Genetic diversity of the Cucumber green mottle mosaic virus and the development of RT-LAMP assay for its detection

https://doi.org/10.17221/92/2018-PPSCitation:Hasiów-Jaroszewska B., Budzyńska D., Borodynko-Filas N. (2019): Genetic diversity of the Cucumber green mottle mosaic virus and the development of RT-LAMP assay for its detection. Plant Protect. Sci., 55: 1-7.
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To analyse the genetic diversity of the Cucumber green mottle mosaic virus (CGMMV) population in Poland and to establish the phylogenetic relationships between the Polish and other isolates described to date, 91 isolates were collected from cucumber plants. The analysis, based on coat protein (CP) gene, revealed the presence of two phylogenetic groups: one consisting of the Polish isolates collected in 2017 and those originated mainly from Asia region and the second including the Polish isolates collected in 2016 and the others from European countries. The sensitive, specific, and rapid one-step loop-mediated isothermal amplification assay was developed for the early detection of genetically diverse CGMMV isolates in seeds and plant material.

References:
AINSWORTH G. C. (1935): MOSAIC DISEASES OF THE CUCUMBER. Annals of Applied Biology, 22, 55-67 https://doi.org/10.1111/j.1744-7348.1935.tb07708.x
 
Antignus Y., Pearlsman M., Ben-Yoseph Rachel, Cohen S. (1990): Occurrence of a variant of cucumber green mottle mosaic virus in ISRAEL. Phytoparasitica, 18, 50-56 https://doi.org/10.1007/BF02980826
 
Bashir Nemat Sokhandan, Kalhor Mohammad Rasaei, Zarghani Shaheen Nourinejhad (2006): Detection, Differentiation and Phylogenetic Analysis of Cucumber Mosaic Virus Isolates from Cucurbits in the Northwest Region of Iran. Virus Genes, 32, 277-288 https://doi.org/10.1007/s11262-005-6912-2
 
Borodynko-Filas N., Minicka J., Hasiów-Jaroszewska B. (2017): The Occurrence of Cucumber green mottle mosaic virus Infecting Greenhouse Cucumber in Poland. Plant Disease, 101, 1336-1336 https://doi.org/10.1094/PDIS-11-16-1627-PDN
 
Crespo Oscar, Janssen Dirk, García Carmen, Ruiz Leticia (2017): Biological and Molecular Diversity of Cucumber green mottle mosaic virus in Spain. Plant Disease, 101, 977-984 https://doi.org/10.1094/PDIS-09-16-1220-RE
 
Dombrovsky Aviv, Tran-Nguyen Lucy T.T., Jones Roger A.C. (2017): Cucumber green mottle mosaic virus : Rapidly Increasing Global Distribution, Etiology, Epidemiology, and Management. Annual Review of Phytopathology, 55, 231-256 https://doi.org/10.1146/annurev-phyto-080516-035349
 
Hall T.A. (1999): BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95–98.
 
Hongyun Chen, Wenjun Zhao, Qinsheng Gu, Qing Chen, Shiming Lin, Shuifang Zhu (2008): Real time TaqMan RT-PCR assay for the detection of Cucumber green mottle mosaic virus. Journal of Virological Methods, 149, 326-329 https://doi.org/10.1016/j.jviromet.2008.02.006
 
Kim S.M., Lee J.M., Yim K.O., Oh M.H., Park J.W., Kim J.H. (2003): Nucleotide sequences of two Korean isolates of Cucumber green mottle mosaic virus. Molecules and Cells, 16: 407–412.
 
Li Jin-yu, Wei Qi-wei, Liu Yong, Tan Xin-qiu, Zhang Wen-na, Wu Jian-yan, Charimbu Miriam Karwitha, Hu Bai-shi, Cheng Zhao-bang, Yu Cui, Tao Xiao-rong (2013): One-step reverse transcription loop-mediated isothermal amplification for the rapid detection of cucumber green mottle mosaic virus. Journal of Virological Methods, 193, 583-588 https://doi.org/10.1016/j.jviromet.2013.07.059
 
Li Rugang, Zheng Yi, Fei Zhangjun, Ling Kai-Shu (2015): First Complete Genome Sequence of an Emerging Cucumber Green Mottle Mosaic Virus Isolate in North America. Genome Announcements, 3, - https://doi.org/10.1128/genomeA.00452-15
 
