Identification and Genetic Evolution of Viruses Infecting Chili Peppers at Chifeng, Inner Mongolia

ZHOU Yanfang; WANG Xiuzhi; ZHANG Xiaomei; LUO Xiangwen; LIU Zehong; CUI Congcong; MENG Lingqiang; SUN Junling

doi:10.19303/j.issn.1008-0384.2024.07.009

Volume 39 Issue 7

Jul. 2024

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Article Navigation > Fujian Journal of Agricultural Sciences > 2024 > 39(7): 819-825

ZHOU Y F, WANG X Z, ZHANG X M, et al. Identification and Genetic Evolution of Viruses Infecting Chili Peppers at Chifeng, Inner Mongolia [J]. Fujian Journal of Agricultural Sciences，2024，39（7）：819−825 doi: 10.19303/j.issn.1008-0384.2024.07.009

Citation:

ZHOU Y F, WANG X Z, ZHANG X M, et al. Identification and Genetic Evolution of Viruses Infecting Chili Peppers at Chifeng, Inner Mongolia [J]. Fujian Journal of Agricultural Sciences，2024，39（7）：819−825 doi: 10.19303/j.issn.1008-0384.2024.07.009

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Identification and Genetic Evolution of Viruses Infecting Chili Peppers at Chifeng, Inner Mongolia

doi: 10.19303/j.issn.1008-0384.2024.07.009

1.
Chifeng Academy of Agricultural and Animal Science of Inner Mongolia, Chifeng, Inner Mongolia　024031, China
2.
Hunan Academy of Agricultural Science, Changsha, Hunan　410125, China
3.
Rural integrated Service Center of Gaofeng Tujia Village of Cili County of Hunan Province, Zhangjiajie, Hunan　427205, China

Received Date: 2023-10-28
Rev Recd Date: 2024-01-11

Available Online: 2024-08-15

Publish Date: 2024-07-01

Abstract

Abstract

Objective Viruses that infected chili pepper crops in Chifeng City, Inner Mongolia were identified, and their genetic relationship analyzed. Methods The 47 infected chili pepper plants at 4 major producing areas in Chifeng City were diagnosed, and viruses identified by sRNA high-throughput sequencing with bioinformatic analysis and RT-PCR. Fragments of RT-PCR were sequenced using the Sanger method to conduct a phylogenetic analysis with the MEGA software. Results Six viruses were identified by sRNA high-throughput sequencing. Of which, 4 were re-verified by RT-PCR. The dominant viruses infecting the 4 regions differed significantly. They were Broad bean wilt virus 2(BBWV2) and Potato virus Y(PVY) in Chengzi County of Songshang District, PVY and Pepper mild mottle virus(PMMoV) in Jinshan County of Kalaqin District, and BBWV2 in Ningcheng County and Xiqiao County of kalaqin District. When the infection was caused by multiple viruses, it was mostly by two major pathogens and had the highest rate of occurrence at 61.54%. The phylogenetic analysis on the sequenced nucleotides of the viruses showed distinctive genetic differences between PMMoV and BBWV2 and, possibly, PVY of a novel genetic type. Conclusion There are significant differences in the types of viruses, detection rates, and types of virus co-infections that occur in different chili production areas of Chifeng City in Inner Mongolia .
- Chifeng City of Inner Mongolia,
- chili pepper viral disease,
- sRNA sequencing,
- RT-PCR,
- multiple species infection,
- phylogenetic analysis

