claudia Zanardello, Giuseppe Giordano, Maria Teresa Gervasi, Eugenio Baraldi, Calogero Terregino, Carlo Giaquinto, Francesco Bonfante
{"title":"Infectivity in full-term placenta of Zika viruses with different lipid profiles.","authors":"Eva Mazzetto, Alessio Bortolami, Davide Bovo, Matteo Stocchero, Elisa Mazzacan, Alessandra Napolitan, Valentina Panzarin, Maria Rosa Tran, Gianpiero Zamperin, Adelaide Milani, Andrea Fortin, Michela Bigolaro, Paola Pirillo, Matteo Pagliari, Claudia Zanardello, Giuseppe Giordano, Maria Teresa Gervasi, Eugenio Baraldi, Calogero Terregino, Carlo Giaquinto, Francesco Bonfante","doi":"10.1016/j.virusres.2024.199518","DOIUrl":"10.1016/j.virusres.2024.199518","url":null,"abstract":"<p><p>Among flaviviruses, Zika virus (ZIKV) is the only arbovirus officially recognized as a teratogenic agent, as a consequence of its ability to infect and cross the placental barrier causing congenital malformation in the fetus. While many studies have focused on understanding ZIKV pathogenesis during pregnancy, the viral mechanisms affecting fetal development remain largely unclear. In this study, we investigated ZIKV virulence in placental trophoblasts, using viruses with distinct lipid profiles. Firstly, we propagated a ZIKV strain belonging to the Asian lineage in either mammalian or mosquito cells, obtaining two viral stocks, which were purified and analyzed to determine their genetic and lipid composition. Successively, we assessed the infectivity of the two stocks in placental cells using both immortalized cell lines and explants. We found that the two viral stocks displayed identical consensus sequences with homogeneous quasispecies composition. However, the lipid composition of their envelope significantly varied depending on the cell of origin, with the mammalian-derived viral stock characterized by a higher content of phosphatidylcholines compared to the virions originating from mosquito cells. Notably, ZIKV stock derived from mammalian cells showed a higher infectivity in immortalized villous trophoblasts and full-term placental explants of human origin. This increased infectivity was linked to enhanced fusion efficiency during the viral uncoating phase in trophoblast cells, as demonstrated using a lipophilic probe. Collectively, our data suggest a potential role of viral lipids as determinants of ZIKV infectivity in full-term placenta, underscoring the importance of lipidomic research in virology.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199518"},"PeriodicalIF":2.5,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11761821/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142903617","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Development of a water-dispersible antimicrobial lipid mixture to inhibit African swine fever virus and other enveloped viruses. 水分散抗微生物脂质混合物抑制非洲猪瘟病毒和其他包膜病毒的研制。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-01 Epub Date: 2024-12-25 DOI: 10.1016/j.virusres.2024.199516
Joshua A Jackman, Roza Izmailyan, Rafayela Grigoryan, Tun Naw Sut, Abel Taye, Hovakim Zakaryan, Charles C Elrod
{"title":"Development of a water-dispersible antimicrobial lipid mixture to inhibit African swine fever virus and other enveloped viruses.","authors":"Joshua A Jackman, Roza Izmailyan, Rafayela Grigoryan, Tun Naw Sut, Abel Taye, Hovakim Zakaryan, Charles C Elrod","doi":"10.1016/j.virusres.2024.199516","DOIUrl":"10.1016/j.virusres.2024.199516","url":null,"abstract":"<p><p>Medium-chain antimicrobial lipids are promising antiviral agents to inhibit membrane-enveloped viruses such as African swine fever virus (ASFV) and influenza A virus (IAV) in livestock applications. However, current uses are limited to feed pathogen mitigation due to low aqueous solubility and the development of water-dispersible lipid formulations is needed for broader application usage. In this study, we report a water-dispersible antimicrobial lipid mixture of monoglycerides and lactylates that can inhibit ASFV and IAV and exhibits antiviral properties in drinking water and feed matrices. The lipid mixture reduced the viral infectivity of membrane-enveloped ASFV and IAV in aqueous solution in a dose-dependent manner but was inactive against non-enveloped encephalomyocarditis virus (EMCV). Additional ASFV experiments supported that the lipid mixture is virucidal, which was corroborated by polymerase chain reaction (PCR) experiments. Feed mitigation experiments demonstrated that the lipid mixture can also inhibit ASFV infectivity and affected the conformational properties of ASFV p72 structural protein in virus-spiked feed. Mechanistic experiments identified that the lipid mixture rapidly disrupted phospholipid membranes in a micelle-dependent manner, which aligns with the virological data while higher concentrations were needed for virucidal activity than for the onset of membrane disruption. These findings support that water-dispersible antimicrobial lipid mixtures can effectively inhibit ASFV and IAV and have practical advantages for drinking water applications compared to existing medium-chain antimicrobial lipid mitigant options that are formulated as dry powders or oils for in-feed applications.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199516"},"PeriodicalIF":2.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11731633/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142865654","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Achieving chronic hepatitis B functional cure: Factors and potential mechanisms. 实现慢性乙型肝炎功能性治愈:因素和潜在机制。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-01 Epub Date: 2024-12-13 DOI: 10.1016/j.virusres.2024.199507
Jiarui Zheng, Zilong Wang, Linxiang Huang, Zixuan Qiu, Yandi Xie, Suzhen Jiang, Bo Feng
