Acta Horticulturae Sinica ›› 2024, Vol. 51 ›› Issue (1): 203-212.doi: 10.16420/j.issn.0513-353x.2023-0170
• Plant Protection • Previous Articles Next Articles
GUAN Xiayu1,2, CHEN Xihong3, GUO Jing3, LÜ Haoyang1, LIANG Chenyuan1, GAO Fangluan1,*()
Received:
2023-05-11
Revised:
2023-08-30
Online:
2024-01-25
Published:
2024-01-16
Contact:
(E-mail:GUAN Xiayu, CHEN Xihong, GUO Jing, LÜ Haoyang, LIANG Chenyuan, GAO Fangluan. Genetic Variability and Host Adaption of Cymbidium Mosaic Virus[J]. Acta Horticulturae Sinica, 2024, 51(1): 203-212.
Add to citation manager EndNote|Ris|BibTeX
URL: https://www.ahs.ac.cn/EN/10.16420/j.issn.0513-353x.2023-0170
寄主 Host | 采样省份 Location | 分离物 Isolate | GenBank 登录号 Accession No. | 寄主 Host | 采样省份 Location | 分离物 Isolate | GenBank 登录号 Accession No. | |
---|---|---|---|---|---|---|---|---|
国兰 Cymbidium sinense | 福建Fujian | CHN-FJZZ12 | DQ067878 | 蝴蝶兰 Phalaenopsis aphrodite | 河南Henan | CHN-HNZZ02 | KU873001 | |
CHN-FJZZ13 | DQ067879 | 蕙兰C. faberi | 西藏Tibet | C-LZ02 | KP137368 | |||
湖北Hubei | CHN-HBWH21 | DQ067880 | C-LZ06 | KP137369 | ||||
CHN-HBWH22 | DQ067881 | C-LZ14 | KP137370 | |||||
浙江Zhejiang | CHN-ZJHZ52 | DQ067882 | C-LZ18 | KP137371 | ||||
CHN-ZJHZ61 | DQ067883 | C-LZ21 | KP137372 | |||||
CHN-ZJHZ62 | DQ067884 | 石斛兰 Dendrobium nobile | 中国台湾 Taiwan,China | CyMV-1 * | OQ615774 | |||
CHN-ZJHZ63 | DQ067885 | CyMV-2 * | OQ615782 | |||||
CHN-ZJHZ67 | DQ067886 | CyMV-3 * | OQ615783 | |||||
CHN-ZJHZ69 | DQ067887 | CyMV-4 * | OQ615784 | |||||
CHN-ZJHZ612 | DQ067888 | CyMV-5 * | OQ615785 | |||||
蝴蝶兰 Phalaenopsis aphrodite | 浙江Zhejiang | CyMV-hangzhou | AM398153 | CyMV-6 * | OQ615786 | |||
CrMV-HZ | DQ915439 | CyMV-7 * | OQ615787 | |||||
福建Fujian | xm | GQ507023 | CyMV-8 * | OQ615788 | ||||
江苏Jiangsu | CrMV-NJ-1 | JQ860108 | CyMV-9 * | OQ615789 | ||||
广东Guangdong | FS2 | KF853247 | CyMV-10 * | OQ615775 | ||||
FS3 | KF853248 | CyMV-11 * | OQ615776 | |||||
FS4 | KF853249 | CyMV-12 * | OQ615777 | |||||
FS5 | KF853250 | CyMV-13* | OQ615778 | |||||
GZ1 | KF853251 | CyMV-14 * | OQ615779 | |||||
CH | KF853252 | CyMV-15 * | OQ615780 | |||||
GZ2 | KF853253 | CyMV-16 * | OQ615781 | |||||
GZ3 | KF853254 | 广东Guangdong | ZHD1 | EU672821 | ||||
FS6 | KF853255 | 建兰 C. ensifolium | 浙江Zhejiang | ZJXTHC1 | GU295167 | |||
ZH1 | KF853256 | 四川Sichuan | SCJJC7 | GU295168 | ||||
ZH2 | KF853257 | SCDXZC4 | GU295172 | |||||
FS7 | KF853258 | 广东 Guangdong | GZKTLC6 | GU295170 | ||||
FS8 | KF853259 | GDDHLC5 | GU295173 | |||||
FS9 | KF853260 | 北京 Beijing | BJKTLC3 | GU295169 | ||||
FS10 | KF853261 | 云南 Yunnan | KMMLC2 | GU295171 | ||||
SZ1 | KF853262 | 墨兰 C. haematodes | 广东 Guangdong | gd2 | AY360409 | |||