Martin Darren P., Murrell Ben, Golden Michael, Khoosal Arjun, Muhire Brejnev (2015): RDP4: Detection and analysis of recombination patterns in virus genomes. Virus Evolution, 1, - https://doi.org/10.1093/ve/vev003
 
Mori Y., Hirano T., Notomi T. (2006): Sequence specific visual detection of LAMP reactions by addition of cationic polymers. BMC Biotechnology, 6: 3.https://doi.org/10.1186/1472-6750-6-3
 
Sharifi Maraym, Massumi Hossain, Heydarnejad Jahangir, Hosseini Pour Akbar, Shaabanian Mehdi, Rahimian H. (2008): Analysis of the biological and molecular variability of Watermelon mosaic virus isolates from Iran. Virus Genes, 37, 304-313 https://doi.org/10.1007/s11262-008-0271-8
 
Simmons H.E., Munkvold G.P. (2014): Seed transmission in the Potyviridae. In: Gullino M.L., Munkvold G. (eds): Global Perspectives on the Health of Seeds and Plant Propagation Material. Plant Pathology in the 21st Century – Contributions to the 9th International Congress, Vol. 6. Dordrecht, Springer: 3–15.
 
Tamura Koichiro, Stecher Glen, Peterson Daniel, Filipski Alan, Kumar Sudhir (2013): MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0. Molecular Biology and Evolution, 30, 2725-2729 https://doi.org/10.1093/molbev/mst197
 
Tesoriero L. A., Chambers G., Srivastava M., Smith S., Conde B., Tran-Nguyen L. T. T. (2016): First report of cucumber green mottle mosaic virus in Australia. Australasian Plant Disease Notes, 11, - https://doi.org/10.1007/s13314-015-0186-x
 
Thomson K.G., Dietzgen R.G., Gibbs A.J., Tang Y.C., Liesack W., Teakle D.S., Stackebrandt E. (1995): Identification of Zucchini yellow mosaic potyvirus by RT-PCR and analysis of sequence variability. Journal of Virological Methods, 55, 83-96 https://doi.org/10.1016/0166-0934(95)00047-X
 
Tian T., Posis K., Maroon-Lango C. J., Mavrodieva V., Haymes S., Pitman T. L., Falk B. W. (2014): First Report of Cucumber green mottle mosaic virus on Melon in the United States. Plant Disease, 98, 1163-1163 https://doi.org/10.1094/PDIS-02-14-0176-PDN
 
Wu H., Qin B., Chen H., Peng B., Cai J., Gu Q. (2011): The rate of seed contamination and transmission of Cucumber green mottle mosaic virus in watermelon and melon. Scientia Agricultura Sinica, 44: 527–532.
 
AINSWORTH G. C. (1935): MOSAIC DISEASES OF THE CUCUMBER. Annals of Applied Biology, 22, 55-67 https://doi.org/10.1111/j.1744-7348.1935.tb07708.x
 
Antignus Y., Pearlsman M., Ben-Yoseph Rachel, Cohen S. (1990): Occurrence of a variant of cucumber green mottle mosaic virus in ISRAEL. Phytoparasitica, 18, 50-56 https://doi.org/10.1007/BF02980826
 
Bashir Nemat Sokhandan, Kalhor Mohammad Rasaei, Zarghani Shaheen Nourinejhad (2006): Detection, Differentiation and Phylogenetic Analysis of Cucumber Mosaic Virus Isolates from Cucurbits in the Northwest Region of Iran. Virus Genes, 32, 277-288 https://doi.org/10.1007/s11262-005-6912-2
 
Borodynko-Filas N., Minicka J., Hasiów-Jaroszewska B. (2017): The Occurrence of Cucumber green mottle mosaic virus Infecting Greenhouse Cucumber in Poland. Plant Disease, 101, 1336-1336 https://doi.org/10.1094/PDIS-11-16-1627-PDN
 
Crespo Oscar, Janssen Dirk, García Carmen, Ruiz Leticia (2017): Biological and Molecular Diversity of Cucumber green mottle mosaic virus in Spain. Plant Disease, 101, 977-984 https://doi.org/10.1094/PDIS-09-16-1220-RE
 
Dombrovsky Aviv, Tran-Nguyen Lucy T.T., Jones Roger A.C. (2017): Cucumber green mottle mosaic virus : Rapidly Increasing Global Distribution, Etiology, Epidemiology, and Management. Annual Review of Phytopathology, 55, 231-256 https://doi.org/10.1146/annurev-phyto-080516-035349
 
Hall T.A. (1999): BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95–98.
 
