Investigation of Rice Virus Diseases and Analysis of the Molecular Variation of RSV Isolates in the Main Rice-growing Areas of Yunnan Province from 2013 to 2014

doi:10.3969/j.issn.1001G7216.2015.05.011

Chinese Journal OF Rice Science ›› 2015, Vol. 29 ›› Issue (5): 535-545.DOI: 10.3969/j.issn.1001G7216.2015.05.011

• Orginal Article • Previous Articles Next Articles

Investigation of Rice Virus Diseases and Analysis of the Molecular Variation of RSV Isolates in the Main Rice-growing Areas of Yunnan Province from 2013 to 2014

Shui-ying ZHANG¹, Guan-lin TAN², Guo-min REN³, Mei-rong LI¹, Yue-yue LI¹, Ping-xiu LAN^1,⁴, Fu-rong GUI¹, Hai-ning WANG¹, Shu-sheng ZHU¹, Fan LI^1,^*()

¹Key Laboratory of Agricultural Biodiversity for Pest Management of Ministry of Education,Yunnan Agricultural University,Kunming 650201, China;
²Modern Education Technology Center,Yunnan Agricultural University,Kunming 650201,China;
³Plant Protection and Quarantine Station of Manshi, Manshi 678400, China
⁴College of Animal Science and Technology,Yunnan Agricultural University,Kunming 650201, China

Received:2014-12-02 Revised:2015-05-20 Online:2015-09-10 Published:2015-09-10
Contact: Fan LI
About author:
^*Corresponding author：E-mailfanlikm@126.com

2013-2014年云南主要稻区病毒病调查及RSV的分子变异

张水英¹, 谭冠林², 任国敏³, 李梅蓉¹, 李月月¹, 兰平秀^1,⁴, 桂富荣¹, 朱书生¹, 李凡^1,^*()

¹云南农业大学农业生物多样性与病虫害控制教育部重点实验室,昆明650201;
²云南农业大学现代教育技术中心,昆明650201
³云南省德宏州芒市植保植检站,云南芒市67840
³云南农业大学动物科学技术学院,昆明650201

通讯作者: 李凡
作者简介:
^*通讯录作者：E-mail:fanlikm@126.com
基金资助:
云南省教育厅科学研究基金重大专项(ZD2012005)云南省高校科技创新团队支持计划资助项目(云教科[2014]22号)

Abstract

Abstract:

Viral disease investigation in main rice planting areas in Yunnan Province from 2013 to 2014 showed that rice stripe disease, southern rice black-streaked dwarf disease, rice dwarf disease and rice ragged stunt disease were the four major viral diseases threaten rice production in Yunnan Province. Among them, rice stripe disease remained widely distributed in Yunnan with the incidence up to 15.0% in some fields followed by rice dwarf disease occurred in some areas with the highest incidence of 10.0%; and the average incidence of southern rice black-streaked dwarf disease was 5.3%; rice ragged stunt disease occurred with a low incidence. Molecular variation in rice stripe virus (RSV) isolates was analyzed based on the nucleotide sequence of intergenic region (IR) of RNA3 and RNA4. Phylogenetic analysis showed that all of Yunnan RSV isolates could be divided into two distinct clusters. The isolates from Japan, Korea and other provinces of China belonged to groupⅠ, whereas Yunnan isolates fell into both of the two groups and most of them form a distinct Yunnan population of group Ⅱ. The length of IR3 and IR4 varied with RSV isolates,which could be divided into three types of A, B and C according to the difference in the length per 10 nucleotides. Recombination might be occurred during the evolutionary process of RSV since 17 to 21 nucleotides of IR3 and IR4 of some Yunnan isolates shared some identical sequence with their host plants, rice, wheat or barley. We supposed that the high molecular variation of IR3 and IR4 in Yunnan isolates might result from the special geographical and ecological conditions in Yunnan Province.

