Archives of Virology最新文献

{"title":"Development of genogroup-specific ELISAs based on the VP1 protein to detect antibodies to GIV and GVI feline norovirus","authors":"Tomomi Takano,&nbsp;Hideyuki Tsuhama,&nbsp;Yuka Matsumoto,&nbsp;Tomoyoshi Doki,&nbsp;Hajime Kusuhara","doi":"10.1007/s00705-024-06137-w","DOIUrl":"10.1007/s00705-024-06137-w","url":null,"abstract":"<div><p>Feline norovirus (FNoV) is a potential pathogen of feline gastroenteritis and has two genogroups (GIV and GVI). Few epidemiological studies have been conducted on FNoV. We designed two enzyme-linked immunosorbent assays (ELISAs) to identify genogroup-specific FNoV antibodies for serological surveillance. Analysis of sera from cats experimentally infected with FNoV GIV or GVI and from specific-pathogen-free (SPF) cats confirmed that the two recombinant proteins used in the assay react in a genogroup-specific manner. Of the 183 samples tested, 6.6% were positive for GIV and 26.2% were positive for GVI. Antibodies to both FNoV genogroups were detected in sera collected in 2005, seven years before FNoV was first reported.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142255673","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":"Correction to: A taxonomic proposal for cedratviruses, orpheovirus, and pithoviruses","authors":"Victória F. Queiroz,&nbsp;Rodrigo A. L. Rodrigues,&nbsp;Jônatas Santos Abrahão","doi":"10.1007/s00705-024-06127-y","DOIUrl":"10.1007/s00705-024-06127-y","url":null,"abstract":"","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142279869","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A novel ormycovirus isolated from the plant-pathogenic fungus Fusarium graminearum","authors":"Haoxin Xie,&nbsp;Tianbo Liu,&nbsp;Jun Guo,&nbsp;Tianye Zhang,&nbsp;Haichao Hu,&nbsp;Jingliang Yin,&nbsp;Yingjie Zhao,&nbsp;Gecheng Xu,&nbsp;Jinnan Wang,&nbsp;Jianping Chen,&nbsp;Jian Yang","doi":"10.1007/s00705-024-06131-2","DOIUrl":"10.1007/s00705-024-06131-2","url":null,"abstract":"<div><p>In this study, we identified a novel mycovirus, <i>Fusarium graminearum</i> ormycovirus 1 (FgOV1), from the pathogenic fungus <i>Fusarium graminearum</i>. The virus has two RNA segments, RNA1 and RNA2, with lengths of 2,591 and 1,801 nucleotides, respectively, excluding the polyA tail. Each segment contains a single open reading frame (ORF). The ORF in RNA1 encodes an RNA-dependent RNA polymerase, while the ORF in RNA2 encodes a hypothetical protein. Phylogenetic analysis showed that FgOV1 belongs to the <i>gammaormycovirus</i> clade, whose members are related to betaormycoviruses. To our knowledge, this is the first report of an ormycovirus in <i>Fusarium graminearum.</i></p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142255671","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":"Isolation and genetic characterization of novel bovine parechoviruses from Japanese black cattle","authors":"Mami Oba,&nbsp;Mayo Shimotori,&nbsp;Natsuko Teshima,&nbsp;Lisa Yamaguchi,&nbsp;Hitoshi Takemae,&nbsp;Shoichi Sakaguchi,&nbsp;Hiroho Ishida,&nbsp;Hironobu Murakami,&nbsp;Tetsuya Mizutani,&nbsp;Makoto Nagai","doi":"10.1007/s00705-024-06120-5","DOIUrl":"10.1007/s00705-024-06120-5","url":null,"abstract":"<div><p>Novel bovine parechoviruses (Bo ParVs) were isolated from the feces of Japanese black cattle. Phylogenetic analysis revealed that the novel Bo ParVs formed an independent cluster, exhibiting 72.2–75.6% nucleotide sequence identity to previous Bo ParVs, suggesting that they represent a new genotype. Bo ParVs, including the novel Bo ParVs, shared sequence similarity with each other in the 3' untranslated region (3'UTR) and exhibited low sequence similarity (&lt;38.9% identity) to other parechoviruses. However, a secondary structure prediction of the 3'UTR revealed that the Bo ParVs shared conserved motifs in domain 2 with parechovirus B and E, suggesting some evolutionary constrains in this region.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s00705-024-06120-5.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142255674","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}

{"title":"Completion of the genome sequence of Oidiodendron maius splipalmivirus 1","authors":"Stefania Daghino,&nbsp;Marco Forgia,&nbsp;Massimo Turina","doi":"10.1007/s00705-024-06126-z","DOIUrl":"10.1007/s00705-024-06126-z","url":null,"abstract":"<div><p>Mycoviruses with an unprecedented genome organization, featuring the RNA-directed RNA polymerase (RdRp) palm domain coding sequence being split into two distinct genome segments, have been found recently in a few fungi and oomycetes of different lineages and have been proposed to be named “splipalmiviruses”. One of these, Oidiodendron maius splipalmivirus 1 (OmSPV1), has been detected in the ericoid mycorrhizal fungus <i>Oidiodendron maius</i>, and it has been proposed to be bisegmented. Here, we complete the genome sequence of this virus by describing a third RNA segment, which is 2000 nt long and whose terminal sequences are identical to those of the other two segments of OmSPV1. This segment contains a single open reading frame that codes for a protein with unknown function and has a low level of sequence identity (47%) to the putative protein encoded by the third segment of another splipalmivirus from <i>Magnaporthe oryzae</i>: Magnaporthe oryzae narnavirus virus 1 (MoNV1). Based on these features, we propose the RNA segment to be the third segment of the OmSPV1 genome.