SSR analysis for fruit and quality characters in infra-specific mapping population of melon

SMITA SINGH; SUDHAKAR PANDEY; RICHA RAGHUWANSHI; VIKRAM PANDEY; MAJOR SINGH

doi:10.56093/ijas.v85i1.45957

Authors

SMITA SINGH SRF, Indian Institute of Vegetable Research, Varanasi, Uttar Pradesh
SUDHAKAR PANDEY Senior Scientist, Division of Crop Improvement, IIVR, Varanasi
RICHA RAGHUWANSHI Assistant Professor, Department. of Botany, MMV, BHU
VIKRAM PANDEY Principal Scientist, Division of Horticulture, ICAR, New Delhi
MAJOR SINGH Head, Division of Crop Improvement, Indian Institute of Vegetable Research, Varanasi, Uttar Pradesh

https://doi.org/10.56093/ijas.v85i1.45957

Keywords:

Fruit traits, Linkage analysis, Melon, SSR, QTL

Abstract

Melon has variations in fruit trait that play an important role in consumer acceptance and breeding programms. These traits are controlled by single or multiple genes. Keeping this in view a mapping population (F_2:3) was developed between muskmelon (Cucumis melo var. Kashi Madhu) and snapmelon (Cucumis melo var. momordica accession B-159) having contrasting fruit traits. SSR (simple sequence repeat) markers selected from melon database were applied in F₂ population. Linkage analysis was performed using Mapmaker/Exp.3.0, multi point ordering at LOD = 3.0, to find possible allelic interactions between the loci and fruit traits. The result showed five QTLs for fruit characters, viz. fruit length, fruit weight, number of fruits per plant and ascorbic acid content was found to be significantly linked with markers CSWCT22A, CMMS1-7, CMCTN-86, CMBR-170b, CMBR-70, CMCT134b, CMBR73, CMGT-108, CMMS30-3 at marker interval from 56.5 cM to 153.3 cM with phenotypic variance of 5.9 to 69%, respectively. The study could be useful for the comparative genetics and increases utility of SSR markers across different populations and environment particularly Indian melons.

Downloads

Download data is not yet available.

References

Baudracco-Arnas S and Pitrat M. 1996. A genetic map of melon (Cucumis melo L.) with RFLP RAPD, isozyme, disease resistance and morphological markers. Theoretical and Applied Genetics 93: 57–64. DOI: https://doi.org/10.1007/BF00225727

Bonierbale M W, Plaisted R L, Pineda O and Tanksley S D. 1994. QTL analysis of trichome-mediated insect resistance in potato. Theoretical and Applied Genetics 87: 973–87. DOI: https://doi.org/10.1007/BF00225792

Blanca J, Esteras C, Ziarsolo P, Perez D, Ferna´ndez V, Collado C, Rodriguez R, Ballester A, Roig C, Can˜izares J and Pico B. 2012. Transcriptome sequencing for SNP discovery across Cucumis melo. BMC Genomics 13: 280. doi:10.1186/1471- 2164-13-280. DOI: https://doi.org/10.1186/1471-2164-13-280

Chiba N, Suwabe K, Nunome T and Hirai M. 2003. Development of microsatellite markers in melon (Cucumis melo L.) and their application to major cucurbit crops. Breeding Science 53: 21– 7. DOI: https://doi.org/10.1270/jsbbs.53.21

Cuevas H E, Staub J E, Simon P W, Zalapa J E and McCreight J D. 2008. Mapping of genetic loci that regulated quantity of beta-carotene in fruit of US Western Shipping melon (Cucumis melo L.). Theoretical and Applied Genetics 117: 1 345–59. DOI: https://doi.org/10.1007/s00122-008-0868-2

