Yan, Shuling

[["dc.bibliographiccitation.firstpage","50"],["dc.bibliographiccitation.journal","Marine Genomics"],["dc.bibliographiccitation.lastpage","53"],["dc.bibliographiccitation.volume","41"],["dc.contributor.author","Wang, Hongming"],["dc.contributor.author","Wu, Shuang"],["dc.contributor.author","Li, Kai"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Yongjie"],["dc.date.accessioned","2020-12-10T15:20:19Z"],["dc.date.available","2020-12-10T15:20:19Z"],["dc.date.issued","2018"],["dc.identifier.doi","10.1016/j.margen.2018.03.006"],["dc.identifier.issn","1874-7787"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/72621"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Metagenomic analysis of ssDNA viruses in surface seawater of Yangshan Deep-Water Harbor, Shanghai, China"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","4225"],["dc.bibliographiccitation.issue","8"],["dc.bibliographiccitation.journal","Journal of Virology"],["dc.bibliographiccitation.lastpage","4236"],["dc.bibliographiccitation.volume","87"],["dc.contributor.author","Zhou, J."],["dc.contributor.author","Zhang, W."],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Xiao, Jinzhou"],["dc.contributor.author","Zhang, Y."],["dc.contributor.author","Li, Bailin"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Wang, Y."],["dc.date.accessioned","2018-11-07T09:26:44Z"],["dc.date.available","2018-11-07T09:26:44Z"],["dc.date.issued","2013"],["dc.description.abstract","Virophages, e.g., Sputnik, Mavirus, and Organic Lake virophage (OLV), are unusual parasites of giant double-stranded DNA (dsDNA) viruses, yet little is known about their diversity. Here, we describe the global distribution, abundance, and genetic diversity of virophages based on analyzing and mapping comprehensive metagenomic databases. The results reveal a distinct abundance and worldwide distribution of virophages, involving almost all geographical zones and a variety of unique environments. These environments ranged from deep ocean to inland, iced to hydrothermal lakes, and human gut-to animal-associated habitats. Four complete virophage genomic sequences (Yellowstone Lake virophages [YSLVs]) were obtained, as was one nearly complete sequence (Ace Lake Mavirus [ALM]). The genomes obtained were 27,849 bp long with 26 predicted open reading frames (ORFs) (YSLV1), 23,184 bp with 21 ORFs (YSLV2), 27,050 bp with 23 ORFs (YSLV3), 28,306 bp with 34 ORFs (YSLV4), and 17,767 bp with 22 ORFs (ALM). The homologous counterparts of five genes, including putative FtsK-HerA family DNA packaging ATPase and genes encoding DNA helicase/primase, cysteine protease, major capsid protein (MCP), and minor capsid protein (mCP), were present in all virophages studied thus far. They also shared a conserved gene cluster comprising the two core genes of MCP and mCP. Comparative genomic and phylogenetic analyses showed that YSLVs, having a closer relationship to each other than to the other virophages, were more closely related to OLV than to Sputnik but distantly related to Mavirus and ALM. These findings indicate that virophages appear to be widespread and genetically diverse, with at least 3 major lineages."],["dc.identifier.doi","10.1128/JVI.03398-12"],["dc.identifier.isi","000316671000009"],["dc.identifier.pmid","23408616"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/30367"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Soc Microbiology"],["dc.relation.issn","0022-538X"],["dc.title","Diversity of Virophages in Metagenomic Data Sets"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","987"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","Archives of Virology"],["dc.bibliographiccitation.lastpage","994"],["dc.bibliographiccitation.volume","160"],["dc.contributor.author","Xia, Xiaoming"],["dc.contributor.author","Yu, Yongxin"],["dc.contributor.author","Hu, Linghao"],["dc.contributor.author","Weidmann, Manfred"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Y."],["dc.date.accessioned","2018-11-07T09:59:14Z"],["dc.date.available","2018-11-07T09:59:14Z"],["dc.date.issued","2015"],["dc.description.abstract","Infectious hypodermal and hematopoietic necrosis virus (IHHNV) causes mortality or runt deformity syndrome in penaeid