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Complete genome sequence of an isolate of leek yellow stripe virus from garlic in India

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Title Complete genome sequence of an isolate of leek yellow stripe virus from garlic in India
 
Creator Nitika Gupta, Sabina Islam, Susheel Kumar Sharma, V. K. Baranwal
 
Subject Genome Sequencing, Sequence analysis
Leek yellow stripe virus
Variability, Purifying selection
 
Description Not Available
The complete genome sequence of leek yellow stripe
virus (LYSV) isolate AC-50 from garlic in India was determined
and the predicted amino acid (aa) sequence was
analyzed. The LYSV RNA genome is 10,131 nucleotides
(nt) long excluding the poly(A) tail (KP168261) and has a
large open reading frame (ORF) encoding a putative polyprotein
of 3152 aa with conserved motifs typical of members
of the genus Potyvirus in the family Potyviridae. The
pretty interesting Potyviridae ORF (PIPO) coding region
was identified in the P3 coding region. LYSV isolate AC-50
shares maximum nt and aa sequence identity of 79.9% and
87.2% with a LYSV isolate from Australia (HQ258895) at
the full genome and polyprotein level, respectively, and
clusters with clade II isolates from China, Mexico, Australia,
Brazil and Spain. The P1 coding region of isolate
AC-50 was highly variable with an identity range of 48.9-
70.9% with other LYSV isolates and a deletion of 204 nt
compared to Japanese and Australian isolates. The ratio of
nonsynonymous (dN) and synonymous (dS) polymorphic
sites suggested that purifying selection dominates in the
evolution of LYSV and the mean dN/dS ratio was highest
for P1, confirming that this coding region is under less
evolutionary constraints.
 
Date 2020-02-20T03:30:15Z
2020-02-20T03:30:15Z
2017-08-10
 
Type Article
 
Identifier 4. Nitika Gupta, S. Islam, S.K. Sharma, V.K. Baranwal (2017). Complete genome sequence of an isolate of Leek yellow stripe virus from garlic in India. Journal of Plant Pathology. 99(3): 793-797.
Not Available
http://krishi.icar.gov.in/jspui/handle/123456789/32113
 
Language English
 
Publisher Journal of Plant Pathology