Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018

The complete nucleotide genome sequence for Canine Distemper Virus strain CDVHN5 isolated from a dog in Hanoi, Vietnam, in 2018, was determined and phylogenetically analyzed. The complete genome size of the CDVHN5 strain was 15,690 nucleotides, encoding for 02 non-structural proteins (C and V protei...

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Published in:Vietnam Journal of Biotechnology
Main Authors: Thi Roan, Do, Duc Thanh, Do, Thi Mai Lan, Dang, Hong Ngoc, Pham, Huu Duc, Nguyen, Thi Khue, Nguyen, Thi Thu Hien, Nguyen, Kim Xuyen, Le Thi, Thanh Hoa, Le, Thi Thanh Huong, Doan
Format: Article in Journal/Newspaper
Language:English
Published: Publishing House for Science and Technology 2020
Subjects:
PCR
Online Access:http://vjs.ac.vn/index.php/vjbt/article/view/15712
https://doi.org/10.15625/1811-4989/18/3/15712
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spelling ftvietnamacadst:oai:ojs.pkp.sfu.ca:article/15712 2023-05-15T15:12:57+02:00 Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018 Thi Roan, Do Duc Thanh, Do Thi Mai Lan, Dang Hong Ngoc, Pham Huu Duc, Nguyen Thi Khue, Nguyen Thi Thu Hien, Nguyen Kim Xuyen, Le Thi Thanh Hoa, Le Thi Thanh Huong, Doan 2020-11-28 application/pdf http://vjs.ac.vn/index.php/vjbt/article/view/15712 https://doi.org/10.15625/1811-4989/18/3/15712 eng eng Publishing House for Science and Technology http://vjs.ac.vn/index.php/vjbt/article/view/15712/103810384189 http://vjs.ac.vn/index.php/vjbt/article/view/15712 doi:10.15625/1811-4989/18/3/15712 Copyright (c) 2020 Vietnam Journal of Biotechnology Vietnam Journal of Biotechnology; Vol 18, No 3 (2020); 465-475 Tạp chí Công nghệ Sinh học; Vol 18, No 3 (2020); 465-475 1811-4989 Canine Distemper virus genome genotype PCR phylogeny info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion Peer-reviewed Article 2020 ftvietnamacadst https://doi.org/10.15625/1811-4989/18/3/15712 2021-03-21T09:23:41Z The complete nucleotide genome sequence for Canine Distemper Virus strain CDVHN5 isolated from a dog in Hanoi, Vietnam, in 2018, was determined and phylogenetically analyzed. The complete genome size of the CDVHN5 strain was 15,690 nucleotides, encoding for 02 non-structural proteins (C and V protein) and 06 structural proteins (large protein (L), haemagglutinin (H), phosphoprotein (P), nucleocapsid protein (N), fusion protein (F) và matrix protein (M). In the genome, base A accounted for the highest percentage of 30.5%, consisted of 4,798 nucleotides. Base T consisted of 4,177 nucleotides, accounted for 26.62%. Base G consisted of 3,450 nucleotides, accounted for 21.7%. And base C consisted of 3,310 nucleotides, accounted for 21.1%. The percentage of A+T was 57.2%, higher than that of G+C (42.8%). Nucleotide sequencing analysis showed that the CDVHN5 strain had the highest similarity (99.7%) compared with the virulent strain collected in Ho Chi Minh City in 2014 (CDV/dog/HCM/33/140816) that belongs to genotype Asia-1. Comparison to other genotypes, the CDVHN5 strain had a low percentage of nucleotide and amino acid similarities, from 92.4% to 96%, among them, the lowest rate with two strains of vaccine virus Onderstepoort-US-2002 belonging to genotype America-1 and CDV2784-IT-2013 strain of genotype Arctic (92.4%). Phylogenetic analysis showed that the CDVHN5 strain in Hanoi belonged to genotype Asia-1, similar to Chinese, Taiwan, Thailand and Korean strains. To date, the only full-length CDV sequence from Ho Chi Minh City was sequenced and published in Genebank, no data from Northern Vietnam. So that, the addition of whole genome sequence of CDV in Vietnam is essential. Article in Journal/Newspaper Arctic Vietnam Academy of Science and Technology: Journals Online Arctic Vietnam Journal of Biotechnology 18 3 465 475
institution Open Polar
collection Vietnam Academy of Science and Technology: Journals Online
