PubAg

Main content area

You searched for: Author "Naoi, Yuki" Remove constraint Author: "Naoi, Yuki"
Start Over

Search

16  Search Results

1 - 16 of 16
Number of results to display per page

Search Results

1. Complete genome sequencing and genetic characterization of porcine sapovirus genogroup (G) X and GXI: GVI, GVII, GX, and GXI sapoviruses share common genomic features and form a unique porcine SaV clade

Author:
Naoi, Yuki,   et al.   ; Sunaga, Fujiko; Masuda, Tsuneyuki; Aoki, Hiroshi; Ito, Mika; Sano, Kaori; Katayama, Yukie; Omatsu, Tsutomu; Oba, Mami; Furuya, Tetsuya; Shirai, Junsuke; Mizutani, Tetsuya; Oka, Tomoichiro; Nagai, Makoto;     Show all 14 Authors
Source:
Infection, genetics, and evolution 2019 v.75 pp. 103959
ISSN:
1567-1348
Subject:
Sapovirus; amino acids; ancestry; genome; genomics; humans; nucleotide sequences; nucleotides; phylogeny; sequence analysis; structural proteins; swine; viral nonstructural proteins; viruses
Abstract:
... Sapoviruses (SaVs) are enteric viruses belonging to the family Caliciviridae that infect humans and animals, including pigs. To date, SaVs have been classified into 19 genogroups (G) based on complete VP1 sequences; however, complete genome sequences of some SaV Gs are not yet available. In this study, we determined the full genome sequences of four SaVs (two GX and two GXI SaVs) and analyzed them ...
DOI:
10.1016/j.meegid.2019.103959

2. Phylogenetic analysis of novel posaviruses detected in feces of Japanese pigs with posaviruses and posa-like viruses of vertebrates and invertebrates

Author:
Naoi, Yuki,   et al.   ; Aoki, Hiroshi; Sunaga, Fujiko; Ochiai, Hideharu; Masuda, Tsuneyuki; Ito, Mika; Akagami, Masataka; Sano, Kaori; Katayama, Yukie; Omatsu, Tsutomu; Oba, Mami; Sakaguchi, Shoichi; Furuya, Tetsuya; Ouchi, Yoshinao; Shirai, Junsuke; Mizutani, Tetsuya; Oka, Tomoichiro; Nagai, Makoto;     Show all 18 Authors
Source:
Archives of virology 2019 v.164 no.8 pp. 2147-2151
ISSN:
0304-8608
Subject:
Picornavirales; feces; humans; invertebrates; phylogeny; rats; sequence homology; swine; unassigned viruses; viruses
Abstract:
... Posaviruses and posa-like viruses are unclassified viruses with sequence similarity to viruses of the order Picornavirales. They have been reported in various vertebrates and invertebrates. We identified 11 posavirus-like sequences in porcine feces and performed phylogenic analysis. Previously reported Japanese posaviruses and those identified in this study clustered with posavirus 1, 4, and 7 and ...
DOI:
10.1007/s00705-019-04289-8

3. A novel defective recombinant porcine enterovirus G virus carrying a porcine torovirus papain-like cysteine protease gene and a putative anti-apoptosis gene in place of viral structural protein genes