shrimps and is responsible for significant economic losses in the shrimp aquaculture industry. Here, we describe a novel real-time isothermal recombinase polymerase amplification (RPA) assay developed for IHHNV detection. Using IHHNV plasmid standards and DNA samples from a variety of organisms, we evaluated the ability of the IHHNV-RPA assay to detect IHHNV based on analysis of its sensitivity, specificity, rapidity, and reproducibility. Probit analysis of eight independent experimental replicates indicated satisfactory performance of the RPA assay, which is sufficiently sensitive to detect as few as 4 copies of the IHHNV genome within 7 min at 39 degrees C with 95 % reliability. Therefore, this rapid RPA method has great potential for applications, either in field use or as a point of care diagnostic technique."],["dc.identifier.doi","10.1007/s00705-015-2357-7"],["dc.identifier.isi","000351514100011"],["dc.identifier.pmid","25655264"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/37548"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Springer"],["dc.publisher.place","Wien"],["dc.relation.issn","1432-8798"],["dc.relation.issn","0304-8608"],["dc.title","Rapid detection of infectious hypodermal and hematopoietic necrosis virus (IHHNV) by real-time, isothermal recombinase polymerase amplification assay"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","3189"],["dc.bibliographiccitation.issue","11"],["dc.bibliographiccitation.journal","Archives of Virology"],["dc.bibliographiccitation.lastpage","3201"],["dc.bibliographiccitation.volume","161"],["dc.contributor.author","Chai, Chao"],["dc.contributor.author","Liu, Yuchen"],["dc.contributor.author","Xia, Xiaoming"],["dc.contributor.author","Wang, H."],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Y."],["dc.date.accessioned","2018-11-07T10:06:43Z"],["dc.date.available","2018-11-07T10:06:43Z"],["dc.date.issued","2016"],["dc.description.abstract","Infectious hypodermal and hematopoietic necrosis virus (IHHNV) is prevalent among farmed shrimp and results in significant reductions in shrimp production. In order to gain a better understanding of the prevalence of IHHNV in the Litopenaeus vannamei shrimp population of Shanghai, China, samples were collected during two cultivation seasons and subjected to diagnostic PCR. The results of this study showered that 167 out of 200 shrimp were positive for IHHNV, indicating a high viral pvalence (83.5 %) in farmed shrimp populations. Our results also indicated that there was a moderate correlation between IHHNV prevalence and water temperature, salinity and pH and only a slight correlation with the concentration of dissolved oxygen (DO). A mathematical model was developed in order to predict the relationship between these four characteristics of water quality and IHHNV prevalence, ultimately resulting in an estimate of the best water quality criteria (IHHNV prevalence = 0) where T = 30 A degrees C pH = 8.0, DO = 18.3 mg/L, and salinity = 1.5 aEuro degrees. Additionally, two IHHNV genotypes were identified, the sequencing of which revealed a high similarity to the known IHHNV genotypes based on a comparison of their nucleotide and amino acid sequences. Two types of repetitive sequences were detected at both the 5' and 3' ends of the non-coding regions, which are commonly found in other IHHNV genomic sequences. Phylogenetic analysis indicated that the IHHNV Shanghai genotypes were closely related to strains from Ganyu and Sheyang, but not to strains originating from Fujian, China. This finding suggests that IHHNVs have emerged independently several times in China."],["dc.identifier.doi","10.1007/s00705-016-3022-5"],["dc.identifier.isi","000385252100021"],["dc.identifier.pmid","27568013"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/39145"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Springer"],["dc.publisher.place","Wien"],["dc.relation.issn","1432-8798"],["dc.relation.issn","0304-8608"],["dc.title","Prevalence and genomic analysis of infectious hypodermal and hematopoietic necrosis virus (IHHNV) in Litopenaeus vannamei shrimp farmed in Shanghai, China"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2053"],["dc.bibliographiccitation.issue","7"],["dc.bibliographiccitation.journal","Archives