Generic placeholder image

Current Biotechnology

Editor-in-Chief

ISSN (Print): 2211-5501
ISSN (Online): 2211-551X

Research Article

Construction of Phylogenetic Tree of Coat Protein Gene Encoded by Begomoviruses to Detect Yellow Mosaic Viruses Infecting Soybean in Satna

Author(s): Jyoti Pandey*, Rajesh Garg and Ashwini A. Waoo

Volume 9, Issue 4, 2020

Page: [281 - 289] Pages: 9

DOI: 10.2174/2211550109666201113111042

Price: $65

Abstract

Introduction: Soybean is an essential legume crop that has grown mainly in Madhya Pradesh. It supplies over 25% of the vegetable oil requirement of the country and a substantial quantum of protein-rich by-product for animal feed requirements. Viral diseases caused by Begomoviruses, it is transmitted by whiteflies (Bemisia tabaci), responsible for yield reduction and economic losses in soybean production in Madhya Pradesh.

Objective: The research aimed to detect Begomovirus such as Mungbean Yellow Mosaic India Virus (MYMIV) in soybean around District Satna, Madhya Pradesh, India, and construct a phylogenetic tree to study the evolutionary relationship.

Methods: The disease percentage caused by Begomovirus present in soybean plants was analyzed using yellowing symptomatic samples in soybean in production areas. DNA isolation was performed from the collected symptomatic samples showing yellowing by using the CTAB method. The detection of Begomovirus MYMIV was carried out, encoded by coat protein (CP) genes by using specific primer-based polymerase chain reaction (PCR). Evolutionary relationship studies have been carried out further by constructing a phylogenetic tree with the help of bioinformatics tools.

Results: Results indicated that the incidence of disease ranged from 68.4-94.8%. An amplified PCR product with ~510 bp region of coat protein was amplified from infected samples of soybean. The nucleotide sequences of viral cp shared maximum nucleotide identity (94-99%) with previously identified Mungbean yellow mosaic India virus strains. The analyzed samples were formed with separate clusters with Begomoviruses, MYMIV. Infecting legumes indicated that virus related to the yellow mosaic disease has a close association with MYMIV.

Conclusion: All such studies will help support disease observation and control the whitefly Begomovirus in soybean which is an economically important crop by the implementation of management programs.

Keywords: Soybean, MYMIV, begomovirus, whitefly, PCR, phylogenetic tree.