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References

[1]	崔聪聪, 王秀芝, 张晓梅, 等. 赤峰市露地辣椒生产情况及经济效益调查分析 [J]. 现代农业科技, 2018, (24):92−93,95. doi: 10.3969/j.issn.1007-5739.2018.24.054 CUI C C, WANG X Z, ZHANG X M, et al. Investigation and analysis on the production situation and economic benefit of pepper in Chifeng city [J]. Modern Agricultural Science and Technology, 2018(24): 92−93,95. (in Chinese) doi: 10.3969/j.issn.1007-5739.2018.24.054
[2]	张晓梅, 王秀芝, 崔聪聪, 等. 2018年赤峰地区设施辣椒生产与市场情况分析 [J]. 中国蔬菜, 2019, (3):89−92. ZHANG X M, WANG X Z, CUI C C, et al. Production and market analysis of protected pepper in Chifeng area in 2018 [J]. China Vegetables, 2019(3): 89−92. (in Chinese)
[3]	柴阿丽, 陈利达, 曹金强, 等. 利用siRNA高通量测序和RT-PCR技术鉴定引起茄子斑驳紫花病的病毒种类 [J]. 园艺学报, 2019, 46(3):508−518. CHAI A L, CHEN L D, CAO J Q, et al. Identification of viruses causing eggplant purple mottle flower disease by sirna high-throughput sequencing and RT-PCR detection [J]. Acta Horticulturae Sinica, 2019, 46(3): 508−518. (in Chinese)
[4]	刘勇, 李凡, 李月月, 等. 侵染我国主要蔬菜作物的病毒种类、分布与发生趋势 [J]. 中国农业科学, 2019, 52(2):239−261. doi: 10.3864/j.issn.0578-1752.2019.02.005 LIU Y, LI F, LI Y Y, et al. Identification, distribution and occurrence of viruses in the main vegetables of China [J]. Chinese Agricultural Sciences, 2019, 52(2): 239−261. (in Chinese) doi: 10.3864/j.issn.0578-1752.2019.02.005
[5]	SKELTON A, UZAYISENGA B, FOWKES A, et al. First report of Pepper veinal mottle virus, pepper yellows virus and a novel enamovirus in chilli pepper (Capsicum sp. ) in Rwanda [J]. New Disease Reports, 2018, 37(1): 5. doi: 10.5197/j.2044-0588.2018.037.005
[6]	冯耿, 辛敏, 曹孟籍, 等. 深度测序发现贵阳发生的辣椒病毒病由多种病毒复合侵染所致 [J]. 植物病理学报, 2017, 47(5):591−597. FENG G, XIN M, CAO M J, et al. Identification of multiple viruses infecting hot pepper in Guiyang by deep sequencing [J]. Acta Phytopathologica Sinica, 2017, 47(5): 591−597. (in Chinese)
[7]	廖震, 赵德刚, 赵懿琛. 利用小RNA深度测序技术检测分析小黄姜病毒 [J]. 基因组学与应用生物学, 2018, 37(6):2417−2422. LIAO Z, ZHAO D G, ZHAO Y C. Detection and analysis of viruses from small yellow ginger (Zingiber officinale Rosc. ) by small RNA deep sequencing technology [J]. Genomics and Applied Biology, 2018, 37(6): 2417−2422. (in Chinese)
[8]	汤亚飞, 裴凡, 李正刚, 等. 基于小RNA深度测序技术鉴定侵染广东辣椒的病毒种类 [J]. 中国农业科学, 2019, 52(13):2256−2267. doi: 10.3864/j.issn.0578-1752.2019.13.006 TANG Y F, PEI F, LI Z G, et al. Identification of viruses infecting peppers in Guangdong by small RNA deep sequencing [J]. Scientia Agricultura Sinica, 2019, 52(13): 2256−2267. (in Chinese) doi: 10.3864/j.issn.0578-1752.2019.13.006
[9]	于海龙, 靳远, 刘婧, 等. 我国辣椒病毒病发生情况及发展趋势: 基于2018年和2019年辣椒主产区的调查 [J]. 中国蔬菜, 2020, (9):25−30. YU H L, JIN Y, LIU J, et al. Occurrence and development trend of pepper virus disease in China—based on main pepper producing areas investigation in 2018 and 2019 [J]. China Vegetables, 2020(9): 25−30. (in Chinese)
[10]	LANGMEAD B, TRAPNELL C, POP M, et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome [J]. Genome Biology, 2009, 10(3): R25. doi: 10.1186/gb-2009-10-3-r25
[11]	TAMURA K, STECHER G, KUMAR S. MEGA11: Molecular evolutionary genetics analysis version 11 [J]. Molecular Biology and Evolution, 2021, 38(7): 3022−3027. doi: 10.1093/molbev/msab120
[12]	VISSER M, BESTER R, BURGER J T, et al. Next-generation sequencing for virus detection: covering all the bases [J]. Virology Journal, 2016, 13: 85. doi: 10.1186/s12985-016-0539-x
[13]	SANTALA J, VALKONEN J P T. Sensitivity of small RNA-based detection of plant viruses [J]. Frontiers in Microbiology, 2018, 9: 939. doi: 10.3389/fmicb.2018.00939