of Virology"],["dc.bibliographiccitation.lastpage","2059"],["dc.bibliographiccitation.volume","162"],["dc.contributor.author","Cai, Hui"],["dc.contributor.author","Yu, Yongxin"],["dc.contributor.author","Jin, Miao"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Y."],["dc.date.accessioned","2018-11-07T10:22:13Z"],["dc.date.available","2018-11-07T10:22:13Z"],["dc.date.issued","2017"],["dc.description.abstract","The genome sequence of a rare recombinant norovirus (NoV) genotype obtained from clinical samples in China was determined using one-step reverse transcription PCR. It was identified as the GII.P7/GII.6 genotype using both phylogenetic and SimPlot analyses. A high degree of variability was observed in the P2 subdomain, especially in the B-loop structure. The recombination breakpoints of all available GII.P7/GII.6 strains were mapped to two different positions within the RdRp region, both of which were at least 40 nt upstream of the overlap of ORF1 and 2. The GII.P7/GII.6 genotype appears to have been circulating in Asia for at least 10 years."],["dc.identifier.doi","10.1007/s00705-017-3325-1"],["dc.identifier.isi","000403454900025"],["dc.identifier.pmid","28299482"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/42236"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","PUB_WoS_Import"],["dc.publisher","Springer"],["dc.publisher.place","Wien"],["dc.relation.issn","1432-8798"],["dc.relation.issn","0304-8608"],["dc.title","Cloning, sequencing and characterization of the genome of a recombinant norovirus of the rare genotype GII.P7/GII.6 in China"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","7615"],["dc.bibliographiccitation.issue","21"],["dc.bibliographiccitation.journal","Applied and Environmental Microbiology"],["dc.bibliographiccitation.lastpage","7624"],["dc.bibliographiccitation.volume","81"],["dc.contributor.author","Yu, Yongxin"],["dc.contributor.author","Cai, Hui"],["dc.contributor.author","Hu, Linghao"],["dc.contributor.author","Lei, Rongwei"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Y."],["dc.date.accessioned","2018-11-07T09:49:44Z"],["dc.date.available","2018-11-07T09:49:44Z"],["dc.date.issued","2015"],["dc.description.abstract","Noroviruses (NoVs) are a leading cause of epidemic and sporadic cases of acute gastroenteritis worldwide. Oysters are well recognized as the main vectors of environmentally transmitted NoVs, and disease outbreaks linked to oyster consumption have been commonly observed. Here, to quantify the genetic diversity, temporal distribution, and circulation of oyster-related NoVs on a global scale, 1,077 oyster-related NoV sequences deposited from 1983 to 2014 were downloaded from both NCBI GenBank and the NoroNet outbreak database and were then screened for quality control. A total of 665 sequences with reliable information were obtained and were subsequently subjected to genotyping and phylogenetic analyses. The results indicated that the majority of oyster-related NoV sequences were obtained from coastal countries and regions and that the numbers of sequences in these regions were unevenly distributed. Moreover, >80% of human NoV genotypes were detected in oyster samples or oyster-related outbreaks. A higher proportion of genogroup I (GI) (34%) was observed for oyster-related sequences than for nonoyster-related outbreaks, where GII strains dominated with an overwhelming majority of >90%, indicating that the prevalences of GI and GII are different in humans and oysters. In addition, a related convergence of the circulation trend was found between oyster-related NoV sequences and human pandemic outbreaks. This suggests that oysters not only act as a vector of NoV through environmental transmission but also serve as an important reservoir of human NoVs. These results highlight the importance of oysters in the persistence and transmission of human NoVs in the environment and have important implications for the surveillance of human NoVs in oyster samples."],["dc.identifier.doi","10.1128/AEM.01729-15"],["dc.identifier.isi","000363462900028"],["dc.identifier.pmid","26319869"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/35561"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Soc