Graphical Abstract
[1]
Liu K. Chemistry and nutritional value of soybean components.- Soybeans. Springer, Boston M A 1997; 25-113.
[http://dx.doi.org/10.1007/978-1-4615-1763-4_2]
[2]
Chauhan GS, Verma NS, Bains GS. Effect of extrusion processing on the nutritional quality of protein in rice-legume blends. Nahrung 1988; 32(1): 43-7.
[http://dx.doi.org/10.1002/food.19880320113 ] [PMID: 3362195]
[3]
Carrera CS, Reynoso CM, Funes GJ, Martínez MJ, Dardanelli J, Resnik SL. Amino acid composition of soybean seeds as affected by climatic variables. Pesqui Agropecu Bras 2011; 46(12): 1579-87.
[http://dx.doi.org/10.1590/S0100-204X2011001200001]
[4]
Varma A, Dhar AK, Mandal B. MYMV transmission and control in India. Taipei, Taiwan: Mungbean Yellow Mosaic Disease Asian Vegetable Research and Development Centre 1992; pp. 8-27.
[5]
Zerbini FM, Briddon RW, Idris A, et al. ICTV virus taxonomy profile: Geminiviridae. J Gen Virol 2017; 98(2): 131-3.
[http://dx.doi.org/10.1099/jgv.0.000738] [PMID: 28284245]
[6]
Naimuddin K, Akram M, Sanjeev G. Identification of Mungbean yellow mosaic India virus infecting Vigna mungo var. silvestris L. Phytopathol Mediterr 2011; 50: 94-100.
[http://dx.doi.org/10.14601/Phytopathol_Mediterr-8740]
[7]
Brown JK, Fauquet CM, Briddon RW, Zerbini FM, Moriones E, Navas-Castillo J. Family Geminiviridae.In Virus Taxonomy 9th Report of the International Committee on Taxonomy of Viruses 2012; 351-73.
[8]
Fauquet CM, Briddon RW, Brown JK, et al. Geminivirus strain demarcation and nomenclature. Arch Virol 2008; 153(4): 783-821.
[http://dx.doi.org/10.1007/s00705-008-0037-6] [PMID: 18256781]
[9]
Qazi J, Ilyas M, Mansoor S, Briddon RW. Legume yellow mosaic viruses: Genetically isolated begomoviruses. Mol Plant Pathol 2007; 8(4): 343-8.
[http://dx.doi.org/10.1111/j.1364-3703.2007.00402.x] [PMID: 20507504]
[10]
Brown JK, Zerbini FM. Navas –Castillo J, Moriones E, Ramos-Sobrinho R, Silva Jose CF. Revision of Begomovirus taxonomy based on pairwise sequence comparisons. Arch Virol 2015; 160(6): 1593-619.
[http://dx.doi.org/10.1007/s00705-015-2398-y] [PMID: 25894478]
[11]
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30(12): 2725-9.
[http://dx.doi.org/10.1093/molbev/mst197] [PMID: 24132122]
[12]
Malathi VG, Surendranath B, Naghma A, Roy A. Adaptation to new hosts shown by the cloned components of Mungbean Yellow Mosaic India Virus causing cowpea golden mosaic in northern India. Can J Plant Pathol 2005; 27(3): 439-47.
[http://dx.doi.org/10.1080/07060660509507243]
[13]
Girish KR, Usha R. Molecular characterization of two soybean Begomoviruses from India and evidence for recombination among legume Begomoviruses from South Virus Res 2005; 108: 167-76.
[14]
Ramesh SV, Bhaskale R, Admane N, Gupta GK. Husain SM Multiply Primed Rolling Circle Amplification (MPRCA) of Yellow mosaic virus genome from infected soybean in central Indian region divulges it as Mungbean yellow mosaic Indian virus and its implications for RNAi mediated virus resistance. 9th World Soybean Research Conference Durban, South Africa 2013; 17-22.
[15]
Legg JP, Fauquet CM. Cassava mosaic geminiviruses in Africa. Plant Mol Biol 2004; 56(4): 585-99.
[http://dx.doi.org/10.1007/s11103-004-1651-7] [PMID: 15630622]
[16]
Morales FJ, Anderson PK. The emergence and dissemination of whitefly-transmitted geminiviruses in Latin America. Arch Virol 2001; 146(3): 415-41.
[http://dx.doi.org/10.1007/s007050170153] [PMID: 11338381]
[17]
Usharani KS, Surendranath B, Haq QMR, Malathi VG. Yellow Mosaic Virus infecting soybean in Northern India is distinct from the species infecting soybean in Southern and Western India. Curr Sci 2004; 86: 845-50.
[18]
Varma A, Malathi VG. Emerging Geminivirus problems. A serious threat to crop production. Ann Appl Biol 2003; 142: 145-64.
[http://dx.doi.org/10.1111/j.1744-7348.2003.tb00240.x]
[19]
Yadav CB, Bhareti P, Muthamilarasan M, et al. Genome-wide SNP identification and characterization in two soybean cultivars with contrasting Mungbean Yellow Mosaic India Virus disease resistance traits. PLoS One 2015; 10(4:): e0123897.
