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Microsatellite marker analysis reveals the events of the introduction and spread of cultivated mulberry in the Indian subcontinent

Published online by Cambridge University Press:  04 September 2013

R. Ramesh Krishnan ,
V. Girish Naik ,
S. R. Ramesh  and
S. M. H. Qadri
R. Ramesh Krishnan
Affiliation:
Molecular Biology Laboratory – 1, Central Sericultural Research and Training Institute, Srirampura, Manandavadi Road, Mysore570 008, India
V. Girish Naik*
Affiliation:
Molecular Biology Laboratory – 1, Central Sericultural Research and Training Institute, Srirampura, Manandavadi Road, Mysore570 008, India
S. R. Ramesh
Affiliation:
Central Sericultural Germplasm Resources Centre, P.B. No. 44, Thally Road, Hosur635 109, India
S. M. H. Qadri
Affiliation:
Molecular Biology Laboratory – 1, Central Sericultural Research and Training Institute, Srirampura, Manandavadi Road, Mysore570 008, India
*
*Corresponding author. E-mail: [email protected]
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Abstract

The secret art of silk culture along with mulberry seeds is presumed to have spread from China to other parts of the world including India through the famous Silk Road. In this study, we investigated a set of 36 important mulberry genotypes (designated as ‘breeders’ collection’) of historical importance that have been frequently used in Indian crop improvement programmes over the last five decades. This study is the first to employ a large number of microsatellite markers (140 screened; 70 used for profiling) to elucidate the diversity, structure and breeding history of mulberry. The cluster and STRUCTURE analysis corroborated with the known genetic relationships and origin. The groupings by STRUCTURE (k= 4) confirm parallel breeding efforts undertaken in the eastern, southern and northern regions of the country. The cultivar ‘Mysore Local’ shares a common parent with ‘Berhampore Local’, and this supports the historical records of its introduction from eastern India to the Kingdom of Mysore by the erstwhile ruler Tippu Sultan. The popular variety ‘Kanva-2’ shared a common male parent with the Japanese variety ‘Kousen’, supporting the contribution of exotic progenitors in Indian cultivars. The findings of this study will be useful in formulating new strategies for mulberry improvement and reveals the historical events of the introduction and spread of cultivated mulberry in the Indian subcontinent.

Keywords

breeders' collectionbreeding historydiversity and structuremicrosatellite markermulberry
Type
Research Article
Information
Plant Genetic Resources , Volume 12 , Issue 1 , April 2014 , pp. 129 - 139
Copyright
Copyright © NIAB 2013 

