Genome Sequence Analysis of Strawberry Virus 1 from Shandong Province，China

doi:10.16420/j.issn.0513-353x.2021-0934

Acta Horticulturae Sinica ›› 2023, Vol. 50 ›› Issue (1): 153-160.doi: 10.16420/j.issn.0513-353x.2021-0934

• Research Notes • Previous Articles Next Articles

Genome Sequence Analysis of Strawberry Virus 1 from Shandong Province，China

HE Chengyong¹^,^2,*, ZHAO Xiaoli^1,*, XU Tengfei¹, GAO Dehang¹, LI Shifang², WANG Hongqing^1,**()

¹College of Horticulture，China Agricultural University，Beijing 100193，China
²State Key Laboratory of Biology of Plant Diseases and Insect Pests，Institute of Plant Protection，Chinese Academy of Agricultural Sciences，Beijing 100193，China

Received:2022-08-25 Revised:2022-11-23 Online:2023-01-25 Published:2023-01-18
Contact: **（E-mail:wanghq@cau.edu.cn）

Abstract

Abstract:

Strawberry virus 1（StrV-1，genus Cytorhabdovirus，family Rhabdoviridae）was a new pathogen that infecting strawberry. The complete genome sequence of StrV-1 identified in strawberry （Fragaria ananassa Duch.‘All Star’）from Shandong Province，China（StrV-1-CN）was determined and submitted to the GenBank database under accession No. MW795715. In the negative strand，the 14 051-nucleotide-long viral genome with 181 and 767 nt in the 3' and 5' UTR，and contains nine open reading frames（ORFs）in the canonical order 3'-N-P'-P-P3-M-G-P6-P7-L-5'. Pairwise comparisons showed that StrV-1-CN shared 77%-88% sequence identity with StrV-1 isolates. Phylogenetic analysis based on the complete genome sequence of StrV-1 isolates showed that StrV-1-CN grouped with StrV-1 isolate B and isolate 1/2017 in a subcluster.

Key words: strawberry, strawberry virus 1, complete genome sequence, HTS

CLC Number:

S668.4

HE Chengyong, ZHAO Xiaoli, XU Tengfei, GAO Dehang, LI Shifang, WANG Hongqing. Genome Sequence Analysis of Strawberry Virus 1 from Shandong Province，China[J]. Acta Horticulturae Sinica, 2023, 50(1): 153-160.

Figures/Tables 6

Table 1 Primers used in this study

扩增片段 Fragment	引物名称 Primer name	引物序列（5′-3′） Primer sequence	引物位置 Position
F1	StrVp1	F:CATTACTGAAGCATTCCGTG R:AGATATCACGCACAGTGAC	98 ~ 117 1 259 ~ 1 241
F2	StrVp2	F:TTGCGCGAAGCGGATGTCCG	7 864 ~ 7 883
		R:GGCTGCCAGAGCGTTGGATG	9 368 ~ 9 387
F3	StrVp3	F:ATCGCAGAGACTTGTCGAT	11 677 ~ 11 695
		R:GACTTGGCATACTCTATTCC	12 275 ~ 12 256
F4	StrVp4	F:CAGAAGAGACAAGAGAACCG	13 070 ~ 13 089
		R:ATCTCTTTTTCGGAGTGCG	13 495 ~ 13 477
3'RACE	StrVp5	R:GTCGGCAGTTCCATCCGAATCAGGG	513 ~ 489
5'RACE	StrVp6	F:GGCACCAGGACATCCCAAACCGCCG	13 583 ~ 13 607

Fig. 1 Virus-like symptoms on naturally infected strawberry plants

Fig. 2 Amplification results of 5' RACE（A），3' RACE（B）and distribution of pairwise identity scores of the complete sequences of Strv-1 isolates（C）

Fig. 3 Schematic representation of the genome organization of StrV-1（A）and complementary structure between the 3' and 5' termini in the genome（B） Arrows indicate predicted open reading frames；F1-F4:RT-PCR products；contig1-contig5:de novo assembly contigs from HST.

Fig. 4 Phylogenetic tree calculated based on the N protein amino acid sequences of StrV-1 and representative members of the genus Cytorhabdovirus The diamond represents the isolate obtained in this study. The same below.

Fig. 5 Phylogenetic tree calculated based on the L protein amino acid sequences of StrV-1 and representative members of the genus Cytorhabdovirus

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Genome Sequence Analysis of Strawberry Virus 1 from Shandong Province，China

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