[20]
Deng D, Mcgrath PF, Robinson DJ, Harrison HD. Detection and differentiation of whitefly transmitted geminiviruses in plant and vector insects by the polymerase reaction with degenerate primers. Ann Appl Biol 1994; 125(2): 327-36.
[http://dx.doi.org/10.1111/j.1744-7348.1994.tb04973.x]
[21]
Ramesh SV, Chouhan BS, Gupta GK, Ramteke R, Chand S, Husain S. Molecular diversity analysis of coat protein gene encoded by Begomoviruses and PCR assay to detect Yellow Mosaic Viruses infecting Soybean in India. Br Biotechnol J 2016; 12(3): 1-10.
[http://dx.doi.org/10.9734/BBJ/2016/24362]
[22]
Lu X, Robertson AE, Byamukama E, Nutter FW. Prevalence, incidence, and spatial dependence of soybean mosaic virus in Iowa. American Phytopathological Society 2010; 100(9): 931-40.
[23]
Manjunatha N, Haveri BN, Anjaneya R, Archana S, Manjunath S. Hurakadli molecular detection and characterization of virus causing yellow mosaic disease of redgram (Cajanus cajan L. Millsp) in Karnataka. Int J Pure Appl Biosci 2015; 3(4): 258-64.
[24]
Doyle JJ, Doyle JL. A rapid DNA isolation procedure for small] quantities of fresh leaf tissue. Phytochem Bull 1987; (19): 11-5.
[http://dx.doi.org/10.12691/jfnr-2-7-6]
[25]
Altschul SF, Madden TL, Schäffer AA, et al. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 1997; 25(17): 3389-402.
[http://dx.doi.org/10.1093/nar/25.17.3389] [PMID: 9254694]
[26]
Shakir S, Nawaz-Ul-Rehman MS, Mubin M, Ali Z. Characterization, phylogeny and recombination analysis of Pedilanthus leaf curl virus-Petunia isolate and its associated betasatellite. Virol J 2018; 15(1): 134.
[http://dx.doi.org/10.1186/s12985-018-1047-y] [PMID: 30165872]
[27]
Sathelly K, Govindannagari R, Pandey S, Kompelli SK. KBRS V, Kaul, T. A Simple and efficient method for high quality DNA extraction from sweet sorghum Annals of Plant Sciences 2014; 3(7): 761-4.
[http://dx.doi.org/10.22271/chemi.2020.v8.i1p]
[28]
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30(12): 2725-9.
[http://dx.doi.org/10.1093/molbev/mst197] [PMID: 24132122]
[29]
Ilyas M, Qazi J, Mansoor S, Briddon RW. Genetic diversity and phylogeography of begomoviruses infecting legumes in Pakistan. J Gen Virol 2010; 91(Pt 8): 2091-101.
[http://dx.doi.org/10.1099/vir.0.020404-0] [PMID: 20375225]
[30]
Wrather JA, Anderson TR, Arsyad DM, et al. Soybean disease loss estimates for the top 10 soybean producing countries in 1994. Plant Dis 1997; 81(1): 107-10.
[http://dx.doi.org/10.1094/PDIS.1997.81.1.107] [PMID: 30870925]
[31]
Yadav BK, Jaiswal S, Patel RK, Singh AK. Molecular characterization of Begomovirus infecting soybean (Glycine max L.) crop in Central India. Int J Pharma Bio Sci 2018; 3: 419-31.
[32]
Sohrab SS, Mandal B, Pant RP, Varma A. The first report of association of Tomato leaf curl New Delhi virus with the yellow mosaic disease of Luffa cylindrical in India. Plant Dis 2003; 87(9): 1148.
[http://dx.doi.org/10.1094/PDIS.2003.87.9.1148A] [PMID: 30812834]
[33]
Ramesh SV, Shivakumar M, Ramteke R, et al. Quantification of A legume begomovirus to evaluate soybean genotypes for resistance to yellow mosaic disease. J Virol Methods 2019; 268: 24-31.
[http://dx.doi.org/10.1016/j.jviromet.2019.03.002] [PMID: 30890330]
[34]
Ramesh SV, Shivakumar M, Praveen S, Chouhan BS, Chand S. Expression of short hairpin RNA (shRNA) targeting AC2 gene of Mungbean yellow mosaic India virus (MYMIV) reduces the viral titre in soybean. 3 Biotech 2019; 9(9): 334.
[35]
Mar TB, Xavier CAD, Lima ATM, et al. Genetic variability and population structure of the New World Begomovirus Euphorbia yellow mosaic virus. J Gen Virol 2017; 98: 1537-5.
[36]
Jamil N, Rehman A, Hamza M, et al. First report of tomato leaf curl new delhi virus, a bipartite Begomovirus, infecting soybean (Glycine max). Plant Dis 2017; 101: 845.
[http://dx.doi.org/10.1094/PDIS-09-16-1267-PDN]

Rights & Permissions Print Cite
© 2024 Bentham Science Publishers | Privacy Policy