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Genetic Diversity Analysis of Medicinally Important Horticultural Crop Aegle marmelos by ISSR Markers

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1620))

Abstract

Inter simple sequence repeat (ISSR) markers help in identifying and determining the extent of genetic diversity in cultivars. Here, we describe their application in determining the genetic diversity of bael (Aegle marmelos Corr.). Universal ISSR primers are selected and their marker characteristics such as polymorphism information content, effective multiplex ratio and marker index have been evaluated. ISSR-PCR is then performed using universal ISSR primers to generate polymorphic bands. This information is used to determine the degree of genetic similarity among the bael varieties/accessions by cluster analysis using unweighted pair-group method with arithmetic averages (UPGMA). This technology is valuable for biodiversity conservation and for making an efficient choice of parents in breeding programs.

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References

  1. Benharrat H, Veronesi C, Theodet C, Thalouam P (2002) Orobanche species and population discrimination using inter simple sequence repeat (ISSR). Weed Res 42:470–474

    Article  CAS  Google Scholar 

  2. Gonçalves LSA, Rodrigues R, Amaral Júnior AT, Karasawa M, Sudré CP (2008) Comparison of multivariate statistical algorithms to cluster tomato heirloom accessions. Genet Mol Res 7(4):1289–1297

    Article  Google Scholar 

  3. Virk PS, Zhu J, Newburg HJ, Bryan GJ, Jeckson MT, Ford-Lloyd BV (2001) Effectiveness of different classes of molecular markers for classifying and revealing variation in rice germplasm. Euphytica 112:275–284

    Article  Google Scholar 

  4. Fernandez ME, Figueiras AM, Benito C (2002) The use of ISSR and RAPD markers for detecting DNA polymorphisms, genotype identification and genetic diversity among barley cultivars with known origin. Theor Appl Gen 104:845–851

    Article  CAS  Google Scholar 

  5. Vicente MJ, Segura F, Aguado M, Migliaro D, Franco JA, Martínez-Sánchez JJ (2011) Genetic diversity of Astragalus nitidiflorus, a critically endangered endemic of SE Spain, and implications for its conservation. Biochem Syst Ecol 39:175–182

    Article  CAS  Google Scholar 

  6. Rubio-Moraga A, Candel-Perez D, Lucas-Borja ME, Tiscar PA, Viñegla B, Linares JC, Gómez-Gómez L, Ahrazem O (2012) Genetic diversity of Pinus nigra Arn. Populations in southern Spain and northern Morocco revealed by inter-simple sequence repeat profiles. Int J Mol Sci 13:5645–5658

    Article  CAS  Google Scholar 

  7. Chowdhury MA, Vandenberg B, Warkentin T (2002) Cultivar identification and genetic relationship among selected breeding lines and cultivars in chickpea (Cicer arietinum L.) Euphytica 127:317–325

    Article  CAS  Google Scholar 

  8. Mattioni C, Casasoli M, Gonzalez M, Ipinza R, Villani F (2002) Comparison of ISSR and RAPD markers to characterize three Chilean Nothofagus species. Theor Appl Genet 104:1064–1070

    Article  CAS  Google Scholar 

  9. Goulão L, Oliveira CM (2001) Molecular characterization of cultivars of apple (Malus domestica Borkh.) using microsatellite (SSR and ISSR) markers. Euphytica 122:81–89

    Article  Google Scholar 

  10. Tian HL, Xue JH, Wen J, Mitchell G, Zhou S-L (2008) Genetic diversity and relationships of lotus (Nelumbo) cultivars based on allozyme and ISSR markers. Sci Hortic 116(4):421–429

    Article  CAS  Google Scholar 

  11. Reddy MP, Sarla N, Siddiq EA (2002) Inter simple sequence repeat (ISSR) polymorphism and its application in plant breeding. Euphytica 128:9–17

    Article  Google Scholar 

  12. Triest L (2007) Molecular ecology and biogeography of mangrove trees towards conceptual insights on gene flow and barriers: a review. Aquat Bot 89:138–154

    Article  Google Scholar 

  13. Wolfe AD, Liston A (1998) Contributions of PCR-based methods to plant systematics and evolutionary biology. In: Soltis DE, Soltis PS, Oyle JJ (eds) Plant Mol sys II. Kluwer, Boston

    Google Scholar 

  14. Saki S, Bagheri H, Deljou A, Zeinalabedini M (2016) Evaluation of genetic diversity amongst Descurainia sophia L. genotypes by inter-simple sequence repeat (ISSR) marker. Physiol Mol Biol Plants 22(1):97–105

    Article  CAS  Google Scholar 

  15. Liu LW, Zhao LP, Gong YQ, Wang MX, Chen LM, Yang JL, Wang Y, Yu FM, Wang LZ (2008) DNA fingerprinting and genetic diversity analysis of late-bolting radish cultivars with RAPD, ISSR and SRAP markers. Sci Hortic 116:240–247

