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Draft Genome Sequence of Cercospora canescens: A Leaf Spot Causing Pathogen


Affiliations
1 Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India
2 Centre for Bioinformatics, School of Biotechnology, Banaras Hindu University, Varanasi 221 005, India
3 ICAR-Central Plantation Crops Research Institute, Kudlu, P.O. Kasargod 671 124, India
 

Cercospora canescens (Ellis and Martin) is a hemibiotrophic pathogen causing leaf spot disease on mungbean (Vigna radiata L). Genome sequence (∼33.97 Mb) assembled in 8239 contigs with 10627 protein coding genes. A total of 2842 proteins were identified as homologous of 223 predicted and 7562 putative uncharacterized involved in biological processes, molecular functions. The identified proteins are mainly involved in infection process used to compromise nutrients or destroy host tissues gycosidases, transposases, cytochrome P450s, genes codes to signal transduction, cell wall breakdown, transporters, host stomata perception, adhesion, polyketide synthase and cercosporin. A total of 528 simple sequence repeats were also identified from the genome sequence assembly of C. canescens. This study provides insights into pathogenic mechanism and a better understanding of virulence differentiation of C. canescens. It will also help in identification of similarity and differences in regions among the genomes of different species of Cercospora.

Keywords

Cercospora canescens, Functional Annotation, Gene Prediction, Sequencing and Assembly, Vigna radiata.
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  • Raturi, A., Singh, S. K., Sharma, V. and Pathak, R., Stability and environmental indices analyses for yield attributing traits in Indian Vigna radiata genotypes under arid conditions. Asian J. Agric. Sci., 2012, 4, 126–133.

  • Project coordinator’s report (mungbean and urdbean), All India coordinated research project on MULLaRP, Indian Institute of Pulses Research, Kanpur, 2013–2014.

  • Iqbal, S. M., Jubair, M. and Malik, B. A., Control of cercospora leaf spot of mungbean by foliar fungicides. Pak. J. Phytopathol., 1995, 7, 84–85.

  • Kapadiya, H. J. and Dhruj, I. U., Management of mungbean cercospora leaf spot through fungicides. Indian Phytopathol., 1999, 52(1), 96–97.

  • Sompong, C., Somta, P., Sorjjapinum, W. and Srinives, P., Quantitative trait loci mapping of Cercospora leaf spot resistance in mungbean, Vigna radiata, Mol. Breed., 2011, 28, 255–264.

  • Grewal, J. S., Pal, M. and Kulshrestha, D. D., Control of cercospora leaf spot of greengram by spraying bavistin. Indian J. Agric. Sci., 1980, 50, 707–711.

  • Shanmugasundram, S., Mungbean varietal improvement, AVRDC, Taiwan, 1987, pp. 1–49.

  • Chand, R., Singh, V., Pal, C., Kumar, P. and Kumar, M., First report of a new pathogenic variant of Cercospora canescens on mungbean (Vigna radiata) from India. New Dis. Rep., 2012, 26, 6; doi: org/10.5197/j.2044‐0588.2012.026.006.

  • Gupta, S. K., Bansal, R. and Gopalakrishna, T., Development and characterization of genic SSR markers for mungbean (Vigna radiata (L.) Wilczek) Euphytica, 2014, 195, 245–258; doi: 10.1007/s10681-013-0993-0.

  • Poehlman, J. M., What we have learned from the international mungbean nurseries. In Proceedings of the First International mungbean Symposium, University of Phillipines, Los Banos, 1977, pp. 97–100.

  • Agrawal, S. C., Diseases of Greengram and Blackgram, International Book Distributors, Dehradun, 1993, p. 321.

  • Goode, M. J. and Brown, G. R., Detection and characterization and Cercospora citrullina isolates that sporulate readily in culture. Phytopathology, 1970, 30, 1502–1503.

  • Chand, R., Kumar, P., Singh, V. and Pal, C., Technique for spore production in Cercospora canescens. Indian Phytopthol., 2013, 66, 159–163.

  • Daub, M. E., Cercosporin, a photosensitizing toxin from Cercospora species Phytopathology, 1982, 72, 370–374.

