A bioinformatics pipeline to search functional motifs within whole-proteome data: a case study of poxviruses.

abstract：:Korean field infectious bursal disease viruses (IBDVs) were isolated from IBDV suspected commercial chickens. A previous study revealed that these IBDV field isolates were virulent or very virulent IBDVs. The isolates were passaged three times in the chorioallantoic membrane of specific-pathogen-free embryonated chick...

journal_title：Virus genes

authors： Kwon HM,Kim SJ

更新日期：2004-04-01 00:00:00

abstract：:Nucleotide sequencing was performed on part of the medium and large genome segments of 17 Cache Valley virus (CVV) isolates from the Yucatan Peninsula of Mexico. Alignment of these sequences to all other sequences in the Genbank database revealed that they have greatest nucleotide identity (97-98 %) with the equivalen...

journal_title：Virus genes

authors： Blitvich BJ,Loroño-Pino MA,Garcia-Rejon JE,Farfan-Ale JA,Dorman KS

更新日期：2012-08-01 00:00:00

abstract：:We describe the isolation and characterization of an insect-specific flavivirus (ISF) from Ochlerotatus caspius (Pallas, 1771) mosquitoes collected in southern Portugal. The RNA genome of this virus, tentatively designated OCFVPT, for O. caspius flavivirus from Portugal, encodes a polyprotein showing all the features ...

journal_title：Virus genes

authors： Ferreira DD,Cook S,Lopes Â,de Matos AP,Esteves A,Abecasis A,de Almeida AP,Piedade J,Parreira R

更新日期：2013-12-01 00:00:00

abstract：:Bats are carriers of potentially zoonotic viruses, therefore it is crucial to identify viruses currently found in bats to better understand how they are maintained in bat populations and evaluate risks for transmission to other species. Adenoviruses have been previously detected in bats throughout the world, but sampl...

journal_title：Virus genes

authors： Lee DN,Angiel M

更新日期：2020-02-01 00:00:00

abstract：:In this study, the relative synonymous codon usage (RSCU) values, effective number of codon (ENC) values, nucleotide contents, and dinucleotide were used to investigate codon usage pattern of each protein-coding gene and genome among 31 Newcastle disease virus (NDV) isolates. The result shows that the overall extent o...

journal_title：Virus genes

authors： Wang M,Liu YS,Zhou JH,Chen HT,Ma LN,Ding YZ,Liu WQ,Gu YX,Zhang J

更新日期：2011-04-01 00:00:00

abstract：:Brazil is one of the largest silk producers in the world. The domesticated silkworm (Bombyx mori) was formally introduced into the country in the twentieth century, and the state of Paraná is the main national producer. During larval stages, B. mori can be afflicted by many different infectious diseases, which lead to...

journal_title：Virus genes

authors： Ardisson-Araújo DM,Melo FL,de Souza Andrade M,Brancalhão RM,Báo SN,Ribeiro BM

更新日期：2014-12-01 00:00:00

abstract：:Amino acid and phylogenetic analysis showed that PB1-F2 of H7N7 and H3N8 equine influenza virus (EIV) evolved into two and nine clades, respectively. The PB1-F2 gene of H7N7 EIV strains isolated after 1973 was identified as being replaced by that of H3N8 EIV circulating simultaneously. All H7N7 EIV strains before 1973...

journal_title：Virus genes

authors： Lu G,Guo W,Qi T,Ma J,Zhao S,Tian Z,Pan J,Zhu C,Wang X,Xiang W

更新日期：2013-10-01 00:00:00

abstract：:The red imported fire ant (Solenopsis invicta) escaped its natural enemies when it was introduced into North America in the 1930s from South America. US efforts have focused on discovery of natural enemies, like viruses, to provide sustainable control of the ant. Nine new virus genomes were sequenced from the invasive...

journal_title：Virus genes

authors： Valles SM,Rivers AR

更新日期：2019-06-01 00:00:00

abstract：:Cytotoxic T cells that recognize dengue fever viral (DFV) peptides were reported. To predict the cleavage pattern of DFV proteins by cytoplasmic proteasomes into nonapeptides with motifs fitting known HLA class I molecules, the computer program "Findpatterns" was used. In this study the combined amino acid motifs for ...

journal_title：Virus genes

authors： Becker Y

更新日期：1995-01-01 00:00:00

abstract：:We have examined sequence variability among nine isolates of hop stunt viroid (HSVd) collected from hop gardens in Tohoku district in Japan, the only area in the world where hop stunt disease is endemic. Six different consensus and one-consensus sequences as well as 12 sequence variants were detected in the nine HSVd-...

journal_title：Virus genes

authors： Sano T,Mimura R,Ohshima K

更新日期：2001-01-01 00:00:00

abstract：:Varicella-zoster virus (VZV) DNA was detectable by in-situ hybridization in blood mononuclear cells (MNCs) of patients with varicella or zoster for 2-56 days after the onset of a rash. VZV DNA was present in many MNCs from one acute varicella patient 2 days after the onset of the rash and was rarely found in MNCs duri...