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s00705-024-06126-z.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142255675","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}

{"title":"Complete genome sequence of an umbravirus from white snakeroot (Ageratina altissima)","authors":"Nina Aboughanem-Sabanadzovic,&nbsp;Sead Sabanadzovic","doi":"10.1007/s00705-024-06125-0","DOIUrl":"10.1007/s00705-024-06125-0","url":null,"abstract":"<div><p>Complete genome sequencing of a virus from a white snakeroot plant (<i>Ageratina altissima</i> (L.) King &amp; H. Rob<i>.</i>) collected in the Great Smoky Mountains National Park, USA, revealed a quadricistronic organization resembling that of umbraviruses. ORFs 1 and 2 are putatively translated via a −1 ribosomal frameshift mechanism as a single polypeptide with a role in viral replication, whereas the 3′-proximal and extensively overlapping ORFs 3 and 4 code for proteins involved in long distance trafficing and cell-to-cell movement within the host. Sequence comparisons and phylogenetic analysis strongly suggested that this virus is a previously undescribed member of the genus <i>Umbravirus</i> (family <i>Tombusviridae</i>), for which the name “white snakeroot virus A” (WSVA) is proposed. In addition, we identified and initiated characterization of its possible helper virus, a putative new member of the genus <i>Luteovirus</i>.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142211696","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A decade-long retrospective study of hepatitis C virus genetic diversity in Cameroon, 2013–2023: presence of a high proportion of unsubtypable and putative recombinant HCV strains","authors":"Aristide Mounchili Njifon,&nbsp;Abdou Fatawou Modiyinji,&nbsp;Chavely Gwladys Monamele,&nbsp;Pretty Rose Mbouyap,&nbsp;Laure Ngono,&nbsp;Paul Alain Tagnouokam-Ngoupo,&nbsp;Simon Frederic Lissock,&nbsp;Martin Ridole Zekeng,&nbsp;Jean Paul Assam Assam,&nbsp;Richard Njouom","doi":"10.1007/s00705-024-06124-1","DOIUrl":"10.1007/s00705-024-06124-1","url":null,"abstract":"<div><p>While treatment options for hepatitis C virus (HCV) infection have expanded considerably over the past decade thanks to the development of pan-genotypic therapies, genotype testing remains a prerequisite for treatment in sub-Saharan African countries, including Cameroon, where multiple HCV genotypes and subtypes exist. The main objective of this study was to describe the trend in the distribution of HCV genotypes and subtypes from 2013 to 2023 in the Cameroonian population. Viral loads were determined using the Abbott real-time assay, and genotyping/subtyping was based on nested and semi-nested reverse transcription polymerase chain reaction (RT-PCR) amplification of the regions encoding the core and non-structural protein 5B (NS5B) regions, respectively, followed by sequencing and phylogenetic analysis. A total of 512 patients with NS5B and core sequencing results were included in our study. Genotyping revealed a predominance of both genotype 4 (38.48%) and genotype 1 (37.11%), followed by genotype 2, detected in 22.46% of patients. Interestingly, 10 samples (1.95%) had discordant genotypes in both regions, suggesting the presence of putative recombinant forms of HCV. Twelve different subtypes were detected during the study period, with a predominance of subtypes 4f (18.95%) and 1e (16.02%). Furthermore, phylogenetic analysis failed to assign a subtype to a relatively high proportion of sequences (38.67%) for the two genomic regions, and their classification was limited to genotype assignment. The frequency distribution of HCV genotypes did not show any statistical difference according to year or sex. These results confirm the genetic diversity of HCV in Cameroon and the potential for the generation of recombinant strains.