Key words: rice virus disease, rice stripe virus, intergenic region, molecular variation

摘要：

于2013-2014连续两年对云南主要水稻种植区的水稻病毒病进行了调查,发现当前为害云南水稻的病毒病主要有水稻条纹叶枯病、南方水稻黑条矮缩病、水稻矮缩病和水稻齿叶矮缩病。其中,条纹叶枯病是当前为害云南水稻最严重的病毒病,部分田块最高发病率可达15.0%;其次是水稻矮缩病,调查田块最高发病率达10.0%;南方水稻黑条矮缩病的平均发病率达5.3%;水稻齿叶矮缩病只在局部地区发生且发病率都不高。对云南当前发生较普遍的RSV不同分离物RNA3基因间隔区(IR3)及RNA4基因间隔区(IR4)开展了分子变异分析。根据不同RSV分离物IR3、IR4核苷酸序列构建系统进化树,所分析的RSV分离物均可被划分为两个组,部分云南分离物和云南以外的中国、日本、韩国分离物聚在Ⅰ组,其余绝大多数云南分离物单独聚在Ⅱ组。不同RSV分离物的IR3和IR4长度差异较大,按每10个核苷酸的长度差异进行划分,均可划分为A、B、C三种不同的类型。部分RSV云南分离物IR3、IR4中有17-21nt的序列与其水稻、小麦和大麦等寄主的部分序列相同,这可能是病毒在进化过程中与寄主植物发生了重组。云南RSV分离物的IR3、IR4分子变异较大,可能与其特殊的地理、生态条件有一定的相关性。

关键词: 水稻病毒病, 水稻条纹病毒, 基因间隔区, 分子变异

CLC Number:

S435.111.4⁺9

Shui-ying ZHANG, Guan-lin TAN, Guo-min REN, Mei-rong LI, Yue-yue LI, Ping-xiu LAN, Fu-rong GUI, Hai-ning WANG, Shu-sheng ZHU, Fan LI. Investigation of Rice Virus Diseases and Analysis of the Molecular Variation of RSV Isolates in the Main Rice-growing Areas of Yunnan Province from 2013 to 2014[J]. Chinese Journal OF Rice Science, 2015, 29(5): 535-545.

张水英, 谭冠林, 任国敏, 李梅蓉, 李月月, 兰平秀, 桂富荣, 朱书生, 李凡. 2013-2014年云南主要稻区病毒病调查及RSV的分子变异[J]. 中国水稻科学, 2015, 29(5): 535-545.

Figures/Tables 7

References 21

[1]	何家泌. 水稻病毒病的种类、分布及其特性. 河南农业科学,1999(11): 16-21.
[2]	白雪亮,王金菊,周维, 等. 水稻条纹叶枯病的研究进展. 生物学通报,2007,42(8): 4-6.
[3]	周益军,李硕,程兆榜, 等. 中国水稻条纹叶枯病研究进展. 江苏农业学报,2012,28(5): 1007-1015.
[4]	吴维,龙亚芹,李凡,等. 云南水稻条纹病毒致病性分化及水稻品种抗病性鉴定. 云南农业大学学报,2012, 27(5): 653-657.
[5]	魏太云,林含新,吴祖建,等. 水稻条纹病毒RNA4基因间隔区的分子变异. 病毒学报,2001,17(2): 144-149.
[6]	程文金. 水稻条纹病毒RNA4基因间隔区分子变异与致病性关系. 福州:福建农林大学,2005.
[7]	章松柏,吴祖建,段永平,等. 水稻矮缩病毒的检测和介体传毒能力初步分析. 安徽农业科学,2005,33(12): 2263-2264,2287.
[8]	朱勇,李婷婷,董家红,等. 云南水稻矮缩病毒病调查检测初报. 西南农业学报,2011,24(6): 2181-2184.
[9]	周国辉,温锦君,蔡德江,等. 呼肠孤病毒科斐济病毒属一新种: 南方水稻黑条矮缩病毒. 科学通报,2008,53(20): 2500-2508.
[10]	丁铭,尹跃艳,方琦,等. 云南水稻上检测到南方水稻黑条矮缩病毒. 植物病理学报,2011,41(6): 640-644.
[11]	胡秀弟,朱静,吴文斗,等. 南方水稻黑条矮缩病毒S9 片段基因编码产物的生物信息学分析. 中国农学通报,2013,29(6): 12-19.
[12]	谢联辉,林奇英. 锯齿叶矮缩病毒在我国水稻上的发现. 植物病理学报,1980,10(1): 59-64.
[13]	Li R,Mock R,Huang Q,et al.A reliable and inexpensive method of nucleic acid extraction for the PCR-based detection of diverse plant pathogens.J Virol Methods,2008,154: 48-55.
[14]	龙亚芹,王万东,李凡,等. 云南水稻条纹病毒RNA3的分子变异及遗传多样性分析. 西南农业学报,2011,24(2): 570-574.
[15]	李凡,杨金广,吴祖建,等. 水稻条纹病毒云南分离物CP基因克隆及序列比较分析. 云南农业大学学报,2006,21(1): 48-51.
[16]	Wei T Y,Yang J G,Liao F L,et al.Genetic diversity and population structure of rice stripe virus in China.J General Virol,2009,90(4): 1025-1034.
[17]	魏太云,林含新,吴祖建,等. 水稻条纹病毒RNA4基因间隔区序列分析——混合侵染及基因组变异证据. 微生物学报,2003,43(5): 577-585.
[18]	Huang L Z,Rao L X,Zhou X P,et al.Genetic variability and evolution of rice stipe virus. J Zhejiang Univer: Biomed Biotechnol,2013,14(10): 875-885.
[19]	Frail A,Alonso-Prados J L,Aranda M A,et al. Genetic exchange by recombination or reassortment is infrequent in natural populations of a tripartite RNA plant virus.J Virol,1997,71(2): 934-940.
[20]	Heinza C,Willingmann P,Schwach F,et al.An unusual large interenic region in the S-RNA of a Bulgarian tomato spotted wilt virus isolate.Arch Virol,2003,148(1): 199-205.
[21]	Uyeda I,Ando Y, Murao K,et al.High resolution genome typing and genomic reassortment events of rice dwarf phytoreovirus.Virology,1995,212(2): 724-727.