Cohen S, Tzuri G, Harel-Beja R and Portney M V, SaariU, Lev S, Ophir R, Tadmor Y, Lewinson E, Burger Y, Katzir N, Schaffer A A. 2012. Co-mapping studies of QTLs for fruit acidity and candidate genes of organic acid metabolism and proton transport in sweet melo (C. melo L.). Theoretical and Applied Genetics 125: 343-53. DOI 10.1007/s00122-1837-3. DOI: https://doi.org/10.1007/s00122-012-1837-3

Danin-Poleg Y, Reis N, Baudracco-Arnas S, Pitrat M, Staub J E, Oliver M, Aru´ s P, de Vicente C M and Katzir N. 2000. Simple sequence repeats in Cucumis mapping and map merging. Genome 43: 963–74. DOI: https://doi.org/10.1139/g00-065

Danin-Poleg Y, Tadmor Y, Tzuri G, Reis N, Hirschberg J and Katzir N. 2002. Construction of a genetic map of melon with molecular markers and horticultural traits, and localization of genes associated with ZYMV resistance. Euphytica 125: 373– 84. DOI: https://doi.org/10.1023/A:1016021926815

Dhillon N P S, Monforte A J, Pitrat M, Pandey S, Singh P K Reitsma K R, Garci a-Mas J and Sharma A, McCreight J. 2012. Melon landraces of India: contributions and importance. Plant Breeding Reviews 35: 85–150. DOI: https://doi.org/10.1002/9781118100509.ch3

Diaz Aurora M, Fergany G, Formisano P, Ziarsolo J, Blanca Z, Fei J E, Staub J E, Zalapa H E, Cuevas G, Dace M, Oliver N, Boissot C, Dogimont M, Pitrat R, Hofstede P, Van Koert R, Harel-Beja G, Tzuri V, Portnoy S, Cohen A, Schaffer N, Katzir Y, Xu H, Zhang N, Fukino S, Matsumoto J and Garcia- MasMonforte A J. 2011. A consensus linkage map for molecular markers and Quantitative Trait Loci associated with economically important traits in melon (Cucumis melo L.). BMC Plant Biology 11: 111. DOI: https://doi.org/10.1186/1471-2229-11-111

Fang L, Yong X, Yue Z, Di C, Jian-ming F, Shao-gui G, Guo-yi G, Hongping Y, Ming-zhu W and Hai-ying Z. 2009. Construction of permanent genetic map and comparative analysis of Xinjiang Hami melon (Cucumis melo L. ssp. melo. convar. ameri (Pang.) Greb). Acta Horticulturae Sinica 36: 1 767–74.

Fazio G, Staub J E and Chung S M. 2002 Development and characterization of PCR markers in cucumber (Cucumis sativus L.). Journal of the American Society for Horticultural Science 127: 545–57. DOI: https://doi.org/10.21273/JASHS.127.4.545

Fernandez-Silva I, Moreno E, Essafi A, Fergany M, Jordi Garcia- Mas, Martin-hernandez A, Alaverez-M J and Monforte A J. 2010. Shaping melons: agronomic and genetic characterization of QTLs that modify melon fruit morphology. Theoretical and Applied Genetics 121: 931–1 361, DOI 10.1007/s00122-010- 1361-2. DOI: https://doi.org/10.1007/s00122-010-1361-2

Georgelis N, Scott J W and Baldwin E A. 2004. Relationship of tomato fruit sugar concentration with physical and chemical traits and linkage of RAPD markers. Journal of the American Society for Horticultural Science 129: 839–45. DOI: https://doi.org/10.21273/JASHS.129.6.0839

Gonzalo M J, Oliver M, Garcia-Mas J, Monforte A, Dolcet- Sanjuan R, Katzir N, Aru´s P and Monforte AJ. 2005. Development of a consensus map of melon (Cucumis melo L.) based on high-quality markers (RFLPs and SSRs) using F2 and double-haploid line populations. Theoretical and Applied Genetics 110: 802–11. DOI: https://doi.org/10.1007/s00122-004-1814-6

