Nectarine Stem Pitting-associated Virus and Asian Prunus Virus Found in Prunus persica of Xinjiang

doi:10.16420/j.issn.0513-353x.2020-0215

Acta Horticulturae Sinica ›› 2021, Vol. 48 ›› Issue (1): 49-59.doi: 10.16420/j.issn.0513-353x.2020-0215

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Nectarine Stem Pitting-associated Virus and Asian Prunus Virus Found in Prunus persica of Xinjiang

BU Fangdi¹, CHEN Junguang¹, LIU Zhen², XIANG Benchun², SHEN Mian¹, CUI Baiming¹^,^*(), ZHENG Yinying¹^,^*()

¹College of Life Sciences,Shihezi University,Shihezi,Xinjiang 832003,China
²College of Agriculture,Shihezi University,Shihezi,Xinjiang 832003,China

Received:2020-06-02 Revised:2020-09-07 Online:2021-01-25 Published:2021-01-29
Contact: CUI Baiming,ZHENG Yinying E-mail:2247237543@qq.com;69825983@qq.com

Abstract

Abstract:

In this study,the High-throughput sequencing technology（HTS）was used to detect the virus infection of Prunus persica var. compressa. The peach leaves showing shot hole and chlorosis between leaf veins were collected to extract total RNA for HTS. A total of 13.36 Gb sequence data,including 44 563 187 paired reads,were obtained. The sequence alignment analysis showed that there were 9 943 and 40 036 paired reads belong to the genome of nectarine stem pitting-associated virus（NSPaV）（KT273409）and asian prunus virus（APV2）（KT893294）. The contigs of 4 978 nt and 9 393 nt with nearly completed coverage of viruses genome（10 and 7 bases missing at 5′ end,respectively）were assembled and the sequence identity with the genome sequence of NSPaV（KT273409）and APV2（KT893294）were 95.0% and 92.9% respectively. We named them as isolates NSPaV-Tao and APV2-Tao4.To confirm the result of HTS,23 samples of P. persica var. compressa were detected by the RT-PCR method for the infection of NSPaV and APV2. The results showed that the infection rate of NSPaV and APV2 was 43.5% and 69.6%,respectively. Moreover,NSPaV-Tao may be a recombination of other NSPaV isolates based on the nucleotide sequence comparison.

Key words: NSPaV, APV2, Prunus persica var. compressa, high-throughput sequencing, RT-PCR, sequence analysis

CLC Number:

S662.1

BU Fangdi, CHEN Junguang, LIU Zhen, XIANG Benchun, SHEN Mian, CUI Baiming, ZHENG Yinying. Nectarine Stem Pitting-associated Virus and Asian Prunus Virus Found in Prunus persica of Xinjiang[J]. Acta Horticulturae Sinica, 2021, 48(1): 49-59.

Figures/Tables 9

References 29

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病毒 Virus	登录号 Accession No.	寄主 Host	分离物 Isolate	序列长度/nt Nucleic acid length	国家 Country
NSPaV	KT273409	油桃Prunus persica var. nectarina	SF04522E	4 991	美国USA
	KT273410	油桃Prunus persica var. nectarina	12P42	4 991	美国USA
	MN095353	油桃Prunus persica var. nectarina	T04	4 991	中国China
	MF326520	桃Prunus persica	SK	4 991	韩国Korea
	NC027211	油桃Prunus persica var. nectarina	nectarine	4 991	美国USA
APV2	KR998048	桃Prunus persica	Q65a	9 393	美国USA
	KR998049	桃Prunus persica	Q86	9 400	美国USA
	KT893294	梅Prunus mume	Bungo Q-1256-01	9 362	日本Japan
	KT893295	梅Prunus mume	Bonsai	9 375	日本Japan
	KT893297	桃Prunus persica	Tatao25 Q-375-02	9 007	中国China
	KY310581	桃Prunus persica	BC	9 402	韩国Korea
	KY310582	桃Prunus persica	JH	9 393	韩国Korea
	KY445748	梅Prunus mume	WY	9 389	韩国Korea