引物 Primer	序列(5'-3') Sequence(5'-3')	退火温度 Annealing temperature/℃	目标条带大小 Size of product/nt	目标病毒 Target virus
RSV3CPF	GATGCTGTCTTTGAAGTGTTC	52	440	RSV
RSV3CPR	CAACTTACTGTGGGACTATG	52
RDV12dF1	CTTTGAAGCGAAGCGGGTC	55	871	RDV
RDV12dR1	CAGATCGTGAGCTACTCCC	55
SRBSDV10dF	GTGATTTGTCAGCATCTAA	48	470	SRBSDV
SRBSDV10dR	GTTGCGAATAAACTTAAA	48
RRSV10dF1	CGCAAGACAAGGCAAGACTG	55	833	RRSV
RRSV10dR1	CCAAAGTTAGCCACCTCGC	55

引物 Primer	序列(5'-3') Sequence(5'-3')	退火温度 Annealing temperature/℃	目标条带大小 Size of product/nt	目标病毒 Target virus
RSV3CPF	GATGCTGTCTTTGAAGTGTTC	52	440	RSV
RSV3CPR	CAACTTACTGTGGGACTATG	52
RDV12dF1	CTTTGAAGCGAAGCGGGTC	55	871	RDV
RDV12dR1	CAGATCGTGAGCTACTCCC	55
SRBSDV10dF	GTGATTTGTCAGCATCTAA	48	470	SRBSDV
SRBSDV10dR	GTTGCGAATAAACTTAAA	48
RRSV10dF1	CGCAAGACAAGGCAAGACTG	55	833	RRSV
RRSV10dR1	CCAAAGTTAGCCACCTCGC	55