journal_title：Virus genes

authors： Gilden DH,Devlin M,Wellish M,Mahalingham R,Huff C,Hayward A,Vafai A

更新日期：1989-08-01 00:00:00

abstract：:Enterovirus 96 (EV-96) is a recently described member of the species Enterovirus C and is associated with paralysis and myelitis. In this study, using metagenomic sequencing, we identified a new enterovirus 96 strain (EV-96-SZ/GD/CHN/2014) as the sole pathogen causing hand, foot, and mouth disease (HFMD). A genomic co...

journal_title：Virus genes

authors： Xu Y,Sun Y,Ma J,Zhou S,Fang W,Ye J,Tan L,Ji J,Luo D,Li L,Li J,Fang C,Pei N,Shi S,Liu X,Jiang H,Gong S,Xu X

更新日期：2017-06-01 00:00:00

abstract：:The complete genomic sequence of canine calicivirus (CaCV) isolated from feces of a dog with diarrhea was determined. The CaCV genome, a positive-sense single-stranded RNA, contained 8513 nucleotides excluding the poly(A) tail and was longer than that of any other calicivirus strain with a completely known sequence. T...

journal_title：Virus genes

authors： Matsuura Y,Tohya Y,Nakamura K,Shimojima M,Roerink F,Mochizuki M,Takase K,Akashi H,Sugimura T

更新日期：2002-01-01 00:00:00

abstract：:Two virus strains, tentatively designated as ON-6/P/05 and ON-7/E/05, were isolated from blood samples of healthy cattle in the Yaeyama Islands, located in the southwestern-most region of Japan, in 2005. Ultrastructural observations of infected baby hamster (BHK-21) cells revealed that the viruses had features consist...

journal_title：Virus genes

authors： Kato T,Aizawa M,Takayoshi K,Yanase T,Tanaka S,Shirafuji H,Yamakawa M

更新日期：2018-10-01 00:00:00

abstract：:The threat of highly virulent avian influenza, such as H5N1 and swine-origin H1N1 influenza viruses, bring out an urgent need to develop a universal influenza vaccine, which may provide cross-protection against different strain of influenza A viruses. The extra-domain of influenza M2 protein (M2e), which is almost com...

journal_title：Virus genes

authors： Ebrahimi SM,Tebianian M

更新日期：2011-02-01 00:00:00

abstract：:In this study, a novel duplex nanoparticle-assisted polymerase chain reaction (nanoPCR) assay was developed to detect porcine epidemic diarrhea virus (PEDV) and porcine transmissible gastroenteritis virus (TGEV). Two pairs of primers were designed based on the conserved region within the N gene of PEDV and TGEV. In a ...

journal_title：Virus genes

authors： Zhu Y,Liang L,Luo Y,Wang G,Wang C,Cui Y,Ai X,Cui S

更新日期：2017-02-01 00:00:00

abstract：:Vaccinia virus (VACV), a member of the Poxviridae family of large double-stranded DNA viruses, is being used as a smallpox vaccine as well as an expression vector for immunization against other infectious diseases and cancer. The host range of wild type VACV is very broad among mammalian cells. C7L is a host range gen...

journal_title：Virus genes

authors： Terajima M,Urban SL,Leporati AM

更新日期：2013-02-01 00:00:00

abstract：:The genomes (188 kbp) of the prototype Molluscum contagiosum virus type 1 (MCV-1) and a variant strain (MCV-1v) were characterized by construction of the physical maps of the viral DNA for the restriction enzymes BamHI, ClaI, EcoRI, and HindIII using a defined gene library harboring the DNA sequences of the MCV-1 geno...

journal_title：Virus genes

authors： Bugert J,Rösen-Wolff A,Darai G

更新日期：1989-11-01 00:00:00

abstract：:For millions of years viruses have adapted strategies to interfere with the immune defense of the host, which in turn has to deal with this challenge. In general the antiviral defense remains one step behind the pathogen. To achieve this strategic advantage large DNA-containing Viruses encode cellular homologues that ...

journal_title：Virus genes

authors： Raftery M,Müller A,Schönrich G

更新日期：2000-01-01 00:00:00

abstract：:Pneumonia virus of mice (PVM) is an enveloped RNA-containing virus of Family Paramyxoviridae. Sequences had been determined previously for a number of PVM genes, although these represented cloned cDNAs rather than consensus sequences. Sequences were not available for the 3' -leader and 5' -trailer regions that constit...

journal_title：Virus genes

authors： Krempl CD,Lamirande EW,Collins PL

更新日期：2005-03-01 00:00:00

abstract：:Hantaan (HTN) virus, the etiologic agent of clinically severe hemorrhagic fever with renal syndrome (HFRS), was first isolated in 1976 from lung tissues of striped field mice (Apodemus agrarius) captured in Songnae-ri, Kyungki-do, Korea. To clarify the genetic diversity and phylogenetic relationship among Korean strai...