SZ2 | KF853263 | gd3 | AY360410 | |||||
SZ3 | KF853264 | 中国台湾 Taiwan,China | CrMV-CS | AY429021 | ||||
SZ4 | KF853265 | Taiwan,China | AY571289 |
Table 1 CymMV isolates used in this study
寄主 Host | 采样省份 Location | 分离物 Isolate | GenBank 登录号 Accession No. | 寄主 Host | 采样省份 Location | 分离物 Isolate | GenBank 登录号 Accession No. | |
---|---|---|---|---|---|---|---|---|
国兰 Cymbidium sinense | 福建Fujian | CHN-FJZZ12 | DQ067878 | 蝴蝶兰 Phalaenopsis aphrodite | 河南Henan | CHN-HNZZ02 | KU873001 | |
CHN-FJZZ13 | DQ067879 | 蕙兰C. faberi | 西藏Tibet | C-LZ02 | KP137368 | |||
湖北Hubei | CHN-HBWH21 | DQ067880 | C-LZ06 | KP137369 | ||||
CHN-HBWH22 | DQ067881 | C-LZ14 | KP137370 | |||||
浙江Zhejiang | CHN-ZJHZ52 | DQ067882 | C-LZ18 | KP137371 | ||||
CHN-ZJHZ61 | DQ067883 | C-LZ21 | KP137372 | |||||
CHN-ZJHZ62 | DQ067884 | 石斛兰 Dendrobium nobile | 中国台湾 Taiwan,China | CyMV-1 * | OQ615774 | |||
CHN-ZJHZ63 | DQ067885 | CyMV-2 * | OQ615782 | |||||
CHN-ZJHZ67 | DQ067886 | CyMV-3 * | OQ615783 | |||||
CHN-ZJHZ69 | DQ067887 | CyMV-4 * | OQ615784 | |||||
CHN-ZJHZ612 | DQ067888 | CyMV-5 * | OQ615785 | |||||
蝴蝶兰 Phalaenopsis aphrodite | 浙江Zhejiang | CyMV-hangzhou | AM398153 | CyMV-6 * | OQ615786 | |||
CrMV-HZ | DQ915439 | CyMV-7 * | OQ615787 | |||||
福建Fujian | xm | GQ507023 | CyMV-8 * | OQ615788 | ||||
江苏Jiangsu | CrMV-NJ-1 | JQ860108 | CyMV-9 * | OQ615789 | ||||
广东Guangdong | FS2 | KF853247 | CyMV-10 * | OQ615775 | ||||
FS3 | KF853248 | CyMV-11 * | OQ615776 | |||||
FS4 | KF853249 | CyMV-12 * | OQ615777 | |||||
FS5 | KF853250 | CyMV-13* | OQ615778 | |||||
GZ1 | KF853251 | CyMV-14 * | OQ615779 | |||||
CH | KF853252 | CyMV-15 * | OQ615780 | |||||
GZ2 | KF853253 | CyMV-16 * | OQ615781 | |||||
GZ3 | KF853254 | 广东Guangdong | ZHD1 | EU672821 | ||||
FS6 | KF853255 | 建兰 C. ensifolium | 浙江Zhejiang | ZJXTHC1 | GU295167 | |||
ZH1 | KF853256 | 四川Sichuan | SCJJC7 | GU295168 | ||||
ZH2 | KF853257 | SCDXZC4 | GU295172 | |||||
FS7 | KF853258 | 广东 Guangdong | GZKTLC6 | GU295170 | ||||
FS8 | KF853259 | GDDHLC5 | GU295173 | |||||
FS9 | KF853260 | 北京 Beijing | BJKTLC3 | GU295169 | ||||
FS10 | KF853261 | 云南 Yunnan | KMMLC2 | GU295171 | ||||
SZ1 | KF853262 | 墨兰 C. haematodes | 广东 Guangdong | gd2 | AY360409 | |||
SZ2 | KF853263 | gd3 | AY360410 | |||||
SZ3 | KF853264 | 中国台湾 Taiwan,China | CrMV-CS | AY429021 | ||||
SZ4 | KF853265 | Taiwan,China | AY571289 |
Fig. 3 Phylogenetic tree reconstructed from the CP gene sequence of CymMV Numbers above branches indicate the bootstrap values(only shown > 50%),and CymMV isolates from different host species are indicated by circles with differences in colours.