采集地点 Collection areas	采集时间 Collection time	调查品种 Investigation cultivar	调查面积 Investigation area/×667m²	病害种类及发病率 Types and incidence of disease/%
采集地点 Collection areas	采集时间 Collection time	调查品种 Investigation cultivar	调查面积 Investigation area/×667m²	RSV	RDV	RRSV	SRBSDV
楚雄州禄丰县 Lufeng County,Chuxiong Prefecture	2013	楚粳27,39,43号 Chujing 27, 39,43	5	11	0	0	0
楚雄州姚安县 Yao'an County,Chuxiong Prefecture	2013	楚粳28 Chujing 28	2	1.8	0	0	0
楚雄州元谋县 Yuanmou County,Chuxiong Prefecture	2013	楚粳系列 Chujing series	4	1	0	0	0
楚雄州楚雄市 Chuxiong City,Chuxiong Prefecture	2014	-	2	0	0	0	0
保山市施甸县 Shidian County,Baoshan City	2013	两优2168,大喜谷 Liangyou 2168, Daxigu	3	2.6	0	0	0
		两优2168,大喜谷 Liangyou 2168, Daxigu	4	4.7	0	0	0
		丰优香占,两优2186 Fengyouxiangzhan, Liangyou 2186	2	0	0	3	5.5
保山市施甸县 Shidian County,Baoshan City	2014	楚粳29,30,大喜谷 Chujing 29,30,Daxigu	6	3	0	0	0
		两优2168,1259,德农211,大喜谷 Liangyou 2168,1259, Denong 211,Daxigu	5	6.4	0	0	0
保山市隆阳区 Longyang District,Baoshan City	2013	滇优、岫粳和楚粳系列 Dianyou,Xiujing and Chujing Series	2	1.8	0	0	0
	2014	滇优、岫粳和楚粳系列 Dianyou,Xiujing and Chujing series	3	3.2	0	0	0
大理州大理市 Dali City,Dali Prefecture	2013	楚粳、滇杂和凤稻系列 Chujing, Dianza and Fengdao series	3	1.5	0	0	0
	2014	楚粳28 Chujing 28	2	1	0	0	0
昆明市寻甸县 Xundian County,Kunming City	2013	楚粳,滇杂,楚恢系列 Chujing, Dianza and Chuhui series	4	15	10	0	0
	2014	楚粳28 Chujing 28	5	1	2	0	0
昆明市嵩明县 Songming County,Kunming City	2013	-	4	2	6	0	0
玉溪市红塔区 Hongta District,Yuxi City	2013	-	3	0	0	0	0
玉溪市江川县 Jiangchuan County,Yuxi City	2013	-	2	0	0	0	0
德宏州芒市 Mangshi City,Dehong Prefecture	2014	-	4	0	0	0	5

采集地点 Collection areas	采集时间 Collection time	调查品种 Investigation cultivar	调查面积 Investigation area/×667m²	病害种类及发病率 Types and incidence of disease/%
采集地点 Collection areas	采集时间 Collection time	调查品种 Investigation cultivar	调查面积 Investigation area/×667m²	RSV	RDV	RRSV	SRBSDV
楚雄州禄丰县 Lufeng County,Chuxiong Prefecture	2013	楚粳27,39,43号 Chujing 27, 39,43	5	11	0	0	0
楚雄州姚安县 Yao'an County,Chuxiong Prefecture	2013	楚粳28 Chujing 28	2	1.8	0	0	0
楚雄州元谋县 Yuanmou County,Chuxiong Prefecture	2013	楚粳系列 Chujing series	4	1	0	0	0
楚雄州楚雄市 Chuxiong City,Chuxiong Prefecture	2014	-	2	0	0	0	0
保山市施甸县 Shidian County,Baoshan City	2013	两优2168,大喜谷 Liangyou 2168, Daxigu	3	2.6	0	0	0
		两优2168,大喜谷 Liangyou 2168, Daxigu	4	4.7	0	0	0
		丰优香占,两优2186 Fengyouxiangzhan, Liangyou 2186	2	0	0	3	5.5
保山市施甸县 Shidian County,Baoshan City	2014	楚粳29,30,大喜谷 Chujing 29,30,Daxigu	6	3	0	0	0
		两优2168,1259,德农211,大喜谷 Liangyou 2168,1259, Denong 211,Daxigu	5	6.4	0	0	0
保山市隆阳区 Longyang District,Baoshan City	2013	滇优、岫粳和楚粳系列 Dianyou,Xiujing and Chujing Series	2	1.8	0	0	0
	2014	滇优、岫粳和楚粳系列 Dianyou,Xiujing and Chujing series	3	3.2	0	0	0
大理州大理市 Dali City,Dali Prefecture	2013	楚粳、滇杂和凤稻系列 Chujing, Dianza and Fengdao series	3	1.5	0	0	0
	2014	楚粳28 Chujing 28	2	1	0	0	0
昆明市寻甸县 Xundian County,Kunming City	2013	楚粳,滇杂,楚恢系列 Chujing, Dianza and Chuhui series	4	15	10	0	0
	2014	楚粳28 Chujing 28	5	1	2	0	0
昆明市嵩明县 Songming County,Kunming City	2013	-	4	2	6	0	0
玉溪市红塔区 Hongta District,Yuxi City	2013	-	3	0	0	0	0
玉溪市江川县 Jiangchuan County,Yuxi City	2013	-	2	0	0	0	0
德宏州芒市 Mangshi City,Dehong Prefecture	2014	-	4	0	0	0	5