病毒 Virus	登录号 Accession No.	寄主 Host	分离物 Isolate	序列长度/nt Nucleic acid length	国家 Country
NSPaV	KT273409	油桃Prunus persica var. nectarina	SF04522E	4 991	美国USA
	KT273410	油桃Prunus persica var. nectarina	12P42	4 991	美国USA
	MN095353	油桃Prunus persica var. nectarina	T04	4 991	中国China
	MF326520	桃Prunus persica	SK	4 991	韩国Korea
	NC027211	油桃Prunus persica var. nectarina	nectarine	4 991	美国USA
APV2	KR998048	桃Prunus persica	Q65a	9 393	美国USA
	KR998049	桃Prunus persica	Q86	9 400	美国USA
	KT893294	梅Prunus mume	Bungo Q-1256-01	9 362	日本Japan
	KT893295	梅Prunus mume	Bonsai	9 375	日本Japan
	KT893297	桃Prunus persica	Tatao25 Q-375-02	9 007	中国China
	KY310581	桃Prunus persica	BC	9 402	韩国Korea
	KY310582	桃Prunus persica	JH	9 393	韩国Korea
	KY445748	梅Prunus mume	WY	9 389	韩国Korea

分离物 Isolate	核苷酸 Nucleotide	5′ UTR	P1		P2		CP		CP-RT		3′ UTR
分离物 Isolate	核苷酸 Nucleotide	5′ UTR	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	3′ UTR
T04	96.0	90.9	95.7	98.2	94.5	98.3	97.5	97.6	96.6	97.4	94.6
SK	94.4	89.4	90.3	90.9	96.1	98.3	95.5	97.1	95.6	96.2	94.9
12P42	96.8	91.6	96.4	8.5	96.8	96.8	97.5	98.6	96.2	96.8	95.4
nectarina	94.8	88.6	94.4	96.1	96.0	97.9	96.8	96.2	94.2	93.9	95.0
SF04522E	95.0	86.3	95.1	96.4	96.0	98.5	97.0	97.1	94.4	94.1	95.0

分离物 Isolate	核苷酸 Nucleotide	5′ UTR	P1		P2		CP		CP-RT		3′ UTR
分离物 Isolate	核苷酸 Nucleotide	5′ UTR	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleotide	氨基酸Amino acid	3′ UTR
T04	96.0	90.9	95.7	98.2	94.5	98.3	97.5	97.6	96.6	97.4	94.6
SK	94.4	89.4	90.3	90.9	96.1	98.3	95.5	97.1	95.6	96.2	94.9
12P42	96.8	91.6	96.4	8.5	96.8	96.8	97.5	98.6	96.2	96.8	95.4
nectarina	94.8	88.6	94.4	96.1	96.0	97.9	96.8	96.2	94.2	93.9	95.0
SF04522E	95.0	86.3	95.1	96.4	96.0	98.5	97.0	97.1	94.4	94.1	95.0

分离物 Isolate	核苷酸 Nucleotide	5′ UTR	Rep		基因盒 Triple gene block						CP		3′ UTR
			Rep		TGB1		TGB2		TGB3		CP
			核苷酸Nucleotide	氨基酸Amino acid	核苷酸Nucleo- tide	氨基酸Amino acid	核苷酸Nucleo- tide	氨基酸Amino acid	核苷酸Nucleo- tide	氨基酸Amino acid	核苷酸Nucleo- tide	氨基酸Amino acid
BC	92.6	86.9	92.5	97.3	93.1	98.4	91.9	97.4	86.9	90.8	91.9	94.1	95.6
JH	92.8	96.3	92.4	97.3	93.0	98.4	92.7	97.4	93.0	97.0	91.7	94.4	95.7
WY	90.9	90.8	90.0	95.9	92.1	97.5	94.2	98.3	94.5	98.5	90.3	93.8	93.6
Q86	93.1	85.0	92.4	97.2	93.4	95.9	94.8	97.4	96.0	98.5	93.5	96.8	94.8
Q65a	79.1	83.4	77.7	89.1	78.1	89.6	83.7	92.1	83.9	80.0	78.0	84.3	88.0
Bonsai	93.0	82.0	92.8	97.2	93.4	97.1	93.0	98.3	95.0	95.4	92.9	95.3	93.1
BungoQ	92.9	86.9	92.3	96.8	93.9	98.4	94.8	98.3	96.0	98.5	92.7	94.4	95.6
Tatao25^*	89.4	-	87.4	91.5	93.9	98.0	94.8	98.3	96.0	98.5	93.3	95.0	95.3

Nectarine Stem Pitting-associated Virus and Asian Prunus Virus Found in Prunus persica of Xinjiang

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