Fig. 4 Results from the discriminant analysis of principal components(DAPC) A:Scatterplots for 68 CymMV isolates; B:Scatterplots for CymMV isolates within Cluster 2.
簇 Cluster | 亚簇 Subcluster | 样本量大小 Sample size | 单倍型 Haplotypes | 单倍型多样性Hd Haplotype diversity | 核苷酸多样性Pi Nucleotide diversity |
---|---|---|---|---|---|
1 | 7 | 3 | 0.524 ± 0.209 | 0.002 ± 0.009 | |
2 | 61 | 53 | 0.995 ± 0.004 | 0.040 ± 0.004 | |
2 | 1 | 17 | 14 | 0.971 ± 0.032 | 0.041 ± 0.008 |
2 | 11 | 9 | 0.961 ± 0.051 | 0.041 ± 0.012 | |
3 | 33 | 30 | 0.994 ± 0.009 | 0.036 ± 0.007 | |
总计Total | 68 | 56 | 0.992 ± 0.005 | 0.039 ± 0.004 |
Table 2 Summary statistics for genetic diversity of the CP gene of CymMV
簇 Cluster | 亚簇 Subcluster | 样本量大小 Sample size | 单倍型 Haplotypes | 单倍型多样性Hd Haplotype diversity | 核苷酸多样性Pi Nucleotide diversity |
---|---|---|---|---|---|
1 | 7 | 3 | 0.524 ± 0.209 | 0.002 ± 0.009 | |
2 | 61 | 53 | 0.995 ± 0.004 | 0.040 ± 0.004 | |
2 | 1 | 17 | 14 | 0.971 ± 0.032 | 0.041 ± 0.008 |
2 | 11 | 9 | 0.961 ± 0.051 | 0.041 ± 0.012 | |
3 | 33 | 30 | 0.994 ± 0.009 | 0.036 ± 0.007 | |
总计Total | 68 | 56 | 0.992 ± 0.005 | 0.039 ± 0.004 |
变异源 Source of variation | 自由度 df | 平方和 Sum of squares | 变量组分 Variance components | 变异比例 Percentage of variation | 固定系数 Fixation index |
---|---|---|---|---|---|
簇间Among clusters | 1 | 65.903 | 3.580 | 21.880 | 0.220 ns |
簇内亚簇间Among sub-clusters within clusters | 2 | 61.563 | 1.046 | 6.390 | 0.082* |
亚簇内Within sub-clusters | 64 | 750.931 | 11.733 | 71.720 | 0.282*** |
总计Total | 67 | 878.397 | 16.359 |
Table 3 Hierarchical analysis of molecular variance for the CP gene of CymMV
变异源 Source of variation | 自由度 df | 平方和 Sum of squares | 变量组分 Variance components | 变异比例 Percentage of variation | 固定系数 Fixation index |
---|---|---|---|---|---|
簇间Among clusters | 1 | 65.903 | 3.580 | 21.880 | 0.220 ns |
簇内亚簇间Among sub-clusters within clusters | 2 | 61.563 | 1.046 | 6.390 | 0.082* |
亚簇内Within sub-clusters | 64 | 750.931 | 11.733 | 71.720 | 0.282*** |
总计Total | 67 | 878.397 | 16.359 |
簇 Cluster | 亚簇 Subcluster | Tajima's D | P值 P value | Fu's FS | P 值 P value |
---|---|---|---|---|---|
1 | -1.434 | 0.067 | 0.263 | 0.475ns | |
2 | -1.335 | 0.043* | -19.765 | 0.000*** | |
2 | 1 | 0.483 | 0.729 | 0.029 | 0.517 ns |