分离物 Isolates	登录号 Accession number	分离地点 Geographical origin	IR长度 IR lengths/nt	类型 Type	分离物 Isolates	登录号 Accession number	分离地点 Geographical origin	IR长度 IR length/nt	类型 Type
T	X53563	日本Japan	742	C	YCX05	Y11095	云南楚雄Chuxiong,Yunnan	749	C
M	D01094	日本Japan	713	A	KM	AF508912	云南昆明Kunming,Yunnan	735	B
GS-JB16	HQ343289	韩国Korea	719	A	YYL	FM242704	云南宜良Yiliang,Yunnan	728	B
SC-CN70	HQ343293	韩国Korea	717	A	YWD07	EU931508	云南武定Wuding,Yunnan	748	C
AB1-JB	FJ602675	韩国Korea	732	B	YQJ07	EU931504	云南曲靖Qujing,Yunnan	746	C
YG-JN	FJ602687	韩国Korea	729	B	YBS07	EU931500	云南保山Baoshan,Yunnan	728	B
SC-CN	FJ602683	韩国Korea	733	B	YCX07	EU931496	云南楚雄Chuxiong,Yunnan	734	B
TA-CN5	HQ343294	韩国Korea	717	A	YL	AF508913	云南宜良Yiliang,Yunnan	727	B
JiangY10	JQ927422	江苏Jiangshu	716	A	YWS	FM242703	云南巍山Weishan,Yunnan	727	B
HuZ10	JQ927421	浙江Zhejiang	720	A	DaL08	JQ927420	云南大理Dali,Yunnan	727	B
JY	EF141329	江苏Jiangshu	714	A	KunM08	JQ927423	云南昆明Kunming,Yunnan	728	B
Zhejiang	DQ333944	浙江Zhejiang	714	A	BSh04	AJ875061	云南保山Baoshan,Yunnan	710	A
HKF07	EU931520	河南Henan	719	A	FYi04	AJ875058	云南凤仪Fengyi,Yunnan	710	A
ABB07	EU931524	安徽Anhui	719	A	DYa04	AJ875062	云南大姚Dayao,Yunnan	725	B
SJN07	EU931512	山东Shandong	717	A	▲YLFe10	KP083234	云南禄丰Lufeng,Yunnan	746	C
SD-JN2	DQ108406	山东Shandong	725	B	▲YSMi6	KP083236	云南嵩明Songming,Yunan	740	C
LiaoN08	JQ927424	辽宁Liaoning	718	A	▲YYAn9	KP083237	云南姚安Yaoan,Yunnan	732	B
JSu1	KP083238	江苏Jiangshu	720	A	▲YSDi28	KP083235	云南施甸Shidian,Yunnan	741	C
LLi04	AJ875059	云南陆良Luliang,Yunnan	727	B	▲YCXi8	KP083239	云南楚雄Chuxiong,Yunna	746	C
FMi04	AJ875057	云南富民Fuming,Yunnan	734	B	Yan04	AJ875060	云南姚安Yaoan,Yunnan	726	B

Investigation of Rice Virus Diseases and Analysis of the Molecular Variation of RSV Isolates in the Main Rice-growing Areas of Yunnan Province from 2013 to 2014