Author:
Naoi, Yuki,   et al.   ; Imai, Ryo; Nagai, Makoto; Oba, Mami; Sakaguchi, Shoichi; Ujike, Makoto; Kimura, Ruka; Kida, Moeko; Masuda, Tsuneyuki; Kuroda, Moegi; Wen, Rongduo; Li, Kaixin; Katayama, Yukie; Tsuchiaka, Shinobu; Omatsu, Tsutomu; Yamazato, Hiroshi; Makino, Shinji; Mizutani, Tetsuya;     Show all 18 Authors
Source:
Infection, genetics, and evolution 2019 pp. 103975
ISSN:
1567-1348
Subject:
Enterovirus G; Porcine enterovirus; Porcine torovirus; amino acid sequences; apoptosis; cysteine proteinases; farms; feces; helper viruses; phylogeny; sequence homology; structural genes; structural proteins; swine; Belgium; Japan; United States
Abstract:
... Enterovirus G (EV-G) belongs to the family of Picornaviridae. Two types of recombinant porcine EV-Gs carrying papain-like cysteine protease (PLCP) gene of porcine torovirus, a virus in Coronaviridae, are reported. Type 1 recombinant EV-Gs are detected in pig feces in Japan, USA, and Belgium and carry the PLPC gene at the junction site of 2C/3A genes, while PLPC gene replaces the viral structural g ...
DOI:
10.1016/j.meegid.2019.103975

4. Complete genomic analysis and molecular characterization of Japanese porcine sapeloviruses

Author:
Naoi, Yuki,   et al.   ; Sunaga, Fujiko; Masuda, Tsuneyuki; Ito, Mika; Akagami, Masataka; Sano, Kaori; Katayama, Yukie; Omatsu, Tsutomu; Oba, Mami; Sakaguchi, Shoichi; Furuya, Tetsuya; Yamasato, Hiroshi; Ouchi, Yoshinao; Shirai, Junsuke; Mizutani, Tetsuya; Nagai, Makoto;     Show all 16 Authors
Source:
Virus genes 2019 v.55 no.2 pp. 198-208
ISSN:
0920-8569
Subject:
RNA; Sapelovirus A; bioinformatics; genetic variation; genome; genomics; genotype; internal ribosome entry sites; phylogeny; sequence diversity; swine; topology; trees; viruses
Abstract:
... The Porcine Sapelovirus (PSV) is an enteric virus of pigs that can cause various disorders. However, there are few reports that describe the molecular characteristics of the PSV genome. In this study, almost the entire genomes of 23 PSVs detected in Japanese pigs were analyzed using bioinformatics. Analysis of the cis-active RNA elements showed that the predicted secondary structures of the intern ...
DOI:
10.1007/s11262-019-01640-8

5. Metagenomic identification and sequence analysis of a Teschovirus A-related virus in porcine feces in Japan, 2014–2016

Author:
Naoi, Yuki,   et al.   ; Oba, Mami; Ito, Mika; Masuda, Tsuneyuki; Katayama, Yukie; Sakaguchi, Shoichi; Omatsu, Tsutomu; Furuya, Tetsuya; Yamasato, Hiroshi; Sunaga, Fujiko; Makino, Shinji; Mizutani, Tetsuya; Nagai, Makoto;     Show all 13 Authors
Source:
Infection, genetics, and evolution 2018 v.66 pp. 210-216
ISSN:
1567-1348
Subject:
Teschovirus; amino acids; diarrhea; feces; internal ribosome entry sites; metagenomics; phylogeny; sequence analysis; serotypes; swine; viruses; wild boars; Japan
Abstract:
... Porcine Teschoviruses (PTVs) are associated with polioencephalomyelitis and various diseases, including reproductive and gastrointestinal disorders, of pigs and wild boars, and are also detected in the feces of healthy pigs. The genus Teschovirus contains a single species Teschovirus A that currently includes 13 serotypes. In the present study, we identified novel PTVs that are distantly related t ...
DOI:
10.1016/j.meegid.2018.10.004

6. Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan

Author:
Naoi, Yuki,   et al.   ; Masuda, Tsuneyuki; Sunaga, Fujiko; Ito, Mika; Takagi, Hiroki; Katayama, Yukie; Omatsu, Tsutomu; Oba, Mami; Sakaguchi, Shoichi; Furuya, Tetsuya; Yamasato, Hiroshi; Shirai, Junsuke; Makino, Shinji; Mizutani, Tetsuya; Nagai, Makoto;     Show all 15 Authors
Source:
Virus research 2018 v.257 pp. 68-73
ISSN:
0168-1702
Subject:
Chiroptera; Enterovirus; Sapelovirus; amino acids; diarrhea; farms; feces; genome; internal ribosome entry sites; metagenomics; open reading frames; pathogenicity; polyproteins; reverse transcriptase polymerase chain reaction; sequence analysis; structural proteins; swine; viral nonstructural proteins; viruses; Japan
Abstract:
... A novel virus related to the Enterovirus/Sapelovirus supergroup in the family Picornaviridae was identified in healthy porcine feces in Japan by using a metagenomics approach. The genome of the virus, named Sapelo-like porcine picornavirus Japan (SPPVJ) Pig/Isi-Im1/JPN/2016, had a type-IV internal ribosomal entry site and carried a 6978-nucleotide-long single open reading frame encoding a 2326 ami ...
DOI:
10.1016/j.virusres.2018.09.003

7. Diversity in VP3, NSP3, and NSP4 of rotavirus B detected from Japanese cattle

Author:
Naoi, Yuki,   et al.   ; Hayashi-Miyamoto, Michiko; Murakami, Toshiaki; Minami-Fukuda, Fujiko; Tsuchiaka, Shinobu; Kishimoto, Mai; Sano, Kaori; Asano, Keigo; Ichimaru, Toru; Haga, Kei; Omatsu, Tsutomu; Katayama, Yukie; Oba, Mami; Aoki, Hiroshi; Shirai, Junsuke; Ishida, Motohiko; Katayama, Kazuhiko; Mizutani, Tetsuya; Nagai, Makoto;     Show all 19 Authors
Source:
Infection, genetics, and evolution 2017 v.49 pp. 97-103
ISSN:
1567-1348
Subject:
Rotavirus A; Rotavirus B; adults; amino acid sequences; cattle; diarrhea; etiological agents; genes; genetic databases; genotype; humans; hydrophobicity; metagenomics; mice; nucleotide sequences; phylogeny; swine; viral nonstructural proteins
Abstract:
... Bovine rotavirus B (RVB) is an etiological agent of diarrhea mostly in adult cattle. Currently, a few sequences of viral protein (VP)1, 2, 4, 6, and 7 and nonstructural protein (NSP)1, 2, and 5 of bovine RVB are available in the DDBJ/EMBL/GenBank databases, and none have been reported for VP3, NSP3, and NSP4. In order to fill this gap in the genetic characterization of bovine RVB strains, we used ...
DOI:
10.1016/j.meegid.2017.01.003

8. Genetic diversity and intergenogroup recombination events of sapoviruses detected from feces of pigs in Japan

Author:
Naoi, Yuki,   et al.   ; Kuroda, Moegi; Masuda, Tsuneyuki; Ito, Mika; Doan, Yen Hai; Haga, Kei; Tsuchiaka, Shinobu; Kishimoto, Mai; Sano, Kaori; Omatsu, Tsutomu; Katayama, Yukie; Oba, Mami; Aoki, Hiroshi; Ichimaru, Toru; Sunaga, Fujiko; Mukono, Itsuro; Yamasato, Hiroshi; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya; Oka, Tomoichiro; Nagai, Makoto;     Show all 22 Authors
Source:
Infection, genetics, and evolution 2017 v.55 pp. 209-217
ISSN:
1567-1348
Subject:
amino acid sequences; feces; genetic recombination; genetic variation; genome; humans; metagenomics; nucleotide sequences; phylogeny; structural proteins; swine; viruses; Japan
Abstract:
... Sapoviruses (SaV) are enteric viruses infecting humans and animals. SaVs are highly diverse and are divided into multiple genogroups based on structural protein (VP1) sequences. SaVs detected from pigs belong to eight genogroups (GIII, GV, GVI, GVII, GVIII, GIX, GX, and GXI), but little is known about the SaV genogroup distribution in the Japanese pig population. In the present study, 26 nearly co ...
DOI:
10.1016/j.meegid.2017.09.013