2 | -1.446 | 0.072 | 1.339 | 0.696 ns | |
3 | -1.309 | 0.042* | -8.222 | 0.011* |
Table 4 Neutrality tests for different CymMV populations
簇 Cluster | 亚簇 Subcluster | Tajima's D | P值 P value | Fu's FS | P 值 P value |
---|---|---|---|---|---|
1 | -1.434 | 0.067 | 0.263 | 0.475ns | |
2 | -1.335 | 0.043* | -19.765 | 0.000*** | |
2 | 1 | 0.483 | 0.729 | 0.029 | 0.517 ns |
2 | -1.446 | 0.072 | 1.339 | 0.696 ns | |
3 | -1.309 | 0.042* | -8.222 | 0.011* |
统计参数Statistic | 寄主 Host | 观测平均值(95% HPD) Observed mean(95% HPD) | 零假设平均值(95% HPD) Null mean(95% HPD) | P 值 P value |
---|---|---|---|---|
AI | 1.319(0.830 ~ 1.803) | 5.775(5.005 ~ 6.531) | < 0.001*** | |
PS | 20.472(19.000 ~ 21.000) | 38.091(35.370 ~ 0.624) | < 0.001*** | |
MC | 国兰Cymbidium sinense | 4.064(3.000 ~ 5.000) | 1.518(1.003 ~ 2.182) | 0.010** |
建兰C. ensifolium | 6.981(6.000 ~ 7.000) | 1.225(1.000 ~ 1.998) | 0.010** | |
蕙兰C. faberi | 2.049(2.000 ~ 3.000) | 1.103(1.000 ~ 1.989) | 0.030* | |
墨兰C. haematodes | 1.008(1.000 ~ 2.000) | 1.065(1.000 ~ 1.335) | 1.000ns | |
蝴蝶兰Phalaenopsis | 6.017(6.000 ~ 7.000) | 2.414(1.686 ~ 3.375) | 0.010** | |
石斛兰Dendrobium nobile | 5.975(5.000 ~ 6.000) | 1.887(1.079 ~ 2.982) | 0.010** |
Table 5 Bayesian Tip-association significance(BaTS)testing for the host effect on the genetic diversity of CymMV isolates
统计参数Statistic | 寄主 Host | 观测平均值(95% HPD) Observed mean(95% HPD) | 零假设平均值(95% HPD) Null mean(95% HPD) | P 值 P value |
---|---|---|---|---|
AI | 1.319(0.830 ~ 1.803) | 5.775(5.005 ~ 6.531) | < 0.001*** | |
PS | 20.472(19.000 ~ 21.000) | 38.091(35.370 ~ 0.624) | < 0.001*** | |
MC | 国兰Cymbidium sinense | 4.064(3.000 ~ 5.000) | 1.518(1.003 ~ 2.182) | 0.010** |
建兰C. ensifolium | 6.981(6.000 ~ 7.000) | 1.225(1.000 ~ 1.998) | 0.010** | |
蕙兰C. faberi | 2.049(2.000 ~ 3.000) | 1.103(1.000 ~ 1.989) | 0.030* | |
墨兰C. haematodes | 1.008(1.000 ~ 2.000) | 1.065(1.000 ~ 1.335) | 1.000ns | |
蝴蝶兰Phalaenopsis | 6.017(6.000 ~ 7.000) | 2.414(1.686 ~ 3.375) | 0.010** | |
石斛兰Dendrobium nobile | 5.975(5.000 ~ 6.000) | 1.887(1.079 ~ 2.982) | 0.010** |
[1] |
|
常飞, 邹文超, 高芳銮, 沈建国, 詹家绥. 2015. 不同寄主来源的马铃薯Y病毒群体遗传结构的比较分析. 遗传, 37 (3): 292-301.
|
|
[2] |
doi: 10.16420/j.issn.0513-353x.2020-1053 URL |
陈健鑫, 魏玉倩, 唐婕, 竺永金, 马焕成, 伍建榕. 2022. 云南大理栽培春兰中ORSV和CymMV的分子检测及序列分析. 园艺学报, 49 (3):655-662.