Hashizume T I, Skimamto Y, Haushima M, Yui T, Sato T and Imai Hirai M. 1996. Construction of a linkage map of watermelon [Citrullus lanatus (Thumb.) Matsum & Nakai] using random amplified polymorphic DNA (RAPD). Euphytica 90: 265–73. DOI: https://doi.org/10.1007/BF00027475

International Cucurbit Genomics Initiative database (ICUGI), http://www.icugi.org

Katzir N, Danin-Poleg Y, Tzuri G, Karchi A, Lavi U and Cregan P B. 1996. Length polymorphisms and homologies of microsatellites in several Cucurbitaceae species. Theoretical and Applied Genetics 93: 1 282–90. DOI: https://doi.org/10.1007/BF00223461

Kalloo G, Rai M, Kumar R, Prassana H C, Singh M, Kumar S, Singh B, Ram D, Pandey S, Lal H, Rai S, Pandey K K and Sathpathy S. 2006. New vegetable varieties from IIVR Varanasi. Indian Horticulture 51: 3: 16–22.

Li W, Lin Z X and Zhang X L. 2007. A novel segregation distortion in intraspecific population of Asian cotton (Gossypium arboretum L.) detected by molecular markers. Journal Genetics and Genomics 34: 634–40. DOI: https://doi.org/10.1016/S1673-8527(07)60072-1

Monforte A J, Oliver M, Gonzalo M J, Alvarez J and Dolcet- Sanjuan R. 2004. Identification of quantitative trait loci involved in fruit quality traits in melon Cucumis melo L. Theoretical and Applied Genetics 108: 750–8. DOI: https://doi.org/10.1007/s00122-003-1483-x

Murry H Gand Thompon W F. 1980. Rapid isolation of higher weight DNA. Nucleic Acid Research 8: 432. DOI: https://doi.org/10.1093/nar/8.19.4321

Pandey S, Rai M, Prassanna HC and Kalloo G. 2008. Kashi Madhu: A new muskmelon cultivar with high total soluble solids. Hort Science 43: 245-6. DOI: https://doi.org/10.21273/HORTSCI.43.1.245

Pandey S, Dhillon N P S, Sureja A K, Singh D and Malik A A. 2010. Hybridization for increased yield and nutritional content of snakemelon (Cucumis melo L. var. flexuosus). Plant Genetic Resources 8: 127–31. DOI: https://doi.org/10.1017/S1479262110000067

Ritschel P S, Lins T C L, Tristan R L, Buso G S C, Buso J A and Ferreira M E. 2004. Development of microsatellite markers from an enriched genomic library for genetic analysis of melon (Cucumis melo L.). BMC Plant Biology 4: 9-12. DOI: https://doi.org/10.1186/1471-2229-4-9

Ranganna S. 1997. Handbook of Analysis and Quality Control for Fruit and Vegetable Products. Tata McGraw Hill Pub. Co. Ltd, New Delhi.

Sinclair J W, Park S O and Crosby K M. 2004. Identification of QTL affecting vitamin C in melon. Subtropical Plant Sciences 56: 10-5.

Wang Y H, Thomas C E and Dean R A. 1997. A genetic map of melon (Cucumis melo L.) ased on amplified fragment length polymorphism (AFLP) markers. Theoretical and Applied Genetics. 95: 791–8. DOI: https://doi.org/10.1007/s001220050627

Wang S, Basten C J and Zeng Z B. 2004. Windows QTL Cartographer 2.0. Department of Statistics, North Carolina State University, Raleigh, NC. http://www.statgen.ncsu.edu/qtlcart/WQTLCart.html.

Zalapa J E, Staub J E and McCreight,J D. 2008. Variance component analysis of plant architectural traits and fruit yield in melon. Euphytica 162: 129–43. DOI: https://doi.org/10.1007/s10681-007-9622-0

Zalapa J E, Staub J E and McCreight J D. 2006. Generation means analysis of plant architectural traits and fruit yield in melon. Plant Breeding 125: 482–7. DOI: https://doi.org/10.1111/j.1439-0523.2006.01273.x