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References

Aggarwal, RK, Udaykumar, D, Hendre, PS, Sarkar, A and Singh, LI (2004) Isolation and characterization of six novel microsatellite markers for mulberry (Morus indica). Molecular Ecology Resources 4: 477–479.Google Scholar
Awasthi, AK, Nagaraja, GM, Naik, GV, Kanginakudru, S, Thangavelu, K and Nagaraju, J (2004) Genetic diversity and relationship in mulberry (genus Morus) as revealed by RAPD and ISSR marker assays. BMC genetics 5: 1.CrossRefGoogle ScholarPubMed
Bassam, BJ and Gresshoff, PM (2007) Silver staining DNA in polyacrylamide gels. Nature Protocols 2: 2649–2654.Google Scholar
Bhattacharya, E and Ranade, SA (2001) Molecular distinction amongst varieties of mulberry using RAPD and DAMD profiles. BMC Plant Biology 1: 3.Google Scholar
Botton, A, Barcaccia, G, Cappellozza, S, Tos, RD, Bonghi, C and Ramina, A (2005) DNA fingerprinting sheds light on the origin of introduced mulberry (Morus spp.) accessions in Italy. Genetic Resources and Crop Evolution 52: 181–192.Google Scholar
Central Silk Board (CSB) (2012) Annual Report 2011–12. Bangalore: Central Silk Board.Google Scholar
Chatterjee, SN, Nagaraja, GM, Srivastava, PP and Naik, G (2004) Morphological and molecular variation of Morus laevigata in India. Genetica 121: 133–143.Google Scholar
Das, BC and Krishnaswami, S (1965) Some observations on interspecific hybridization in mulberry. Indian Journal of Sericulture 4: 1–8.Google Scholar
Das, PK, Balakrishna, R, Mathur, VB, Vedavyasa, K and Dandin, SB (2010) Studies on the performance of improved mulberry variety Sahana as intercrop under coconut plantation. Indian Journal of Sericulture 49: 199–202.Google Scholar
Datta, RK and Nanavaty, M (2005) Global Silk Industry: A Complete Source Book. Boca Raton, FL: Universal Publishers, pp. 18–20.Google Scholar
Evanno, G, Regnaut, S and Goudet, J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology 14: 2611–2620.Google Scholar
Excoffier, L, Laval, G and Schneider, S (2006) An Integrated Software Package for Population Genetics Data Analysis. Alrequin V. 3.1. Computational and Molecular Population Genetics Lab, Institute of Zoology, University of Berne. Available at http://cmpg.unibe.ch/software/arlequin3/.Google Scholar
Falush, D, Stephens, M and Pritchard, JK (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164: 1567–1587.Google Scholar
Garbe JR, Da Y (2008) Pedigraph User Manual Version 2.4. Department of Animal Science, University of Minnesota. Available at http://animalgene.umn.edu/pedigraph/.Google Scholar
Guruprasad (2011) Development of core collection of mulberry (Morus spp.) germplasm by molecular marker aided analysis. PhD Thesis, University of Mysore, pp. 145–151.Google Scholar
Hirano, H (1980) Thremmetological studies of protein variation in mulberry. Bulletin Sericulture Experimental Station 28: 67–186.Google Scholar
Hyde, N (1984) The queen of textiles. National Geographic Magazine 165: 2–49.Google Scholar
Jones, AG, Small, CM, Paczolt, KA and Ratterman, NL (2010) A practical guide to methods of parentage analysis. Molecular Ecology Resources 10: 6–30.Google Scholar
Kafkas, S, Ozgen, M, Dogan, Y, Ozcan, B, Ercisli, S and Serce, S (2008) Molecular characterization of mulberry accessions in Turkey by AFLP markers. Journal of the American Society for Horticultural Science 133: 593–597.CrossRefGoogle Scholar
Kalinowski, ST (2005) hp-rare 1.0: a computer program for performing rarefaction on measures of allelic richness. Molecular Ecology Notes 5: 187–189.Google Scholar
Kar, PK, Srivastava, PP, Awasthi, AK and Urs, SR (2008) Genetic variability and trait association of ISSR markers with some biochemical traits in mulberry (Morus spp.) genetic resources available in India. Tree Genetics and Genomes 4: 75–83.Google Scholar
Kesavacharyalu, K, Balakrishna, R, Dandin, SB and Sarkar, A (2006) Development of promising mulberry (Morus Spp.) genotypes for sub-optimal irrigated conditions through advanced generation breeding approach. Indian Journal Sericulture 45: 155–159.Google Scholar
Koidzumi, G (1917) Taxonomical discussion on Morus plants. Bulletin Sericulture Experimental Station 3: 1–62.Google Scholar
Koidzumi, G (1923) Synopsis specierum generis Mori. Bulletin Sericulture Experimental Station 11: 1–50.Google Scholar
Lacombe, T, Boursiquot, JM, Laucou, V, Vecchi-Staraz, MD, Peros, JP and This, P (2012) Large-scale parentage analysis in an extended set of grapevine cultivars (Vitis vinifera L.). Theoretical and Applied Genetics 126: 401–414.Google Scholar
Liu, KJ and Muse, SV (2005) PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128–2129.CrossRefGoogle ScholarPubMed
Mantel, N (1967) The detection of disease clustering and a generalized regression approach. Cancer Research 27: 209–220.Google Scholar
Naik VG (2007) Characterization of mulberry (Morus spp.) varieties using DNA markers. PhD Thesis, University of Mysore, pp. 149-154.Google Scholar
