Complete Genome Sequence of a Newcastle Disease Virus Isolate from an Outbreak in Central India

Gogoi, Polakshee; Morla, Sudhir; Kaore, Megha; Kurkure, N. V.; Kumar, Sachin

doi:10.1128/genomea.01418-14

Cited by 13 publications

(6 citation statements)

References 8 publications

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“…NDV has gained significant attention in recent years not only because of its pathogenic nature for avian species but also because of its use as a vaccine vector and an oncolytic agent . In recent years, many new strains of NDV have been isolated and characterized . The analysis of complete genome sequence of newly isolated strains of NDV gives a comprehensive insight regarding the sequence variation among its different pathotypes.…”

Section: Discussionmentioning

confidence: 99%

Synonymous codon usage of genes in polymerase complex of Newcastle disease virus

Kumar

2017

J Basic Microbiol

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Newcastle disease virus (NDV) is pathogenic to both avian and non-avian species but extensively finds poultry as its primary host and causes heavy economic losses in the poultry industry. In this study, a total of 186 polymerase complex comprising of nucleoprotein (N), phosphoprotein (P), and large polymerase (L) genes of NDV was analyzed for synonymous codon usage. The relative synonymous codon usage and effective number of codons (ENC) values were used to estimate codon usage variation in each gene. Correspondence analysis (COA) was used to study the major trend in codon usage variation. Analyzing the ENC plot values against GC3s (at synonymous third codon position) we concluded that mutational pressure was the main factor determining codon usage bias than translational selection in NDV N, P, and L genes. Moreover, correlation analysis indicated, that aromaticity of N, P, and L genes also influenced the codon usage variation. The varied distribution of pathotypes for N, P, and L gene clearly suggests that change in codon usage for NDV is pathotype specific. The codon usage preference similarity in N, P, and L gene might be detrimental for polymerase complex functioning. The study represents a comprehensive analysis to date of N, P, and L genes codon usage pattern of NDV and provides a basic understanding of the mechanisms for codon usage bias.

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Section: Discussionmentioning

confidence: 99%

Synonymous codon usage of genes in polymerase complex of Newcastle disease virus

Kumar

2017

J Basic Microbiol

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“…2013 (Khan et al, 2010;Munir et al, 2012a;Shabbir et al, 2013;Jakhesara et al, 2014;Gogoi et al, 2015). Viruses have been isolated from chickens with the exception of a single virus strain recovered from Japanese quail (Coturnix coturnix japonica) in India in 2003 .…”

Section: Sub-genotype Xiiib Viruses Have Been Recovered From India Anmentioning

confidence: 99%

Temporal, geographic, and host distribution of avian paramyxovirus 1 (Newcastle disease virus)

Dimitrov

Ramey

Qiu

et al. 2016

Infection, Genetics and Evolution

246

227

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Newcastle disease is caused by virulent forms of avian paramyxovirus of serotype 1 (APMV-1) and has global economic importance. The disease reached panzootic proportions within two decades after first being identified in 1926 in the United Kingdom and Indonesia and still remains endemic in many countries across the world. Here we review information on the host, temporal, and geographic distribution of APMV-1 genetic diversity based on the evolutionary systematics of the complete coding region of the fusion gene. Strains of APMV-1 are phylogenetically separated into two classes (class I and class II) and further classified into genotypes based on genetic differences. Class I viruses are genetically less diverse, generally present in wild waterfowl, and are of low virulence. Class II viruses are genetically and phenotypically more diverse, frequently isolated from poultry with occasional spillovers into wild birds, and exhibit a wider range of virulence. Waterfowl, cormorants, and pigeons are natural reservoirs of all APMV-1 pathotypes, except viscerotropic velogenic viruses for which natural reservoirs have not been identified. Genotypes I and II within class II include isolates of high and low virulence, the latter often being used as vaccines. Viruses of genotypes III and IX that emerged decades ago are now isolated rarely, but may be found in domestic and wild birds in China. Containing only virulent viruses and responsible for the majority of recent outbreaks in poultry and wild birds, viruses from genotypes V, VI, and VII, are highly mobile and have been isolated on different continents. Conversely, virulent viruses of genotypes XI (Madagascar), XIII (mainly Southwest Asia), XVI (North America) and XIV, XVII and XVIII (Africa) appear to have a more limited geographic distribution and have been isolated predominantly from poultry.

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“…[5][6][7][8] Among all listed issues of vaccine failures, antigenic variation in circulating strains is the most challenging. 6,9,10 Based on genetic variation and phylogenetic analysis among all isolates, NDV strains are categorized into XVI genotypes and two classes. Class 1 comprises of genotype I NDV strains, while class 2 contains genotypes II to XVI.…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization of an apoptotic strain of Newcastle disease virus isolated from an outbreak in India

Kumar

2015

Cancer Gene Ther

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Newcastle disease (ND) is a highly contagious disease of poultry. The ND virus (NDV) encodes an error-prone RNA-dependent RNA polymerase which can cause high mutation rate leading to the emergence of its new antigenic variants. Antigenic difference of NDV strains may result in massive outbreak in vaccinated and unvaccinated poultry flocks around the globe. Apart from its pathogenic potential NDV has been explored as an oncolytic agent for a broad range of human cancers. In the present study, we isolated a novel NDV strain from an outbreak in chicken flock from the eastern part of India. Molecular characterization showed the NDV strain to be virulent in nature. The complete genome sequence analysis of the newly isolated strains belongs to genotype XIII. Moreover, the newly isolated strain of NDV showed positive results in various apoptotic assays in human breast cancer cells, MCF-7. The study will be useful to explore the possibility of using a newly isolated strain of NDV for virotherapy.

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Complete Genome Sequence of a Newcastle Disease Virus Isolate from an Outbreak in Central India

Abstract: The complete genome sequence of a Newcastle disease virus (NDV) strain NDV/Chicken/Nagpur/01/12 was isolated from vaccinated chicken farms in India during outbreaks in 2012. The genome is 15,192 nucleotides in length and is classified as genotype VII in class II.

Cited by 13 publications

References 8 publications

Synonymous codon usage of genes in polymerase complex of Newcastle disease virus

Synonymous codon usage of genes in polymerase complex of Newcastle disease virus

Temporal, geographic, and host distribution of avian paramyxovirus 1 (Newcastle disease virus)

Molecular characterization of an apoptotic strain of Newcastle disease virus isolated from an outbreak in India

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