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Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size

BACKGROUND: Six nucleotide (nt) insertion in the 5'-noncoding region (NCR) of the nucleoprotein (NP) gene of Newcaslte disease virus (NDV) is considered to be a genetic marker for recent genotypes of NDV, which emerged after 1960. However, F48-like NDVs from China, identified a 6-nt insert in t...

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Autores principales: Qiu, Xusheng, Sun, Qing, Wu, Shuang, Dong, Li, Hu, Shunling, Meng, Chunchun, Wu, Yantao, Liu, Xiufan
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3063233/
https://www.ncbi.nlm.nih.gov/pubmed/21396134
http://dx.doi.org/10.1186/1743-422X-8-117
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author Qiu, Xusheng
Sun, Qing
Wu, Shuang
Dong, Li
Hu, Shunling
Meng, Chunchun
Wu, Yantao
Liu, Xiufan
author_facet Qiu, Xusheng
Sun, Qing
Wu, Shuang
Dong, Li
Hu, Shunling
Meng, Chunchun
Wu, Yantao
Liu, Xiufan
author_sort Qiu, Xusheng
collection PubMed
description BACKGROUND: Six nucleotide (nt) insertion in the 5'-noncoding region (NCR) of the nucleoprotein (NP) gene of Newcaslte disease virus (NDV) is considered to be a genetic marker for recent genotypes of NDV, which emerged after 1960. However, F48-like NDVs from China, identified a 6-nt insert in the NP gene, have been previously classified into genotype III or genotype IX. RESULTS: In order to clarify their phylogenetic position and explore the origin of NDVs with the 6-nt insert and its significance in NDV evolution, we determined the entire genome sequences of five F48-like viruses isolated in China between 1946 and 2002 by RT-PCR amplification of overlapping fragments of full-length genome and rapid amplification of cDNA ends. All the five NDV isolates shared the same genome size of 15,192-nt with the recent genotype V-VIII viruses whereas they had the highest homology with early genotype III and IV isolates. CONCLUSIONS: The unique characteristic of the genome size and phylogenetic position of F48-like viruses warrants placing them in a separate geno-group, genotype IX. Results in this study also suggest that genotype IX viruses most likely originate from a genotype III virus by insertion of a 6-nt motif in the 5'-NCR of the NP gene which had occurred as early as in 1940 s, and might be the common origin of genotype V-VIII viruses.
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spelling pubmed-30632332011-03-24 Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size Qiu, Xusheng Sun, Qing Wu, Shuang Dong, Li Hu, Shunling Meng, Chunchun Wu, Yantao Liu, Xiufan Virol J Research BACKGROUND: Six nucleotide (nt) insertion in the 5'-noncoding region (NCR) of the nucleoprotein (NP) gene of Newcaslte disease virus (NDV) is considered to be a genetic marker for recent genotypes of NDV, which emerged after 1960. However, F48-like NDVs from China, identified a 6-nt insert in the NP gene, have been previously classified into genotype III or genotype IX. RESULTS: In order to clarify their phylogenetic position and explore the origin of NDVs with the 6-nt insert and its significance in NDV evolution, we determined the entire genome sequences of five F48-like viruses isolated in China between 1946 and 2002 by RT-PCR amplification of overlapping fragments of full-length genome and rapid amplification of cDNA ends. All the five NDV isolates shared the same genome size of 15,192-nt with the recent genotype V-VIII viruses whereas they had the highest homology with early genotype III and IV isolates. CONCLUSIONS: The unique characteristic of the genome size and phylogenetic position of F48-like viruses warrants placing them in a separate geno-group, genotype IX. Results in this study also suggest that genotype IX viruses most likely originate from a genotype III virus by insertion of a 6-nt motif in the 5'-NCR of the NP gene which had occurred as early as in 1940 s, and might be the common origin of genotype V-VIII viruses. BioMed Central 2011-03-14 /pmc/articles/PMC3063233/ /pubmed/21396134 http://dx.doi.org/10.1186/1743-422X-8-117 Text en Copyright ©2011 Qiu et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research
Qiu, Xusheng
Sun, Qing
Wu, Shuang
Dong, Li
Hu, Shunling
Meng, Chunchun
Wu, Yantao
Liu, Xiufan
Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title_full Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title_fullStr Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title_full_unstemmed Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title_short Entire genome sequence analysis of genotype IX Newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
title_sort entire genome sequence analysis of genotype ix newcastle disease viruses reveals their early-genotype phylogenetic position and recent-genotype genome size
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3063233/
https://www.ncbi.nlm.nih.gov/pubmed/21396134
http://dx.doi.org/10.1186/1743-422X-8-117
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