Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012

Newcastle disease virus (NDV) is a contagious viral disease of many avian species particularly domestic poultry, and is responsible for causing significant economic losses to the poultry industry in Southeast Asia including Malaysia. Here we report the sequence and phylogenetic analysis of NDV that...

Full description

Bibliographic Details
Main Authors:	Shohaimi , Syamsiah Aini, Ahmad Raus, Raha, Ong , Geok Huai, Mohamed Asmayatim, Basirah, Nayan, Nursyuwari, Mat Yusof, Afzan
Format:	Article
Language:	English
Published:	Universiti Teknologi Malaysia 2015
Subjects:	Q Science (General)
Online Access:	http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/1/6757-18549-1-SM.pdf

id	iium-46370
recordtype	eprints
spelling	iium-463702016-06-06T08:33:07Z http://irep.iium.edu.my/46370/ Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012 Shohaimi , Syamsiah Aini Ahmad Raus, Raha Ong , Geok Huai Mohamed Asmayatim, Basirah Nayan, Nursyuwari Mat Yusof, Afzan Q Science (General) Newcastle disease virus (NDV) is a contagious viral disease of many avian species particularly domestic poultry, and is responsible for causing significant economic losses to the poultry industry in Southeast Asia including Malaysia. Here we report the sequence and phylogenetic analysis of NDV that has been circulating in Malaysia. A total of 151 NDV isolates were selected during 1999-2012 throughout Malaysia and were characterized phylogenetically. The partial region of matrix (M) and fusion (F) protein of NDV was amplified by reverse transcriptase PCR, directly sequenced and compared genetically to the published sequences obtained from GenBank. The deduced amino acid sequence of the F protein cleavage site revealed the presence of three different motifs; 112RRRKRF117, 112RRQKRF117 typical for velogenic strains while 112GKQGRL117 indicates it is from avirulent strain or lentogenic strain. The phylogenetic analysis revealed that 13 isolates belonged to genotype I, 2 to genotype III, 6 to genotype VI, 1 to genotype VIII and 129 to genotype VII. Isolates belonging to genotype VII were further divided into five subgenotypes; VIIa, VIIb, VIId, VIIe and VIIh. Based on the phylogenetic tree and geographical data, it is found that NDV genotype VIIb and VIIe were isolated in 1999 while in year 2000 to 2009, most of the NDV isolates were NDV genotype VIId originated from China. No subgenotype VIId viruses were recovered after 2009 in Malaysia. In 2010-2012, NDV outbreaks were caused by subgenotypes VIIa and VIIh in Peninsular Malaysia. Interestingly, these subgenotypes have been isolated in East Malaysia since 2002 but did not cause major outbreak. These information points to the existence of multiple genotypes of NDV in Malaysia especially genotype VII and these findings emphasize the importance of continuous surveillance of NDV in Malaysia. Universiti Teknologi Malaysia 2015-10-15 Article PeerReviewed application/pdf en http://irep.iium.edu.my/46370/1/6757-18549-1-SM.pdf Shohaimi , Syamsiah Aini and Ahmad Raus, Raha and Ong , Geok Huai and Mohamed Asmayatim, Basirah and Nayan, Nursyuwari and Mat Yusof, Afzan (2015) Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012. Jurnal Teknologi, 77 (25). pp. 159-164. ISSN 0127–9696 E-ISSN 2180–3722 http://www.jurnalteknologi.utm.my/index.php/jurnalteknologi/article/view/6757 DOI: http://dx.doi.org/10.11113/jt.v77.6757
repository_type	Digital Repository
institution_category	Local University
institution	International Islamic University Malaysia
building	IIUM Repository
collection	Online Access
language	English
topic	Q Science (General)
spellingShingle	Q Science (General) Shohaimi , Syamsiah Aini Ahmad Raus, Raha Ong , Geok Huai Mohamed Asmayatim, Basirah Nayan, Nursyuwari Mat Yusof, Afzan Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
description	Newcastle disease virus (NDV) is a contagious viral disease of many avian species particularly domestic poultry, and is responsible for causing significant economic losses to the poultry industry in Southeast Asia including Malaysia. Here we report the sequence and phylogenetic analysis of NDV that has been circulating in Malaysia. A total of 151 NDV isolates were selected during 1999-2012 throughout Malaysia and were characterized phylogenetically. The partial region of matrix (M) and fusion (F) protein of NDV was amplified by reverse transcriptase PCR, directly sequenced and compared genetically to the published sequences obtained from GenBank. The deduced amino acid sequence of the F protein cleavage site revealed the presence of three different motifs; 112RRRKRF117, 112RRQKRF117 typical for velogenic strains while 112GKQGRL117 indicates it is from avirulent strain or lentogenic strain. The phylogenetic analysis revealed that 13 isolates belonged to genotype I, 2 to genotype III, 6 to genotype VI, 1 to genotype VIII and 129 to genotype VII. Isolates belonging to genotype VII were further divided into five subgenotypes; VIIa, VIIb, VIId, VIIe and VIIh. Based on the phylogenetic tree and geographical data, it is found that NDV genotype VIIb and VIIe were isolated in 1999 while in year 2000 to 2009, most of the NDV isolates were NDV genotype VIId originated from China. No subgenotype VIId viruses were recovered after 2009 in Malaysia. In 2010-2012, NDV outbreaks were caused by subgenotypes VIIa and VIIh in Peninsular Malaysia. Interestingly, these subgenotypes have been isolated in East Malaysia since 2002 but did not cause major outbreak. These information points to the existence of multiple genotypes of NDV in Malaysia especially genotype VII and these findings emphasize the importance of continuous surveillance of NDV in Malaysia.
format	Article
author	Shohaimi , Syamsiah Aini Ahmad Raus, Raha Ong , Geok Huai Mohamed Asmayatim, Basirah Nayan, Nursyuwari Mat Yusof, Afzan
author_facet	Shohaimi , Syamsiah Aini Ahmad Raus, Raha Ong , Geok Huai Mohamed Asmayatim, Basirah Nayan, Nursyuwari Mat Yusof, Afzan
author_sort	Shohaimi , Syamsiah Aini
title	Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
title_short	Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
title_full	Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
title_fullStr	Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
title_full_unstemmed	Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012
title_sort	sequence and phylogenetic analysis of newcastle disease virus genotype vii isolated in malaysia during 1999-2012
publisher	Universiti Teknologi Malaysia
publishDate	2015
url	http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/ http://irep.iium.edu.my/46370/1/6757-18549-1-SM.pdf
first_indexed	2023-09-18T21:06:00Z
last_indexed	2023-09-18T21:06:00Z
_version_	1777410937686327296

Sequence and phylogenetic analysis of Newcastle disease virus genotype VII isolated in Malaysia during 1999-2012

Similar Items