9. Complete genome analysis of porcine kobuviruses from the feces of pigs in Japan

Author:
Naoi, Yuki,   et al.   ; Akagami, Masataka; Ito, Mika; Niira, Kazutaka; Kuroda, Moegi; Masuda, Tsuneyuki; Haga, Kei; Tsuchiaka, Shinobu; Kishimoto, Mai; Sano, Kaori; Omatsu, Tsutomu; Aoki, Hiroshi; Katayama, Yukie; Oba, Mami; Oka, Tomoichiro; Ichimaru, Toru; Yamasato, Hiroshi; Ouchi, Yoshinao; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya; Nagai, Makoto;     Show all 22 Authors
Source:
Virus genes 2017 v.53 no.4 pp. 593-602
ISSN:
0920-8569
Subject:
Kobuvirus; farms; feces; genetic variation; genome; livestock and meat industry; metagenomics; phylogeny; provenance; sequence analysis; swine; viruses; Japan
Abstract:
... Porcine kobuviruses (PoKoVs) are ubiquitously distributed in pig populations worldwide and are thought to be enteric viruses in swine. Although PoKoVs have been detected in pigs in Japan, no complete genome data for Japanese PoKoVs are available. In the present study, 24 nearly complete or complete sequences of the PoKoV genome obtained from 10 diarrheic feces and 14 non-diarrheic feces of Japanes ...
DOI:
10.1007/s11262-017-1464-9

10. Whole genome analysis of porcine astroviruses detected in Japanese pigs reveals genetic diversity and possible intra-genotypic recombination

Author:
Naoi, Yuki,   et al.   ; Ito, Mika; Kuroda, Moegi; Masuda, Tsuneyuki; Akagami, Masataka; Haga, Kei; Tsuchiaka, Shinobu; Kishimoto, Mai; Sano, Kaori; Omatsu, Tsutomu; Katayama, Yukie; Oba, Mami; Aoki, Hiroshi; Ichimaru, Toru; Mukono, Itsuro; Ouchi, Yoshinao; Yamasato, Hiroshi; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya; Nagai, Makoto;     Show all 21 Authors
Source:
Infection, genetics, and evolution 2017 v.50 pp. 38-48
ISSN:
1567-1348
Subject:
Astroviridae; epidemiology; feces; genetic variation; genome; genotype; humans; metagenomics; mixed infection; nervous system diseases; open reading frames; phylogeny; sequence analysis; swine; viruses; zoonoses; Japan
Abstract:
... Porcine astroviruses (PoAstVs) are ubiquitous enteric virus of pigs that are distributed in several countries throughout the world. Since PoAstVs are detected in apparent healthy pigs, the clinical significance of infection is unknown. However, AstVs have recently been associated with a severe neurological disorder in animals, including humans, and zoonotic potential has been suggested. To date, l ...
DOI:
10.1016/j.meegid.2017.02.008

11. Characterization and phylogenetic analysis of a novel picornavirus from swine feces in Japan

Author:
Naoi, Yuki,   et al.   ; Kishimoto, Mai; Masuda, Tsuneyuki; Ito, Mika; Tsuchiaka, Shinobu; Sano, Kaori; Yamasato, Hiroshi; Omatsu, Tsutomu; Aoki, Hiroshi; Furuya, Tetsuya; Katayama, Yukie; Oba, Mami; Okada, Takashi; Shirai, Junsuke; Mizutani, Tetsuya; Nagai, Makoto;     Show all 16 Authors
Source:
Archives of virology 2016 v.161 no.6 pp. 1685-1690
ISSN:
0304-8608
Subject:
Equine rhinitis A virus; amino acid sequences; farms; feces; genome; host range; metagenomics; new genus; pathogenicity; phylogeny; reverse transcriptase polymerase chain reaction; sequence analysis; swine; viruses; Japan
Abstract:
... During an investigation of porcine fecal viruses using a metagenomics approach, a novel picornavirus was identified from the feces of a healthy two-month-old pig. This virus, named porcine picornavirus Japan (PPVJ), had a standard picornavirus genome organization, including the L protein region. The 5′ untranslated region harbored a type II internal ribosomal entry site. This virus was most closel ...
DOI:
10.1007/s00705-016-2834-7