doi: 10.16420/j.issn.0513-353x.2020-1053 URL |
|
[3] |
doi: 10.1099/vir.0.044347-0 pmid: 22837421 |
[4] |
doi: 10.1111/j.1755-0998.2010.02847.x pmid: 21565059 |
[5] |
|
[6] |
doi: 10.1111/eva.2017.10.issue-4 URL |
[7] |
doi: 10.3389/fmicb.2022.1051834 URL |
[8] |
|
[9] |
doi: 10.1016/j.ympev.2021.107336 URL |
[10] |
doi: 10.1007/s11262-011-0592-x URL |
[11] |
doi: 10.1186/1471-2156-11-94 URL |
[12] |
doi: 10.1099/jgv.0.001436 pmid: 32525472 |
[13] |
doi: 10.1093/molbev/msy096 URL |
[14] |
doi: 10.16420/j.issn.0513-353x.2021-0886 URL |
李世帆, 邵宇纯, 祁豪男, 杨兰, 李小伟, 徐秉良, 陈雅寒. 2022. 甘肃省苹果坏死花叶病毒检测及遗传多样性分析. 园艺学报, 49 (11):2431-2438.
doi: 10.16420/j.issn.0513-353x.2021-0886 URL |
|
[15] |
doi: 10.1093/bioinformatics/btp187 pmid: 19346325 |
[16] |
doi: 10.1007/s00705-016-2773-3 pmid: 26923929 |
[17] |
doi: 10.1093/ve/vev003 URL |
[18] |
doi: 10.1007/s13205-019-1876-4 |
[19] |
|
明艳林, 李梅, 郑国华. 2005. 建兰花叶病毒研究进展. 福建农业学报, 20 (1):30-33.
|
|
[20] |
doi: 10.1007/s00705-006-0897-6 pmid: 17216134 |
[21] |
doi: 10.1111/mpp.v21.2 URL |
[22] |
doi: 10.1016/j.meegid.2007.08.001 URL |
[23] |
doi: 10.1093/sysbio/sys029 pmid: 22357727 |
[24] |
doi: 10.1093/molbev/msv222 pmid: 26503941 |
[25] |
|
魏永路, 任锐, 高洁, 刘伟平, 谢琦, 朱根发, 杨凤玺. 2022. 建兰花叶病毒广东分离物的全基因组序列分析. 广东农业科学, 49 (2):109-117.
|
|
[26] |
|
肖火根, 郑冠标, 张曙光, 高乔婉. 1996. 广东兰花病毒病的鉴定和检测研究. 华南农业大学学报, 17 (1):21-24.
|
|
[27] |
|
谢联辉, 林奇英. 2011. 植物病毒学(第3版). 北京: 中国农业出版社.
|
|
[28] |
doi: 10.1007/s11262-010-0468-5 URL |
[29] |
|
[30] |
doi: 10.3389/fmicb.2021.738646 URL |
[1] | PEI Yun, YU Xiaqing, ZHAO Xiaokun, ZHANG Wanping, CHEN Jinfeng. Progress in the Study of the Association of Polyploidy with New Plant Phenotypes [J]. Acta Horticulturae Sinica, 2023, 50(9): 1854-1866. |
[2] | WANG Rui, HONG Wenjuan, LUO Hua, ZHAO Lina, CHEN Ying, WANG Jun. Construction of SSR Fingerprints of Pomegranate Cultivars and Male Parent Identification of Hybrids [J]. Acta Horticulturae Sinica, 2023, 50(2): 265-278. |
[3] | WANG Mengmeng, SUN Deling, CHEN Rui, YANG Yingxia, ZHANG Guan, LÜ Mingjie, WANG Qian, XIE Tianyu, NIU Guobao, SHAN Xiaozheng, TAN Jin, YAO Xingwei. Construction and Evaluation of Cauliflower Core Collection [J]. Acta Horticulturae Sinica, 2023, 50(2): 421-431. |
[4] | DUAN Kaihang, WANG Xiaoling, MAO Yongmin, WANG Yao, REN Yongxiang, REN Liuliu, SHEN Lianying. Analysis of Genetic Diversity of Wild Jujube Germplasm Resources Based on Quantitative Characters [J]. Acta Horticulturae Sinica, 2023, 50(12): 2568-2576. |
[5] | XIE Qian, ZHANG Shiyan, JIANG Lai, DING Mingyue, LIU Lingling, WU Rujian, CHEN Qingxi. Analysis of Canarium album Transcriptome SSR Information and Molecular Marker Development and Application [J]. Acta Horticulturae Sinica, 2023, 50(11): 2350-2364. |