    Article  CAS  Google Scholar 

  16. Wan YT, Xin-Xiang A, Fan CZ, Xu FR, Yu TQ, Tang CF, Dai LY (2008) ISSR analysis on genetic diversity of the 34 populations of Oryza meyeriana distributing in Yunnan province, China. Rice Sci 15(1):13–20

    Article  Google Scholar 

  17. Huang Y, Ji KS, Jiang ZH (2008) Genetic structure of Buxus sinica Var. Parvifolia, a rare and endangered plant. Sci Hortic 116:324–329

    Article  CAS  Google Scholar 

  18. Thangjam R (2014) Inter-simple sequence repeat (ISSR) marker analysis in Parkia timoriana (DC.) Merr. Populations from Northeast India. Appl Biochem Biotechnol 172:1727–1734

    Article  CAS  Google Scholar 

  19. Mishra P, Kumar LD, Kumar A, Gokul S, Ravikumar K, Shukla AK, Sundaresan V (2015) Population dynamics and conservation implications of Decalepis arayalpathra (J. Joseph and V. Chandras.) Venter, a steno endemic species of Western Ghats, India. Appl Biochem Biotechnol 176:1413–1430

    Article  CAS  Google Scholar 

  20. Prevost A, Wilkinson MJ (1999) A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theor Appl Genet 1:107–112

    Article  Google Scholar 

  21. Casasoli M, Mattioni C, Cherubini M, Villani F (2001) A genetic linkage map of European chestnut (Castanea sative mill.) based on RAPD, ISSR and isozyme markers. Theor Appl Genet 102:1190–1199

    Article  CAS  Google Scholar 

  22. Arnau G, Lallemand J, Bourgoin M (2002) Fast and reliable strawberry cultivar identification using inter simple sequence repeat (ISSR) amplification. Euphytica 129:69–79

    Article  Google Scholar 

  23. Archak S, Gaikwad AB, Gautam D, Rao EVVB, Swamy KRM, Karihaloo JL (2003) DNA fingerprinting of Indian cashew (Anacardium occidentale L.) varieties using RAPD and ISSR techniques. Euphytica 130:397–404

    Article  CAS  Google Scholar 

  24. Vijayan K, Chatterjee SN (2003) ISSR profiling of Indian cultivars of mulberry (Morus spp.) and its relevance to breeding programs. Euphytica 131:53–63

    Article  CAS  Google Scholar 

  25. Gardner N, Hokanson SC (2005) Intersimple sequence repeat fingerprinting and genetic variation of clematis cultivars and commercial germplasm. HortSci 40:1982–1987

    CAS  Google Scholar 

  26. Sambrook J, Russell DW (2001) Molecular cloning: a laboratory manual. CSHL Press, New York

    Google Scholar 

  27. Ghislain M, Zhang D, Fajardo D, Huaman Z, Hijmans RJ (1999) Marker-assisted sampling of the cultivated Andean potato Solanum phureja collection using RAPD markers. Genet Resour Crop Evol 46:547–555

    Article  Google Scholar 

  28. Tiwari S, Tiwari R, Srivastava R, Kumari P, Singh SK (2013) Molecular genetic analysis of Eucalyptus tereticornis by using RAPD markers. Eur J Exp Biol 3(6):103–110

    CAS  Google Scholar 

  29. Varshney RKG, Sorrells ME (2005) Genomics-assisted breeding for crop improvement. Trends Plant Sci 10:621–630

    Article  CAS  Google Scholar 

  30. Rohlf FJ (1998) NTSYS-PC: Numerical Taxonomy and Multivariate Analysis System, Version 2.0. Exeter Software, New York, USA.

    Google Scholar 

  31. Sneath PHA, Sokal RR (1973) Numerical taxonomy. Freeman, San Francisco, CA

    Google Scholar 

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Acknowledgements

University Grants Commission, India is gratefully acknowledged for the financial support of this investigation as M.A.N.F. to F.M.

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Authors and Affiliations

  1. Department of Biosciences, Integral University, Lucknow, 226026, India

    Farina Mujeeb, Preeti Bajpai & Neelam Pathak

  2. Department of Biotechnology, Delhi Technological University, Delhi, 110042, India

    Smita Rastogi Verma

Authors
  1. Farina Mujeeb
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  2. Preeti Bajpai
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  3. Neelam Pathak
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  4. Smita Rastogi Verma
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Correspondence to Smita Rastogi Verma .

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Editors and Affiliations

  1. CEB—Centre of Biological Engineering, University of Minho, Braga, Portugal

    Lucília Domingues

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Mujeeb, F., Bajpai, P., Pathak, N., Verma, S.R. (2017). Genetic Diversity Analysis of Medicinally Important Horticultural Crop Aegle marmelos by ISSR Markers. In: Domingues, L. (eds) PCR. Methods in Molecular Biology, vol 1620. Springer, New York, NY. https://doi.org/10.1007/978-1-4939-7060-5_14

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  • DOI: https://doi.org/10.1007/978-1-4939-7060-5_14

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  • Publisher Name: Springer, New York, NY

  • Print ISBN: 978-1-4939-7059-9

  • Online ISBN: 978-1-4939-7060-5

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