  • Groenewald, J. Z. et al., Species concepts in Cercospora: spotting the weeds among the roses. Stud. Mycol., 2013, 75, 115–170.

  • Chen, H., Lee, M. H., Daub, M. E. and Chung, K. R., Molecular analysis of the cercosporin biosynthetic gene cluster in Cercospora nicotianae. Mol. Microbiol., 2007, 64, 755–770.

  • Zhang, G. R., Newman, M. A. and Bradley, C. A., First report of the soybean frogeye leaf spot fungus (Cercospora sojina) resistant to quinone outside inhibitor fungicides in North America. Plant Dis., 2012, 96, 767.

  • Karaoglanidis, G. S. and Bardas, G., Control of benzimidazoleand DMI-resistant strains of Cercospora beticola with strobilurin fungicides. Plant Dis., 2006, 90, 419–424.

  • Murray, M. G. and Thompson, W. F., Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res., 1980, 8, 4325.

  • Stanke, M. and Morgenstern, B., AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints. Nucleic Acids Res., 2005, 33, W465–W467.

  • Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D. J., Gapped BLAST and PSIBLAST: a new generation of protein database search programs. Nucleic Acids Res., 1997, 25, 3389–3402.

  • Ashburner, M. et al., Gene ontology: tool for the unification of biology. Gene Ontol. Consort. Nature Genet., 2000, 25, 25–29.

  • Thiel, T., Michalek, W., Varshney, R. K. and Graner, A., Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theor. Appl. Genet., 2003, 106, 411–422.

  • da Maia, L. C., Palmieri, D. A., de Souza, V. Q., Kopp, M. M., de Carvalho, F. I. and Costa de Oliveira A., SSR Locator: tool for simple sequence repeat discovery integrated with primer design and PCR simulation,. Int. J. Plant Genomics, 2008; doi: 10.1155/2008/412696

  • Koressaar, T. and Remm, M., Enhancements and modifications of primer design program Primer3. Bioinformatics, 2007, 23, 1289– 1291.

  • Thompson, J. D., Higgins, D. G. and Gibson, T. J., CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position- specific gap penalties and weight matrix choice. Nucleic Acids Res., 1994, 22, 4673– 4680.

  • Kumar, S., Tamura, K. and Nei, M., MEGA: Molecular Evolutionary Genetics Analysis software for microcomputers. Comput. Appl. Biosci., 1994, 10, 189–191.

  • Hunter, S. et al., InterPro: the integrative protein signature database. Nucleic Acids Res., 2009, 37, D211–D215.

  • Zerbino, D. R. and Birney, E., Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res., 2008, 18, 821–829.

  • Annadurai, R. S. et al., Next generation sequencing and de novo transcriptome analysis of Costus pictus D. Don, a non-model plant with potent anti-diabetic properties. BMC Genomics, 2012, 13, 663.

  • Dean, R. A. et al., The genome sequence of the rice blast fungus Magnaporthe grisea. Nature, 2005,434, 980–986.

  • Magrane, M. and Consortium, U., UniProt Knowledgebase: a hub of integrated protein data. Database (Oxford). 2011; doi: 10.1093/database/bar009.

  • H., Xu, X., Wang, Y., Bajpai, V. K., Huang, L., Chen, Y. and Baek, K. H., The mitogen-activated protein kinase signal transduction pathways in Alternaria species. Plant Pathol. J., 2012, 28, 227–238.

  • Chen, H. Q., Lee, M. H. and Chung, K. R., Functional characterization of three genes encoding putative oxidoreductases required for cercosporin toxin biosynthesis in the fungus Cercospora nicotianae. Microbiology, 2007, 153, 2781–2790.

  • Shim, W. B. and Dunkle, L. D., CZK3, a MAP kinase kinase kinase homolog in Cercospora zeaemaydis, regulates cercosporin biosynthesis, fungal development, and pathogenesis. Mol. Plant Microbe Interact., 2003, 16, 760–768.