12. Whole genome analysis of Japanese bovine toroviruses reveals natural recombination between porcine and bovine toroviruses

Author:
Naoi, Yuki,   et al.   ; Ito, Mika; Tsuchiaka, Shinobu; Otomaru, Konosuke; Sato, Mitsuo; Masuda, Tsuneyuki; Haga, Kei; Oka, Tomoichiro; Yamasato, Hiroshi; Omatsu, Tsutomu; Sugimura, Satoshi; Aoki, Hiroshi; Furuya, Tetsuya; Katayama, Yukie; Oba, Mami; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya; Nagai, Makoto;     Show all 19 Authors
Source:
Infection, genetics, and evolution 2016 v.38 pp. 90-95
ISSN:
1567-1348
Subject:
Porcine torovirus; calves; cattle diseases; cows; gastrointestinal system; nucleotide sequences; pathogens; phylogeny; sequence analysis; swine; Japan
Abstract:
... Bovine toroviruses (BToVs), belong to the subfamily Toroviridae within the family Coronaviridae, and are pathogens, causing enteric disease in cattle. In Japan, BToVs are distributed throughout the country and cause gastrointestinal infection of calves and cows. In the present study, complete genome sequences of two Japanese BToVs and partial genome sequences of two Japanese BToVs and one porcine ...
DOI:
10.1016/j.meegid.2015.12.013

13. Identification and complete genome analysis of a novel bovine picornavirus in Japan

Author:
Naoi, Yuki,   et al.   ; Nagai, Makoto; Omatsu, Tsutomu; Aoki, Hiroshi; Kaku, Yoshihiro; Belsham, Graham J.; Haga, Kei; Sano, Kaori; Umetsu, Moeko; Shiokawa, Mai; Tsuchiaka, Shinobu; Furuya, Tetsuya; Okazaki, Sachiko; Katayama, Yukie; Oba, Mami; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya;     Show all 18 Authors
Source:
Virus research 2015 v.210 pp. 205-212
ISSN:
0168-1702
Subject:
3' untranslated regions; 5' untranslated regions; Chiroptera; Feline calicivirus; Picornaviridae; amino acids; cattle; diarrhea; dogs; etiology; feces; genome; metagenomics; pathogenicity; phylogeny; sequence analysis; Japan
Abstract:
... We identified novel viruses in feces from cattle with diarrhea collected in 2009 in Hokkaido Prefecture, Japan, by using a metagenomics approach and determined the (near) complete sequences of the virus. Sequence analyses revealed that they had a standard picornavirus genome organization, i.e. 5′ untranslated region (UTR) - L- P1 (VP4- VP3- VP2- VP1) - P2 (2A- 2B- 2C) - P3 (3A- 3B- 3C-3D) - 3′UTR- ...
DOI:
10.1016/j.virusres.2015.08.001

