[an error occurred while processing this directive]

Hereditas(Beijing) ›› 2017, Vol. 39 ›› Issue (10): 918-929.doi: 10.16288/j.yczz.17-206

• Orginal Article • Previous Articles     Next Articles

A multigene phylogentic analysis of Potato virus Y and its application in strain identification

Wenchao Zou1(),Linlin Shen1,Jianguo Shen2,Wei Cai3,Jiasui Zhan1,4,Fangluan Gao1()   

  1. 1. Institute of Plant Virology, Fujian Agriculture and Forestry University/Key Laboratory of Plant Virology of Fujian Province, Fuzhou 350002, China
    2. Inspection & Quarantine Technology Center of Fujian Entry-Exit Inspection and Quarantine Bureau/Fujian Key Laboratory for Technology Research of Inspection and Quarantine, Fuzhou 350001, China;
    3. Comprehensive Technical Service Center of Fuqing Entry-Exit Inspection and Quarantine Bureau, Fuqing 350300, China
    4. Fujian-Taiwan Joint Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry University, Fuzhou 350002, China
  • Received:2017-06-13 Revised:2017-09-10 Online:2017-10-20 Published:2017-09-22
  • Supported by:
    China Agriculture Research System(CARS-10);National Key Research and Development Program(2016YFF0203203);Scientific and Technological Program of Fuqing(FQ201501)

RichHTML

7

PDF (PC)

727

Abstract:

The objective of this study is to develop a rapid and accurate multigene phylogenetic analysis to identify Potato virus Y (PVY) strains. The phylogenetic relationships of strains within the PVY species were evaluated with isolate-strain association using five datasets of concatenated sequences from the P1, HC-pro, VPg and CP genes to determine the best dataset for PVY strain identification. Results from phylogenetic analyses and Bayesian tip-association significance (BaTS) tests indicated that the major PVY strains could be distinguished using the P1, VPg and CP concatenated sequences datasets but not the remaining concatenated sequence datasets. Phylogenetic trees reconstructed from the concatenated sequences of P1, VPg and CP genes revealed that the ML and NJ trees had broadly similar topologies and that both were better than the maximum clade credibility tree (MCC). Additionally, the full genome of HLJ26, one isolate randomly selected for the multigene phylogenetic analysis, was clustered with high confidence among members of the PVY NTN-NW(SYR-Ⅱ) strain, which includes isolates of SYR-Ⅱ-2-8, SYR-Ⅱ-Be1 and SYR-Ⅱ-DrH. This suggests that it was a PVYNTN-NW(SYR-Ⅱ) isolate. Recombination analysis of this isolate identified four putative recombination joints in the P1, HC-pro/P3, VPg and the 5′-terminus of CP. This pattern is similar to that observed in the genomic structure of PVYNTN-NW (SYR-I), supporting the classification of this isolate as the PVYNTN-NWstrain (SYR-Ⅱ). Simultaneously, two expected fragments of approximately 1 000 and 400 bp in size were also amplified from the isolate by a multiplex RT-PCR, consistent with the expected band pattern of the PVYNTN-NW (SYR-Ⅱ) strain. This further supports the utility of the multigene phylogenetic method in identifying PVY strains. We propose that the major PVY strains could be distinguished accurately using multigene phylogenetic analysis based on the concatenated sequences from the P1, VPg and CP genes.

Key words: Potato virus Y, multigene phylogenetic analysis, phylogeny-trait association analysis, SYR-Ⅱgenotype