{"title":"Achieving chronic hepatitis B functional cure: Factors and potential mechanisms.","authors":"Jiarui Zheng, Zilong Wang, Linxiang Huang, Zixuan Qiu, Yandi Xie, Suzhen Jiang, Bo Feng","doi":"10.1016/j.virusres.2024.199507","DOIUrl":"10.1016/j.virusres.2024.199507","url":null,"abstract":"<p><p>Chronic hepatitis B (CHB) is a significant global health issue affecting approximately 254 million individuals worldwide. Achieving the loss of hepatitis B surface antigen (HBsAg), either with or without seroconversion to hepatitis B surface antibody (HBsAb), is regarded as a functional cure and the optimal goal for addressing CHB, and can be achieved through various approaches, including induction with nucleos(t)ide analogues (NAs), induction with pegylated interferon alpha (PegIFNα), and spontaneous clearance of HBsAg. Spontaneous clearance of HBsAg is rare, while NAs can directly inhibit HBV DNA, they are unable to act on covalently closed circular DNA (cccDNA), hence inhibiting HBsAg production or clearing HBsAg is extremely challenging. On the other hand, functional cure based on PegIFNα shows good long-term durability, but over 10 % of patients still experience relapse, mostly within 48 weeks after functional cure. Factors related to CHB functional cure with antiviral therapy are complex, including host factors, viral factors, environmental factors, etc. The integration of HBV DNA into liver cells, persistence of HBV cccDNA, insufficient B cell responses and compromised T cell function pose significant barriers to HBV clearance. Therefore, this study systematically reviewed the relevant factors and potential mechanisms influencing functional cure CHB, which can provide a basis for personalized treatment, help predict treatment outcomes and assess prognosis, and provide theoretical support for the advancement of novel treatment strategies and medications.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199507"},"PeriodicalIF":2.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11699463/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142814291","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Whole-genome sequencing surveillance of Siberian tick-borne encephalitis virus (TBEV) identifies an additional lineage in Kyrgyzstan. 对西伯利亚蜱传脑炎病毒(TBEV)的全基因组测序监测在吉尔吉斯斯坦发现了一个额外的谱系。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-01 Epub Date: 2024-12-22 DOI: 10.1016/j.virusres.2024.199517
Jake D'Addiego, Mollie Curran-French, Jack Smith, Asankadyr T Junushov, Irena Breininger, Barry Atkinson, John Hay, Roger Hewson
{"title":"Whole-genome sequencing surveillance of Siberian tick-borne encephalitis virus (TBEV) identifies an additional lineage in Kyrgyzstan.","authors":"Jake D'Addiego, Mollie Curran-French, Jack Smith, Asankadyr T Junushov, Irena Breininger, Barry Atkinson, John Hay, Roger Hewson","doi":"10.1016/j.virusres.2024.199517","DOIUrl":"10.1016/j.virusres.2024.199517","url":null,"abstract":"<p><p>Tick-borne encephalitis virus (TBEV) is the most prevalent tick-borne viral disease in Europe and Asia. There are three main subtypes of the virus: European, Siberian, and Far Eastern, each of which having distinctive ecology, clinical presentation, and geographic distribution. In recent years, other TBEV subtypes have been described, namely the Himalayan and Baikalian subtypes. Differences in virulence between TBEV subtypes have been described, with the Far Eastern subtype causing the most severe disease in humans. Considering the emergence of new TBEV foci, the genetic characterisation of the virus in endemic regions is crucial to not only better understand its epidemiology, but also to identify possible genetic determinants of virulence, as well as develop accurate diagnostics and therapeutics. In our previous study, we identified TBEV in six localities of the Kyrgyz Republic (Kyrgyzstan), and Ala-Archa National Nature Park as a focus of TBEV transmission. Whilst we were able to retrieve the first partial TBEV sequence from Kyrgyzstan from Ixodes persulcatus ticks, we were unable to retrieve a complete genome sequence at that time. In this study, we have utilised a sequence-independent single-primer amplification (SISPA) protocol and retrieved the complete genome sequence of our previous 2009 TBEV tick sample (strain KY09) producing the third complete TBEV genome from Kyrgyzstan, and the first genome from the region clustering within the Vasilchenko lineage, suggesting a wider distribution for the lineage than was previously thought. We have also developed a tiling amplicon scheme for Siberian TBEV (TBEV-Sib) which produced > 90 % reference coverage at 100x sequencing depths for samples with as little as 1.13×10<sup>4</sup> RNA copies/ml. Since high viral loads are rare in TBEV clinical samples, the developed protocol adds value to TBEV-Sib endemic regions by offering a novel set of primers to further amplify the viral genome prior to sequencing.</p>","PeriodicalId":23483,"journal":{"name":"Virus research","volume":" ","pages":"199517"},"PeriodicalIF":2.5,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142872970","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
Higher frequency of interstate over international transmission chains of SARS-CoV-2 virus at the Rio Grande do Sul - Brazil state borders. 在巴西南部大德州边境,州际间SARS-CoV-2病毒的国际传播链频率更高。
IF 2.5 4区 医学
Virus research Pub Date : 2025-01-01 Epub Date: 2024-12-17 DOI: 10.1016/j.virusres.2024.199500
Filipe Zimmer Dezordi, José Valter Joaquim Silva Júnior, Terimar Facin Ruoso, Angela Giovana Batista, Pedro Mesquita Fonseca, Larissa Paim Bernardo, Richard Steiner Salvato, Tatiana Schäffer Gregianini, Thaísa Regina Rocha Lopes, Eduardo Furtado Flores, Rudi Weiblen, Patrícia Chaves Brites, Mônica de Medeiros Silva, João Batista Teixeira da Rocha, Gustavo de Lima Barbosa, Lais Ceschini Machado, Alexandre Freitas da Silva, Marcelo Henrique Santos Paiva, Matheus Filgueira Bezerra, Tulio de Lima Campos, Tiago Gräf, Daniel Angelo Sganzerla Graichen, Elgion Lucio da Silva Loreto, Gabriel da Luz Wallau
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