14. Identification of further diversity among posaviruses

Author:
Naoi, Yuki,   et al.   ; Sano, Kaori; Kishimoto, Mai; Masuda, Tsuneyuki; Tanabe, Hitomi; Ito, Mika; Niira, Kazutaka; Haga, Kei; Asano, Keigo; Tsuchiaka, Shinobu; Omatsu, Tsutomu; Furuya, Tetsuya; Katayama, Yukie; Oba, Mami; Ouchi, Yoshinao; Yamasato, Hiroshi; Ishida, Motohiko; Shirai, Junsuke; Katayama, Kazuhiko; Mizutani, Tetsuya; Nagai, Makoto;     Show all 21 Authors
Source:
Archives of virology 2016 v.161 no.12 pp. 3541-3548
ISSN:
0304-8608
Subject:
Picornavirales; RNA-directed RNA polymerase; amino acid sequences; feces; metagenomics; nucleotides; phylogeny; sequence analysis; swine; viruses
Abstract:
... Recently, there have been reports of new members of posavirus-like viruses in the order Picornavirales. In this study, using a metagenomics approach, 11 posavirus-like sequences (>7,000 nucleotides) were detected in 155 porcine fecal samples. Phylogenetic analysis revealed that the newly identified virus sequences, together with other posavirus-like viruses, form distinct clusters within the order ...
DOI:
10.1007/s00705-016-3048-8

15. Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system

Author:
Naoi, Yuki,   et al.   ; Niira, Kazutaka; Ito, Mika; Masuda, Tsuneyuki; Saitou, Toshiya; Abe, Tadatsugu; Komoto, Satoshi; Sato, Mitsuo; Yamasato, Hiroshi; Kishimoto, Mai; Sano, Kaori; Tuchiaka, Shinobu; Okada, Takashi; Omatsu, Tsutomu; Furuya, Tetsuya; Aoki, Hiroshi; Katayama, Yukie; Oba, Mami; Shirai, Junsuke; Taniguchi, Koki; Mizutani, Tetsuya; Nagai, Makoto;     Show all 22 Authors
Source:
Infection, genetics, and evolution 2016 v.44 pp. 106-113
ISSN:
1567-1348
Subject:
Rotavirus C; cattle; databases; diarrhea; disease transmission; genes; genetic variation; genotype; humans; nucleotide sequences; phylogeny; piglets; sequence analysis
Abstract:
... Porcine rotavirus C (RVC) is distributed throughout the world and is thought to be a pathogenic agent of diarrhea in piglets. Although, the VP7, VP4, and VP6 gene sequences of Japanese porcine RVCs are currently available, there is no whole-genome sequence data of Japanese RVC. Furthermore, only one to three sequences are available for porcine RVC VP1–VP3 and NSP1–NSP3 genes. Therefore, we determi ...
DOI:
10.1016/j.meegid.2016.06.041

16. Full genome analysis of bovine astrovirus from fecal samples of cattle in Japan: identification of possible interspecies transmission of bovine astrovirus

Author:
Naoi, Yuki,   et al.   ; Nagai, Makoto; Omatsu, Tsutomu; Aoki, Hiroshi; Otomaru, Konosuke; Uto, Takehiko; Koizumi, Motoya; Minami-Fukuda, Fujiko; Takai, Hikaru; Murakami, Toshiaki; Masuda, Tsuneyuki; Yamasato, Hiroshi; Shiokawa, Mai; Tsuchiaka, Shinobu; Sano, Kaori; Okazaki, Sachiko; Katayama, Yukie; Oba, Mami; Furuya, Tetsuya; Shirai, Junsuke; Mizutani, Tetsuya;     Show all 21 Authors
Source:
Archives of virology 2015 v.160 no.10 pp. 2491-2501
ISSN:
0304-8608
Subject:
Mamastrovirus 3; diarrhea; open reading frames; Mamastrovirus 13; respiratory tract diseases; phylogeny; amino acid sequences; disease transmission; feces; metagenomics; calves; RNA; Bovine astrovirus; sequence homology; pathogens; Japan
Abstract:
... A viral metagenomics approach was used to investigate fecal samples of Japanese calves with and without diarrhea. Of the different viral pathogens detected, read counts gave nearly complete astrovirus-related RNA sequences in 15 of the 146 fecal samples collected in three distinct areas (Hokkaido, Ishikawa, and Kagoshima Prefectures) between 2009 and 2015. Due to the lack of genetic information ab ...
DOI:
10.1007/s00705-015-2543-7