journal_title：Virus genes

authors： Song JW,Baek LJ,Kim SH,Kho EY,Kim JH,Yanagihara R,Song KJ

更新日期：2000-10-01 00:00:00

abstract：:Although it is known that Cambodia is one of the high endemic area of hepatitis B virus (HBV) infection, molecular characterization of HBV circulating in this country has not been reported. In this study, pre-S gene of HBV from 12 Cambodian patients was sequenced. Phylogenetic analysis based on the pre-S gene sequence...

journal_title：Virus genes

authors： Huy TT,Sall AA,Reynes JM,Abe K

更新日期：2008-04-01 00:00:00

abstract：:We amplified the capsid protein gene fragments of 30 Japanese isolates of feline calicivirus (FCV), including the C, D, and E regions, by reverse transcription-polymerase chain reaction (RT-PCR), followed by direct sequencing. Alignment of the predicted amino acid sequences, together with other published sequences fro...

journal_title：Virus genes

authors： Horimoto T,Takeda Y,Iwatsuki-Horimoto K,Sugii S,Tajima T

更新日期：2001-01-01 00:00:00

abstract：:This study describes the results of the sequencing and analysis of segments of Blocks II and III of the RNA polymerase L gene of Rabies virus isolates from different reservoir species of Brazil. The phylogenetic relations of the virus were determined and a variety of species-specific nucleotides were found in the anal...

journal_title：Virus genes

authors： Carnieli P Jr,de Novaes Oliveira R,de Oliveira Fahl W,de Carvalho Ruthner Batista HB,Scheffer KC,Iamamoto K,Castilho JG

更新日期：2012-08-01 00:00:00

abstract：:Two cucumber mosaic virus (CMV) isolates XJ1 and XJ2 were obtained from sugar beet showing yellow mosaic symptom in Shihezi, Xinjiang Uigur municipality of China. The coat protein gene of the two CMV isolates and their associated satellite RNAs were amplified by reverse transcriptase polymerase chain reaction (RT-PCR)...

journal_title：Virus genes

authors： Xi D,Lan L,Wang J,Xu W,Xiang B,Lin H

更新日期：2006-12-01 00:00:00

abstract：:Japanese encephalitis (JE), which is a mosquito-borne arboviral infection, is the leading cause of viral encephalitis in Asian countries. The causative agent of JE is Japanese encephalitis virus (JEV), in which the predominant genotype has changed from genotype III (G III) to genotype I (G I). However, a method for th...

journal_title：Virus genes

authors： Zhang L,Cao S,Wu R,Zhu S,Liu H,Yuan L,Shi S,Zhang D,Huang X,Wen X,Wen Y,Yan Q,Huang Y,Ma X

更新日期：2015-04-01 00:00:00

abstract：:A H3N2 canine influenza virus, A/canine/Guangdong/3/2011 (H3N2), was isolated from roaming dogs in rural China. Sequence and phylogenetic analysis of eight gene segments revealed that the A/canine/Guangdong/3/2011 (H3N2) was most similar to a recent H3N2 canine influenza virus isolated in cats from South Korea, which ...

journal_title：Virus genes

authors： Su S,Yuan Z,Chen J,Xie J,Li H,Huang Z,Zhang M,Du G,Chen Z,Tu L,Zou Y,Miao J,Wang H,Jia K,Li S

更新日期：2013-06-01 00:00:00

abstract：:In this study, we report the discovery and molecular characterization of a novel mycovirus, Nigrospora oryzae fusarivirus 1 (NoFV1) isolated from the rice-infecting fungus Nigrospora oryzae. Excluding a poly (A) tail, the genome of the virus is 7004 nucleotide (nt) long containing three putative nonoverlapping open re...

journal_title：Virus genes

authors： Zhong J,Zhao SQ,Li GF,Pang XD,Deng XJ,Zhu HJ,Da Gao B,Zhou Q

更新日期：2016-12-01 00:00:00

abstract：:The infection of humans with Boma disease virus (BDV) is still a matter of debate. In a recent publication, we described a BDV (RW98) isolated from the blood of a psychiatric patient. The RNA of this virus differed more than 5% from that of the widely used strain He/80, which was supposed to represent our laboratory v...

journal_title：Virus genes

authors： Planz O,Rziha HJ,Stitz L

更新日期：2003-01-01 00:00:00

abstract：:Recent studies show that human skin at homeostasis is a complex ecosystem whose virome include circular DNA viruses, especially papillomaviruses and polyomaviruses. To determine the chicken skin virome in comparison with human skin virome, a chicken swabs pool sample from fifteen indoor healthy chickens of five geneti...

journal_title：Virus genes

authors： Denesvre C,Dumarest M,Rémy S,Gourichon D,Eloit M

更新日期：2015-10-01 00:00:00