[14]	GARCÍA-ARENAL F, FRAILE A, MALPICA J M. Variability and genetic structure of plant virus populations [J]. Annual Review of Phytopathology, 2001, 39: 157−186. doi: 10.1146/annurev.phyto.39.1.157
[15]	李桑桑, 胡荣, 罗香文, 等. 湖北和广西辣椒脉斑驳病毒的检测及遗传多样性分析 [J]. 南方农业学报, 2020, 51(7):1693−1698. doi: 10.3969/j.issn.2095-1191.2020.07.023 LI S S, HU R, LUO X W, et al. Detection and genetic identity of Pepper veinal mottle virus in Hubei and Guangxi [J]. Journal of Southern Agriculture, 2020, 51(7): 1693−1698. (in Chinese) doi: 10.3969/j.issn.2095-1191.2020.07.023
[16]	汤亚飞, 裴凡, 于琳, 等. 侵染广东辣椒的辣椒脉斑驳病毒的分子特征 [J]. 园艺学报, 2018, 45(11):2209−2216. TANG Y F, PEI F, YU L, et al. Molecular characterization of Chilli veinal mottle virus infecting pepper in Guangdong province [J]. Acta Horticulturae Sinica, 2018, 45(11): 2209−2216. (in Chinese)
[17]	PICARD C, DALLOT S, BRUNKER K, et al. Exploiting genetic information to trace plant virus dispersal in landscapes [J]. Annual Review of Phytopathology, 2017, 55: 139−160. doi: 10.1146/annurev-phyto-080516-035616
[18]	VASSILAKOS N, SIMON V, TZIMA A, et al. Genetic determinism and evolutionary reconstruction of a host jump in a plant virus [J]. Molecular Biology and Evolution, 2016, 33(2): 541−553. doi: 10.1093/molbev/msv222
[19]	FERRER R M, FERRIOL I, MORENO P, et al. Genetic variation and evolutionary analysis of broad bean wilt virus 2 [J]. Archives of Virology, 2011, 156(8): 1445−1450. doi: 10.1007/s00705-011-0990-3
[20]	GUAN X Y, YANG C X, FU J J, et al. Rapid evolutionary dynamics of pepper mild mottle virus [J]. Virus Research, 2018, 256: 96−99. doi: 10.1016/j.virusres.2018.08.006
[21]	GAO F L, ZOU W C, XIE L H, et al. Adaptive evolution and demographic history contribute to the divergent population genetic structure of Potato virus Y between China and Japan [J]. Evolutionary Applications, 2017, 10(4): 379−390. doi: 10.1111/eva.12459
[22]	龚明霞, 赵虎, 王萌, 等. 广西辣椒病毒病调查及病原种类初步鉴定 [J]. 中国蔬菜, 2020, (4):74−79. GONG M X, ZHAO H, WANG M, et al. Investigation and preliminary identification of pathogeny species of pepper virus disease in Guangxi [J]. China Vegetables, 2020(4): 74−79. (in Chinese)
[23]	郭思瑶, 童艳, 黄娅, 等. 重庆辣椒病毒病病原初步鉴定和分析 [J]. 园艺学报, 2015, 42(2):263−270. GUO S Y, TONG Y, HUANG Y, et al. Preliminary identification and analyses of viruses causing pepper virus disease in Chongqing, China [J]. Acta Horticulturae Sinica, 2015, 42(2): 263−270. (in Chinese)
[24]	王少立, 谭玮萍, 杨园园, 等. 山东省辣椒主要病毒种类的分子检测与鉴定 [J]. 中国农业科学, 2017, 50(14):2728−2738. doi: 10.3864/j.issn.0578-1752.2017.14.009 WANG S L, TAN W P, YANG Y Y, et al. Molecular detection and identification of main viruses on pepper in Shandong Province [J]. Scientia Agricultura Sinica, 2017, 50(14): 2728−2738. (in Chinese) doi: 10.3864/j.issn.0578-1752.2017.14.009
[25]	姚玉荣, 陈国华, 冯兰香, 等. 北运蔬菜基地辣椒病毒病病原种类的分子检测 [J]. 中国蔬菜, 2013, (10):84−89. doi: 10.3969/j.issn.1000-6346.2013.10.014 YAO Y R, CHEN G H, FENG L X, et al. Molecular detection of pepper viruses in southern vegetable production bases [J]. China Vegetables, 2013(10): 84−89. (in Chinese) doi: 10.3969/j.issn.1000-6346.2013.10.014
[26]	PEÑAFLOR M F G V, MAUCK K E, ALVES K J, et al. Effects of single and mixed infections of Bean pod mottle virus and Soybean mosaic virus on host-plant chemistry and host–vector interactions [J]. Functional Ecology, 2016, 30(10): 1648−1659. doi: 10.1111/1365-2435.12649
[27]	LAMICHHANE J R, VENTURI V. Synergisms between microbial pathogens in plant disease complexes: A growing trend [J]. Frontiers in Plant Science, 2015, 6: 385.
[28]	SAFARI M, ROOSSINCK M J. Coevolution of a persistent plant virus and its pepper hosts [J]. Molecular Plant-Microbe Interactions, 2018, 31(7): 766−776. doi: 10.1094/MPMI-12-17-0312-R