op_collection_id ftvietnamacadst
language English
topic Canine Distemper virus
genome
genotype
PCR
phylogeny
spellingShingle Canine Distemper virus
genome
genotype
PCR
phylogeny
Thi Roan, Do
Duc Thanh, Do
Thi Mai Lan, Dang
Hong Ngoc, Pham
Huu Duc, Nguyen
Thi Khue, Nguyen
Thi Thu Hien, Nguyen
Kim Xuyen, Le Thi
Thanh Hoa, Le
Thi Thanh Huong, Doan
Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
topic_facet Canine Distemper virus
genome
genotype
PCR
phylogeny
description The complete nucleotide genome sequence for Canine Distemper Virus strain CDVHN5 isolated from a dog in Hanoi, Vietnam, in 2018, was determined and phylogenetically analyzed. The complete genome size of the CDVHN5 strain was 15,690 nucleotides, encoding for 02 non-structural proteins (C and V protein) and 06 structural proteins (large protein (L), haemagglutinin (H), phosphoprotein (P), nucleocapsid protein (N), fusion protein (F) và matrix protein (M). In the genome, base A accounted for the highest percentage of 30.5%, consisted of 4,798 nucleotides. Base T consisted of 4,177 nucleotides, accounted for 26.62%. Base G consisted of 3,450 nucleotides, accounted for 21.7%. And base C consisted of 3,310 nucleotides, accounted for 21.1%. The percentage of A+T was 57.2%, higher than that of G+C (42.8%). Nucleotide sequencing analysis showed that the CDVHN5 strain had the highest similarity (99.7%) compared with the virulent strain collected in Ho Chi Minh City in 2014 (CDV/dog/HCM/33/140816) that belongs to genotype Asia-1. Comparison to other genotypes, the CDVHN5 strain had a low percentage of nucleotide and amino acid similarities, from 92.4% to 96%, among them, the lowest rate with two strains of vaccine virus Onderstepoort-US-2002 belonging to genotype America-1 and CDV2784-IT-2013 strain of genotype Arctic (92.4%). Phylogenetic analysis showed that the CDVHN5 strain in Hanoi belonged to genotype Asia-1, similar to Chinese, Taiwan, Thailand and Korean strains. To date, the only full-length CDV sequence from Ho Chi Minh City was sequenced and published in Genebank, no data from Northern Vietnam. So that, the addition of whole genome sequence of CDV in Vietnam is essential.
format Article in Journal/Newspaper
author Thi Roan, Do
Duc Thanh, Do
Thi Mai Lan, Dang
Hong Ngoc, Pham
Huu Duc, Nguyen
Thi Khue, Nguyen
Thi Thu Hien, Nguyen
Kim Xuyen, Le Thi
Thanh Hoa, Le
Thi Thanh Huong, Doan
author_facet Thi Roan, Do
Duc Thanh, Do
Thi Mai Lan, Dang
Hong Ngoc, Pham
Huu Duc, Nguyen
Thi Khue, Nguyen
Thi Thu Hien, Nguyen
Kim Xuyen, Le Thi
Thanh Hoa, Le
Thi Thanh Huong, Doan
author_sort Thi Roan, Do
title Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
title_short Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
title_full Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
title_fullStr Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
title_full_unstemmed Whole genome sequencing of the Canine Distemper Virus isolated from dog in 2018
title_sort whole genome sequencing of the canine distemper virus isolated from dog in 2018
publisher Publishing House for Science and Technology
publishDate 2020
url http://vjs.ac.vn/index.php/vjbt/article/view/15712
https://doi.org/10.15625/1811-4989/18/3/15712
geographic Arctic
geographic_facet Arctic
genre Arctic
genre_facet Arctic
op_source Vietnam Journal of Biotechnology; Vol 18, No 3 (2020); 465-475
Tạp chí Công nghệ Sinh học; Vol 18, No 3 (2020); 465-475
1811-4989
op_relation http://vjs.ac.vn/index.php/vjbt/article/view/15712/103810384189
http://vjs.ac.vn/index.php/vjbt/article/view/15712
doi:10.15625/1811-4989/18/3/15712
op_rights Copyright (c) 2020 Vietnam Journal of Biotechnology
op_doi https://doi.org/10.15625/1811-4989/18/3/15712
container_title Vietnam Journal of Biotechnology
container_volume 18
container_issue 3
container_start_page 465
op_container_end_page 475
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