[6] | SU Qun, WANG Hongyan, LIU Jun, LI Chunniu, BU Zhaoyang, LIN Yuling, LU Jiashi, LAI Zhongxiong. Construction of Core Collection of Nymphaea Based on SSR Fluorescent Markers [J]. Acta Horticulturae Sinica, 2023, 50(10): 2128-2138. |
[7] | LI Wenting, LI Cuixiao, LIN Xiaoqing, ZHENG Yongqin, ZHENG Zheng, DENG Xiaoling. Population Genetic Structure of Xanthomonas citri pv. citri in Guangdong Province Based on the STR Locus [J]. Acta Horticulturae Sinica, 2022, 49(6): 1233-1246. |
[8] | ZHANG Meng, SHAN Yuying, YANG Yebo, ZHAI Feifei, WANG Zhaoshan, JU Guansheng, SUN Zhenyuan, LI Zhenjian. AFLP Analysis of Genetic Resources of Dendrobium from China [J]. Acta Horticulturae Sinica, 2022, 49(6): 1339-1350. |
[9] | YANG Yi, LI Tingyao, LI Guojing, CHEN Hancai, SHEN Zhuo, ZHOU Xuan, WU Zengxiang, WU Xinyi, ZHANG Yan. Development and Application of Insertion-Deletion(InDel)Markers in Asparagus Bean Based on Whole Genome Re-sequencing Data [J]. Acta Horticulturae Sinica, 2022, 49(4): 778-790. |
[10] | NIE Xinghua, LI Yiran, TIAN Shoule, WANG Xuefeng, SU Shuchai, CAO Qingqin, XING Yu, QIN Ling. Construction of DNA Fingerprint Map and Analysis of Genetic Diversity for Chinese Chestnut Cultivars(Lines) [J]. Acta Horticulturae Sinica, 2022, 49(11): 2313-2324. |
[11] | LI Shifan, SHAO Yuchun, QI Haonan, YANG Lan, LI Xiaowei, XU Bingliang, CHEN Yahan. Detection and Genetic Diversity Analysis of Apple Necrotic Mosaic Virus in Gansu Province [J]. Acta Horticulturae Sinica, 2022, 49(11): 2431-2438. |
[12] | CHEN Mingkun, CHEN Lu, SUN Weihong, MA Shanhu, LAN Siren, PENG Donghui, LIU Zhongjian, AI Ye. Genetic Diversity Analysis and Core Collection of Cymbidium ensifolium Germplasm Resources [J]. Acta Horticulturae Sinica, 2022, 49(1): 175-186. |
[13] | LI Yanhong, NIE Jun, ZHENG Jinrong, TAN Delong, ZHANG Changyuan, SHI Liangliang, XIE Yuming. Genetic Diversity Analysis and Multivariate Evaluation of Cherry Tomato by Phenotypic Traits in South China [J]. Acta Horticulturae Sinica, 2021, 48(9): 1717-1730. |
[14] | ZHAO Yujing, LU Yin, FENG Daling, LUO Lei, WU Fang, YANG Rui, CHEN Yueqi, SUN Xiaoxue, WANG Yanhua, CHEN Xueping, SHEN Shuxing, LUO Shuangxia, ZHAO Jianjun. Association Analysis Between Background Selection InDel Markers and Important Agronomic Traits in Inbred Lines of Chinese Cabbage [J]. Acta Horticulturae Sinica, 2021, 48(7): 1282-1294. |
[15] | ZHAO Qing, DU Zhenzhen, LI Xixiang, SONG Jiangping, ZHANG Xiaohui, YANG Wenlong, JIA Huixia, WANG Haiping. Genetic Diversity of Garlic Germplasm Resources Based on SSRseq Molecular Markers [J]. Acta Horticulturae Sinica, 2021, 48(7): 1397-1408. |
Viewed | ||||||
Full text |
|
|||||
Abstract |
|
|||||
Copyright © 2012 Acta Horticulturae Sinica 京ICP备10030308号-2 国际联网备案号 11010802023439
Tel: 010-82109523 E-Mail: yuanyixuebao@126.com
Support by: Beijing Magtech Co.Ltd