Microbiology"],["dc.relation.issn","1098-5336"],["dc.relation.issn","0099-2240"],["dc.title","Molecular Epidemiology of Oyster-Related Human Noroviruses and Their Global Genetic Diversity and Temporal-Geographical Distribution from 1983 to 2014"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","40"],["dc.bibliographiccitation.journal","Molecular and Cellular Probes"],["dc.bibliographiccitation.lastpage","43"],["dc.bibliographiccitation.volume","40"],["dc.contributor.author","Guo, Ping"],["dc.contributor.author","Yu, Yongxin"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Yongjie"],["dc.date.accessioned","2020-12-10T15:20:20Z"],["dc.date.available","2020-12-10T15:20:20Z"],["dc.date.issued","2018"],["dc.identifier.doi","10.1016/j.mcp.2018.06.002"],["dc.identifier.issn","0890-8508"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/72631"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Design and evaluation of nested PCR primers for specific detection of genogroup I noroviruses in oysters"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","156"],["dc.bibliographiccitation.journal","Journal of Invertebrate Pathology"],["dc.bibliographiccitation.lastpage","164"],["dc.bibliographiccitation.volume","153"],["dc.contributor.author","Liu, Liyuan"],["dc.contributor.author","Xiao, Jinzhou"],["dc.contributor.author","Zhang, Mengmeng"],["dc.contributor.author","Zhu, Wanyu"],["dc.contributor.author","Xia, Xiaoming"],["dc.contributor.author","Dai, Xilin"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Yongjie"],["dc.date.accessioned","2020-12-10T14:25:12Z"],["dc.date.available","2020-12-10T14:25:12Z"],["dc.date.issued","2018"],["dc.identifier.doi","10.1016/j.jip.2018.02.005"],["dc.identifier.issn","0022-2011"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/72477"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","A Vibrio owensii strain as the causative agent of AHPND in cultured shrimp, Litopenaeus vannamei"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","4"],["dc.bibliographiccitation.journal","Molecular and Cellular Probes"],["dc.bibliographiccitation.lastpage","7"],["dc.bibliographiccitation.volume","33"],["dc.contributor.author","Liu, Liyuan"],["dc.contributor.author","Jiang, Luzhi"],["dc.contributor.author","Yu, Yongxin"],["dc.contributor.author","Xia, Xiaoming"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Yongjie"],["dc.date.accessioned","2020-12-10T15:20:20Z"],["dc.date.available","2020-12-10T15:20:20Z"],["dc.date.issued","2017"],["dc.identifier.doi","10.1016/j.mcp.2017.02.001"],["dc.identifier.issn","0890-8508"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/72630"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Rapid diagnosis of Vibrio owensii responsible for shrimp acute hepatopancreatic necrosis disease with isothermal recombinase polymerase amplification assay"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.issue","6"],["dc.bibliographiccitation.journal","Genome Announcements"],["dc.bibliographiccitation.volume","3"],["dc.contributor.author","Liu, Liyuan"],["dc.contributor.author","Xiao, Jinzhou"],["dc.contributor.author","Xia, Xiaoming"],["dc.contributor.author","Pan, Yingjie"],["dc.contributor.author","Yan, Shuling"],["dc.contributor.author","Wang, Yongjie"],["dc.date.accessioned","2021-06-01T10:47:34Z"],["dc.date.available","2021-06-01T10:47:34Z"],["dc.date.issued","2015"],["dc.description.abstract","We sequenced Vibrio owensii strain SH-14, which causes serious acute hepatopancreatic necrosis disease (AHPND) in shrimp. Sequence analysis showed a large extrachromosomal plasmid, which encoded pir toxin genes and shared highly sequence similarity with the one observed in AHPND-causing Vibrio parahaemolyticus strains. The results suggest that this plasmid appears to play an important role in shrimp AHPND."],["dc.identifier.doi","10.1128/genomeA.01395-15"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/85647"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-425"],["dc.relation.eissn","2169-8287"],["dc.title","Draft Genome Sequence of Vibrio owensii Strain SH-14, Which Causes Shrimp Acute Hepatopancreatic Necrosis Disease"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]