  • Dixon, K. P., Xu, J. R., Smirnoff, N. and Talbot, N. J., Independent signaling pathways regulate cellular turgor during hyperosmotic stress and appressorium-mediated plant infection by Magnaporthe grisea. Plant Cell, 1999, 11, 2045–2058.

  • Beckman, P. M. and Payne, G. A., External growth, penetration and development of Cercospora zea-maydis in corn leaves. Phytopathology, 1982, 72, 810–815.

  • Xu, J. R. and Hamer, J. E., MAP kinase and cAMP signaling regulate infection structure formation and pathogenic growth in the rice blast fungus Magnaporthe grisea. Genes Dev., 1996, 10, 2696–2706.

  • Cantarel, B. L., Coutinho, P. M., Rancurel, C., Bernard, T., Lombard, V. and Henrissat, B., The Carbohydrate-Active Enzymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res., 2009, 37, D233–D238.

  • Davies, G. and Henrissat, B., Structures and mechanisms of glycosyl hydrolases. Structure, 1995, 3, 853–859.

  • Ma, D. and Li, R., Current understanding of HOG-MAPK pathways in Aspergillus fumigatus. Mycopathology, 2013, 175, 13–23.

  • Islam, M. S. et al., Tools to kill: genome of one of the most destructive plant pathogenic fungi Macrophomina phaseolina. BMC Genomics, 2012, 13, 493.

  • Kulkarni, R. D., Thon, M. R., Pan, H. and Dean, R. A., Novel Gproteincoupled receptor-like proteins in the plant pathogenic fungus Magnaporthe grisea. Genome Biol., 2005, 6, R24.

  • Choi, W. and Dean, R. A., The adenylate cyclase gene MAC1 of Magnaporthe grisea controls appressorium formation and other aspects of growth and development. Plant Cell, 1997, 9, 1973– 1983.

  • Beck, J., Ripka, S., Siegner, A., Schiltz, E. and Schweizer, E., The multi-functional 6-methylsalicylic acid synthase gene of Penicillium patulum: its gene structure relative to that of other polyketide synthases. Eur. J. Biochem., 1990, 192, 487–498.

  • Daub, M. E. and Chung, K.-R., Cercosporin: a phytoactivated toxin in plant disease. APSnetFeatures., 2007, doi: 10.1094/ APSnetFeature/2007-0207.

  • Karaoglu, H., Lee, C. M. Y. and Meyer, W., Survey of simple sequence repeats in completed fungal genomes. Mol. Biol. Evol., 2005, 22, 639–649.


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  • Draft Genome Sequence of Cercospora canescens: A Leaf Spot Causing Pathogen

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Authors

Ramesh Chand
Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India
Chhattar Pal
Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India
Vineeta Singh
Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India
Manoj Kumar
Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India
Vinay Kumar Singh
Centre for Bioinformatics, School of Biotechnology, Banaras Hindu University, Varanasi 221 005, India
Chowdappa Pallem
ICAR-Central Plantation Crops Research Institute, Kudlu, P.O. Kasargod 671 124, India

Abstract


Cercospora canescens (Ellis and Martin) is a hemibiotrophic pathogen causing leaf spot disease on mungbean (Vigna radiata L). Genome sequence (∼33.97 Mb) assembled in 8239 contigs with 10627 protein coding genes. A total of 2842 proteins were identified as homologous of 223 predicted and 7562 putative uncharacterized involved in biological processes, molecular functions. The identified proteins are mainly involved in infection process used to compromise nutrients or destroy host tissues gycosidases, transposases, cytochrome P450s, genes codes to signal transduction, cell wall breakdown, transporters, host stomata perception, adhesion, polyketide synthase and cercosporin. A total of 528 simple sequence repeats were also identified from the genome sequence assembly of C. canescens. This study provides insights into pathogenic mechanism and a better understanding of virulence differentiation of C. canescens. It will also help in identification of similarity and differences in regions among the genomes of different species of Cercospora.

Keywords


Cercospora canescens, Functional Annotation, Gene Prediction, Sequencing and Assembly, Vigna radiata.

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DOI: https://doi.org/10.18520/cs%2Fv109%2Fi11%2F2103-2110