Study on genome recombination and reassortment events of tomato necrotic ringspot virus

Name: Jutarat Lidjun

LCSH: Kasetsart University -- Dissertations. Ph.D. (Agricultural Biotechnology) 2017

Classification :.LCCS: SB608.T75

LCSH: Kasetsart University. Interdisciplinary Graduate Program -- Dissertations

LCSH: Tomato -- Diseases and pests

LCSH: Genomes

LCSH: Tospovirus

Abstract: The wide spread of tospovirus diseases in vegetable crops has become increasingly important in many production area in Thailand. One of the most severe damage on pepper and tomato fruits was caused by Tomato necrotic ringspot virus, TNRV. The virus multiplies both in host plant and its thrips vector bodies. The heterogeneity of the natural occurrence of tospovirus population provides potential genetic reservoir for virus adaptation or overcome plant resistance. In the present study, three isolates of TNRV from pepper and tomato in Nakhon Pathom and Nong Khai provinces were newly characterized and analyzed for genetic variations. Isolate T91 from tomato induced yellow spot local lesion on Vigna unguiculata, while the other two isolates, CT1 and C94 from pepper did not. All isolates caused systemic mosaic symptoms on Datura metel. Nucleotide sequences of genomic RNA M and S were determined. Full length RNA S of the isolates C94, CT1 and T91 contained 3017, 3016 and 3015 nucleotides, respectively. Full length RNA M of the isolates C94, CT1 and T91 contained 4736, 4726 and 4724 nucleotides, respectively. RNA S shared 95.4-99.3% nucleotide identity among three isolates while RNA M shared 94.0-97.2% identity. Genomic RNA M and RNA S showed 95.1-99.2% and 95.4- 97.8% identity to the previous reported TNRV isolate, TT1, in Thailand. Sequence comparison revealed that RNA M and S shared 94.7-98.2% identity among four TNRV isolates, but shared only 58.2-76.7% identity to other reported tospoviruses. There was no evidence of genome reassortment for all TNRV isolates. In phylogenetic analysis, TNRV isolates clustered together while separated from clusters of other tospovirus species. The phylogenetic network was indicated among TNRV isolates. Analysis by using Recombination Detection Program, RDP4, revealed no possible recombination events for RNA S while the recombination event was found on RNA M of TNRV-C94 between nucleotide positions 1179 – 1229 of the intergenic region suggesting that TNRV-TT1 and T91 were major and minor parents, respectively. This result suggested that the RNA recombination was the potential origin of genetic variation among the studied TNRV isolates in the natural fields.

Kasetsart University. Office of the University Library

Address: Bangkok

Email: tdckulib@ku.ac.th

Name: Ratchanee Hongprayoon

Role: Thesis Advisor

Name: Pissawan Chiemsombat

Role: Thesis Co-Advisor

Created: 2017

Modified: 2023-06-16

Issued: 2023-06-16

วิทยานิพนธ์/Thesis

application/pdf

URL: https://kasetsart.idm.oclc.org/login?url=https://www.lib.ku.ac.th/KUthesis/2560/jutarat-lid-all.pdf

CallNumber: SB608.T75.J87

eng

DegreeName: Doctor of Philosophy

Level: Doctoral Degree

Descipline: Agricultural Biotechnology

Grantor: Kasetsart University

©copyrights Kasetsart University

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