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142211697","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":"Biological and genomic characterization of the novel bacteriophage vB_VpM-pA2SJ1, which infects Vibrio parahaemolyticus associated with acute hepatopancreatic necrosis disease","authors":"Soojin Lim,&nbsp;Seon Young Park,&nbsp;Jun-Seob Kim,&nbsp;Hyemin Kwon,&nbsp;Sang Guen Kim,&nbsp;Se Chang Park,&nbsp;Jee Eun Han,&nbsp;Ji Hyung Kim","doi":"10.1007/s00705-024-06121-4","DOIUrl":"10.1007/s00705-024-06121-4","url":null,"abstract":"<div><p><i>Vibrio parahaemolyticus</i> is a major seafood-borne zoonotic pathogen that causes gastroenteritis in humans and acute hepatopancreatic necrosis disease (AHPND) in shrimp. In this study, we isolated and characterized <i>Vibrio</i> phage vB_VpM-pA2SJ1, which infects clinical and AHPND-associated strains of <i>V. parahaemolyticus</i>. The phage genome is a linear dsDNA 51,054 bp in length with a G + C content of 43.7%, and it contains 89 open reading frames. Genome comparisons revealed basal similarity to other <i>Vibrio</i> phages, particularly <i>Vibrio</i> phage vB_VpP_1, with 84.2% identity and 46% coverage. Phylogenetic analysis based on the whole genome, the terminase large subunit, and the major capsid protein revealed that phage vB_VpM-pA2SJ1 did not cluster with other known phage families, thus indicating its uniqueness.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142211757","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":"Discovery and genomic characterization of three double-stranded RNA viruses coinfecting Conidiobolus taihushanensis","authors":"Ying Yin,&nbsp;Ping Wang,&nbsp;Lili He,&nbsp;Guogen Yang,&nbsp;Bo Huang","doi":"10.1007/s00705-024-06129-w","DOIUrl":"10.1007/s00705-024-06129-w","url":null,"abstract":"<div><p><i>Conidiobolus</i> sensu lato, a genus within the family <i>Ancylistaceae</i>, encompasses a diverse range of fungal species that are widely distributed in plant debris and soil. In this study, we identified three double-stranded RNA (dsRNA) viruses coinfecting a strain of <i>Conidiobolus taihushanensis</i>. These viruses were identified as Conidiobolus taihushanensis totivirus 1 (CtTV1), Conidiobolus nonsegmented RNA virus 1–2 (CNRV1-2), and Conidiobolus taihushanensis virus 1 (CtV1). Through high-throughput sequencing and RNA-ligase-mediated rapid amplification of cDNA ends (RLM-RACE), we determined their complete genome sequences. The genome of CtTV1 is 6,921 nucleotides in length, containing two open reading frames (ORFs). ORF1 encodes a 1,124-amino-acid capsid protein (CP) with a molecular weight of 125.07 kDa, and ORF2 encodes a 780-amino-acid RNA-dependent RNA polymerase (RdRp) with a molecular weight of 88.05 kDa. CNRV1-2, approximately 3.0 kb in length, also contains two ORFs, which are predicted to encode a 186-amino-acid hypothetical protein (HP) and a 758-amino-acid RdRp. CtV1 has a smaller genome consisting of 3,081 base pairs (bp) with two ORFs: one encoding a 244-amino-acid HP (26.85 kDa) and the other encoding a 707-amino-acid RdRp (80.64 kDa). Phylogenetic analysis based on RdRp sequences revealed that CtTV1 shows the highest similarity to Phytophthora pluvialis RNA virus 1, with 38.79% sequence identity, and clusters with members of the family <i>Orthototiviridae</i>, and it is most closely related to Utsjoki toti-like virus. In contrast, CtV1 formed a unique branch and might represent a new genus. The genome sequence of CNRV1-2 is 99.74% identical to that of the previously described Conidiobolus non-segmented RNA virus 1 (CNRV1). Our findings indicate that CtTV1 and CtV1 are distinct novel viruses, while CNRV1-2 appears to be a variant of CNRV1. This study enhances our understanding of the genetic diversity and evolutionary relationships among mycoviruses associated with <i>C. taihushanensis</i>.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153068","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":"Complete genome sequence of grapevine yellow speckle viroid 3, a novel apscaviroid infecting grapevine, characterized by high-throughput sequencing","authors":"Malyaj R Prajapati,&nbsp;Pooja Thapa,&nbsp;Damini Diksha,&nbsp;Susheel Kumar Sharma,&nbsp;Nitika Gupta,&nbsp;Virendra Kumar Baranwal","doi":"10.1007/s00705-024-06128-x","DOIUrl":"10.1007/s00705-024-06128-x","url":null,"abstract":"<div><p>A novel grapevine viroid was discovered in an asymptomatic grapevine of Indian rootstocks. The whole genome sequence of the viroid (370 nt) was determined by high-throughput sequencing as well as RT-PCR followed by cloning and Sanger sequencing. The terminal conserved region (TCR), central conserved region (CCR) upper strand, and CCR lower strand are conserved regions found in the viroid that are unique to the members of the genus <i>Apscaviroid</i>. Based on our findings and the demarcation criteria for viroids, the novel viroid, which we have tentatively named \"grapevine yellow speckle viroid 3\" is a putative new member of the genus <i>Apscaviroid</i>.</p></div>","PeriodicalId":8359,"journal":{"name":"Archives of Virology","volume":"169 10","pages":""},"PeriodicalIF":2.5,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142153067","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}