Naik, VG and Dandin, SB (2005) Molecular characterization of some improved and promising mulberry varieties (Morus spp.) of India by RAPD and ISSR markers. Indian Journal of Sericulture 44: 59–68.Google Scholar
Naik, VG, Sarkar, A and Sathyanarayana, N (2002) DNA fingerprinting of Mysore Local and V-1 cultivars of mulberry (Morus spp.) with RAPD markers. Indian Journal of Genetics and Plant Breeding 62: 193–196.Google Scholar
Oosterhout, CV, Hutchinson, WF, Wills, DPM and Shipley, P (2004) Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes 4: 535–538.Google Scholar
Orhan, E, Ercisli, S, Yildirim, N and Aga, G (2007) Genetic variations among mulberry genotypes (Morus alba) as revealed by random amplified polymorphic DNA (RAPD) markers. Plant Systematics and Evolution 265: 251–258.Google Scholar
Peakall, R and Smouse, PE (2006) GENEALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes 6: 288–295.CrossRefGoogle Scholar
Perrier, X and Jacquemound-Collet, JP (2006) DARwin software. Available at http://darwin.cirad.fr/darwin.Google Scholar
Pritchard, JK, Stephens, M and Donnelly, P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945–959.Google Scholar
R Development Core Team (2008) R: A Language and Environment for Statistical Computing. Vienna: R Foundation for Statistical Computing.Google Scholar
Ravindran, S, Rao, AA, Naik, VG, Tikader, A, Mukherjee, P and Thangavelu, K (1997) Distribution and variation in mulberry germplasm. Indian Journal of Plant Genetic Resources 10: 233–242.Google Scholar
Ravindran, S, Tikader, A, Naik, VG, Rao, AA and Mukherjee, P (1998) Distribution of mulberry species in India and its utilization. Indian Journal of Plant Genetic Resources 12: 163–168.Google Scholar
Sarkar, A, Kumar, JS and Datta, RK (2000) Gradual improvement of mulberry varieties under irrigated condition in South India and optimal programme for varietal selection in the tropics. Sericologia 40: 449–461.Google Scholar
Sharma, A, Sharma, R and Machii, H (2000) Assessment of genetic diversity in a Morus germplasm collection using fluorescence-based AFLP markers. Theoretical and Applied Genetics 101: 1049–1055.Google Scholar
Srivastava, PP, Vijayan, K, Awasthi, AK and Saratchandra, B (2004) Genetic analysis of Morus alba through RAPD and ISSR markers. Indian Journal of Biotechnology 3: 527–532.Google Scholar
Sung, W, Tucker, A, Bergeron, RD, Lynch, M and Thomas, WK (2010) Simple sequence repeat variation in the Daphnia pulex genome. BMC Genomics 11: 691.Google Scholar
Thangavelu, K, Mukherjee, P, Tikader, A, Ravindran, S, Goel, AK, Ananda Rao, A, Naik, VG and Shekar, S (1997) Catalogue on Mulberry (Morus spp.) Germplasm, vol. I. Hosur: Central Sericultural Germplasm Resources Centre.Google Scholar
Tikader, A and Kamble, CK (2008) Mulberry wild species in India and their use in crop improvement – a review. Australian Journal of Crop Science 2: 64–72.Google Scholar
Vavilov, NI (1926) Studies on the origin of cultivated plants. Trudy Byuro po Prikladnoi Botanike 16: 139–248.Google Scholar
Victoria, FC, Maia, LCD and Oliveira, ACD (2011) In silico comparative analysis of SSR markers in plants. BMC Plant Biology 11: 15.Google Scholar
Vijayan, K (2004) Genetic relationships of Japanese and Indian mulberry (Morus spp.) genotypes revealed by DNA fingerprinting. Plant Systematics and Evolution 243: 221–232.Google Scholar
Wang, J and Santure, AW (2008) Parentage and sibship inference from multilocus genotype data under polygamy. Genetics 181: 1579–1594.CrossRefGoogle Scholar
Waples, RS and Waples, RK (2011) Inbreeding effective population size and parentage analysis without parents. Molecular Ecology Resources 11: 162–171.CrossRefGoogle ScholarPubMed
Wickham H (2009) ggplot2: elegant graphics for data analysis. Springer, New York.Google Scholar
Yu, JN, Won, C, Jun, J, Lim, YM and Kwak, M (2011) Fast and cost-effective mining of microsatellite markers using NGS technology: an example of a Korean water deer Hydropotes inermis argyropus. PLoS ONE 6: e26933.Google Scholar
Zhang, SD, Soltis, DE, Yang, Y, Li, DZ and Yi, TS (2011) Multi-gene analysis provides a well-supported phylogeny of Rosales. Molecular Phylogenetics and Evolution 60: 21–28.CrossRefGoogle ScholarPubMed
Zhao, W, Fang, R, Pan, Y, Chung, J, Chung, I and Park, Y (2009) Analysis of genetic relationships of mulberry (Morus L.) germplasm using sequence-related amplified polymorphism (SRAP) markers. African Journal of Biotechnology 8: 2604–2610.Google Scholar
Zhao, W, Miao, X, Jia, S, Pan, Y and Huang, Y (2005) Isolation and characterization of microsatellite loci from the mulberry, Morus L. Plant Science 168: 519–525.Google Scholar
Zhao, W, Zhou, Z, Xuexia, M, Zhang, Y, Wang, S, Huang, J, Xiang, H, Pan, Y and Huang, Y (2007) A comparison of genetic variation among wild and cultivated Morus species (Moraceae: Morus) as revealed by ISSR and SSR markers. Biodiversity and Conservation 16: 275–290.Google Scholar
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