Hongyun Chen, Wenjun Zhao, Qinsheng Gu, Qing Chen, Shiming Lin, Shuifang Zhu (2008): Real time TaqMan RT-PCR assay for the detection of Cucumber green mottle mosaic virus. Journal of Virological Methods, 149, 326-329 https://doi.org/10.1016/j.jviromet.2008.02.006
 
Kim S.M., Lee J.M., Yim K.O., Oh M.H., Park J.W., Kim J.H. (2003): Nucleotide sequences of two Korean isolates of Cucumber green mottle mosaic virus. Molecules and Cells, 16: 407–412.
 
Li Jin-yu, Wei Qi-wei, Liu Yong, Tan Xin-qiu, Zhang Wen-na, Wu Jian-yan, Charimbu Miriam Karwitha, Hu Bai-shi, Cheng Zhao-bang, Yu Cui, Tao Xiao-rong (2013): One-step reverse transcription loop-mediated isothermal amplification for the rapid detection of cucumber green mottle mosaic virus. Journal of Virological Methods, 193, 583-588 https://doi.org/10.1016/j.jviromet.2013.07.059
 
Li Rugang, Zheng Yi, Fei Zhangjun, Ling Kai-Shu (2015): First Complete Genome Sequence of an Emerging Cucumber Green Mottle Mosaic Virus Isolate in North America. Genome Announcements, 3, - https://doi.org/10.1128/genomeA.00452-15
 
Martin Darren P., Murrell Ben, Golden Michael, Khoosal Arjun, Muhire Brejnev (2015): RDP4: Detection and analysis of recombination patterns in virus genomes. Virus Evolution, 1, - https://doi.org/10.1093/ve/vev003
 
Mori Y., Hirano T., Notomi T. (2006): Sequence specific visual detection of LAMP reactions by addition of cationic polymers. BMC Biotechnology, 6: 3.https://doi.org/10.1186/1472-6750-6-3
 
Sharifi Maraym, Massumi Hossain, Heydarnejad Jahangir, Hosseini Pour Akbar, Shaabanian Mehdi, Rahimian H. (2008): Analysis of the biological and molecular variability of Watermelon mosaic virus isolates from Iran. Virus Genes, 37, 304-313 https://doi.org/10.1007/s11262-008-0271-8
 
Simmons H.E., Munkvold G.P. (2014): Seed transmission in the Potyviridae. In: Gullino M.L., Munkvold G. (eds): Global Perspectives on the Health of Seeds and Plant Propagation Material. Plant Pathology in the 21st Century – Contributions to the 9th International Congress, Vol. 6. Dordrecht, Springer: 3–15.
 
Tamura Koichiro, Stecher Glen, Peterson Daniel, Filipski Alan, Kumar Sudhir (2013): MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0. Molecular Biology and Evolution, 30, 2725-2729 https://doi.org/10.1093/molbev/mst197
 
Tesoriero L. A., Chambers G., Srivastava M., Smith S., Conde B., Tran-Nguyen L. T. T. (2016): First report of cucumber green mottle mosaic virus in Australia. Australasian Plant Disease Notes, 11, - https://doi.org/10.1007/s13314-015-0186-x
 
Thomson K.G., Dietzgen R.G., Gibbs A.J., Tang Y.C., Liesack W., Teakle D.S., Stackebrandt E. (1995): Identification of Zucchini yellow mosaic potyvirus by RT-PCR and analysis of sequence variability. Journal of Virological Methods, 55, 83-96 https://doi.org/10.1016/0166-0934(95)00047-X
 
Tian T., Posis K., Maroon-Lango C. J., Mavrodieva V., Haymes S., Pitman T. L., Falk B. W. (2014): First Report of Cucumber green mottle mosaic virus on Melon in the United States. Plant Disease, 98, 1163-1163 https://doi.org/10.1094/PDIS-02-14-0176-PDN
 
Wu H., Qin B., Chen H., Peng B., Cai J., Gu Q. (2011): The rate of seed contamination and transmission of Cucumber green mottle mosaic virus in watermelon and melon. Scientia Agricultura Sinica, 44: 527–532.
 
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