2013-2014年云南主要稻区病毒病调查及RSV的分子变异

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References 21

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分离物 Isolate			IR长度 IR length/nt	类型 Type	分离物 Isolate	登录号 Accession number	分离地点 Geographical origin	IR长度 IR length/nt	类型 Type
T	D10979	日本Japan	654	B	BSh04	AJ871748	云南保山Baoshan,Yunnan	733	C
M	D01039	日本Japan	634	A	FMi04	AJ871752	云南富民Fuming,Yunnan	738	C
AD-JJ	FJ602697	韩国Korea	654	B	DYa04	AJ871751	云南大姚Dayao,Yunnan	732	C
SC-CN	FJ602696	韩国Korea	655	B	FYi04	AJ875055	云南凤仪Fengyi,Yunnan	734	C
BA1-JB	FJ602688	韩国Korea	652	B	DLi04	AJ871750	云南大理Dali,Yunnan	733	C
YG-JN	FJ602700	韩国Korea	654	B	Yan04	AJ871755	云南姚安Yaoan,Yunnan	734	C
LiaoN08	JQ927418	辽宁Liaoning	635	A	YQJ07	EU931505	云南曲靖Qujing,Yunnan	731	C
JSu1	KP083246	江苏Jiangsu	636	A	LLi04	AJ875056	云南陆良Luliang,Yunnan	731	C
HuZ10	JQ927415	浙江Zhejiang	654	B	YWD07	EU931509	云南武定Wuding,Yunnan	730	C
JY	EF141330	江苏Jiangsu	655	B	YYL	FM242706	云南宜良Yiliang,Yunnan	736	C
HZ	AF513505	江苏Jiangsu	654	B	LQu04	AJ871753	云南禄劝Luquan,Yunnan	731	C
JiangY10	JQ927416	江苏 Jiangsu	636	A	YBS07	EU931501	云南保山Baoshan,Yunnan	735	C
HKF07	EU931521	河南Henan	652	B	DL	AY185502	云南大理Dali,Yunnan	634	A
ABB07	EU931525	安徽Anhui	654	B	DaL08	JQ927414	云南大理Dali,Yunnan	737	C
SD-JN2	EF538684	山东Shandong	654	B	▲YLFe10	KP083241	云南禄丰Lufeng,Yunnan	733	C
SJN07	EU931513	山东Shandong	636	A	▲YYAn9	KP083245	云南姚安Yaoan,Yunnan	733	C
JYC07	EU931517	中国China	657	B	▲YSDi26	KP083242	云南施甸Shidian,Yunnan	737	C
SQ	AF221835	中国China	654	B	▲YDLi25	KP083240	云南大理Dali,Yunnan	729	C
BS	AF221830	云南保山Baoshan,Yunnan	654	B	▲YSDi28	KP083243	云南施甸Shidian,Yunnan	735	C
YWS	FM242705	云南巍山Weishan,Yunnan	737	C	▲YCXi8	KP083247	云南楚雄Chuxiong,Yunnan	731	C
CXi04	AJ871749	云南楚雄Chuxiong,Yunnan	733	C	▲YSMi6	KP083244	云南嵩明Songming,Yunnan	731	C
CX	AY185501	云南楚雄Chuxiong,Yunnan	634	A	YR	AY185500	云南永仁Yongren,Yunnan	732	C
YCX07	EU931497	云南楚雄Chuxiong,Yunnan	730	C	KunM08	JQ927417	云南昆明Kunming,Yunnan	736	C
KM	AY185499	云南昆明Kunming,Yunnan	732	C	YCX05	Y11096	云南楚雄Chuxiong,Yunnan	732	C

[1]	Ting MAO, Xu LI, Zhan ZHANG, Li-dong FU, Zhen-yu LI. Development of Functional Marker for Rice stripe virus Resistant Gene STV11 and Resistant Germplasm Selection in japonica Rice [J]. Chinese Journal OF Rice Science, 2016, 30(6): 661-667.
[2]	FAN Fangjun, YANG Jie*, WANG Jun, ZHU Jinyan, LI Wenqi, ZHONG Weigong. Correlation Between Rice Stripe Resistance and indicajaponica Differentiation [J]. Chinese Journal of Rice Science, 2013, 27(5): 553-558.
[3]	XIAO Dong-lai,JIA Dong-sheng,WU Jian-guo,DU Zhen-guo,XIE Li-yan,WU Zu-jian,XIE Lian-hui . Interaction Between Rice Stripe Virus NS3 Protein and Glyceraldehyde-3-Phosphate Dehydrogenase(GAPDH) of Rice [J]. Chinese Journal of Rice Science, 2010, 24(5): 493-496 .