Unknown

Dataset Information

0

Intra-species recombination among strains of the ampelovirus Grapevine leafroll-associated virus 4.


ABSTRACT: BACKGROUND:Grapevine leafroll disease is one of the most economically important viral diseases affecting grape production worldwide. Grapevine leafroll-associated virus 4 (GLRaV-4, genus Ampelovirus, family Closteroviridae) is one of the six GLRaV species documented in grapevines (Vitis spp.). GLRaV-4 is made up of several distinct strains that were previously considered as putative species. Currently known strains of GLRaV-4 stand apart from other GLRaV species in lacking the minor coat protein. METHODS:In this study, the complete genome sequence of three strains of GLRaV-4 from Washington State vineyards was determined using a combination of high-throughput sequencing, Sanger sequencing and RACE. The genome sequence of these three strains was compared with corresponding sequences of GLRaV-4 strains reported from other grapevine-growing regions. Phylogenetic analysis and SimPlot and Recombination Detection Program (RDP) were used to identify putative recombination events among GLRaV-4 strains. RESULTS:The genome size of GLRaV-4 strain 4 (isolate WAMR-4), strain 5 (isolate WASB-5) and strain 9 (isolate WALA-9) from Washington State vineyards was determined to be 13,824 nucleotides (nt), 13,820?nt, and 13,850?nt, respectively. Multiple sequence alignments showed that a 11-nt sequence (5'-GTAATCTTTTG-3') towards 5' terminus of the 5' non-translated region (NTR) and a 10-nt sequence (5'-ATCCAGGACC-3') towards 3' end of the 3' NTR are conserved among the currently known GLRaV-4 strains. LR-106 isolate of strain 4 and Estellat isolate of strain 6 were identified as recombinants due to putative recombination events involving divergent sequences in the ORF1a from strain 5 and strain Pr. CONCLUSION:Genome-wide analyses showed for the first time that recombinantion can occur between distinct strains of GLRaV-4 resulting in the emergence of genetically stable and biologically successful chimeric viruses. Although the origin of recombinant strains of GLRaV-4 remains elusive, intra-species recombination could be playing an important role in shaping genetic diversity and evolution of the virus and modulating the biology and epidemiology of GLRaV-4 strains.

SUBMITTER: Adiputra J 

PROVIDER: S-EPMC6862812 | BioStudies | 2019-01-01

REPOSITORIES: biostudies

Similar Datasets

2012-01-01 | S-EPMC3568029 | BioStudies
2010-01-01 | S-EPMC2922190 | BioStudies
2011-01-01 | S-EPMC3198396 | BioStudies
2021-01-01 | S-EPMC7822351 | BioStudies
2013-01-01 | S-EPMC3828392 | BioStudies
2010-01-01 | S-EPMC2970810 | BioStudies
2015-01-01 | S-EPMC4436351 | BioStudies
2020-01-01 | S-EPMC7599845 | BioStudies
2020-01-01 | S-EPMC7472089 | BioStudies
2018-01-01 | S-EPMC6051638 | BioStudies