Genetic diversity assessment of lily genotypes native to Korea based on simple sequence repeat markers
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Molecular characterization of different genotypes reveals accurate information about the degree of genetic diversity that helps to develop a proper breeding program. In this study, a total of 30 EST-based simple sequence repeat (EST-SSR) markers derived from trumpet lily (Lilium longiflorum) were used across 11 native lily species for their genetic relationship. Among these 30 markers, 24 SSR markers that showed polymorphism were used for evaluation of diversity spectrum. The allelic number at per locus ranged from 1 at SSR2 locus to 34 alleles at SSR15 locus, with an average of 11.25 alleles across 24 loci observed. The polymorphic information content, PIC, values ranged from 0.0523 for SSR9 to 0.9919 for SSR2 in all 24 loci with an average of 0.3827. The allelic frequency at every locus ranged from 0.81% at SSR2 locus to 99.6% at SSR14 locus. The pairwise genetic dissimilarity coefficient revealed the highest genetic distance with a value of 81.7% was in between L. dauricum and L. amabile. A relatively closer genetic distance was found between L. lancifolium and L. dauricum, L. maximowiczii and L. concolor, L. maximowiczii and L. distichum (Jeju), L. tsingtauense and L. callosum, L. cernuum and L. distichum (Jeju ecotype), of which dissimilarity coefficient was 50.0%. The molecular fingerprinting based on microsatellite marker could serve boldly to recognize genetically distant accessions and to sort morphologically close as well as duplicate accessions.
Abstract
Molecular characterization of different genotypes reveals accurate information about the degree of genetic diversity that helps to develop a proper breeding program. In this study, a total of 30 EST-based simple sequence repeat (EST-SSR) markers derived from trumpet lily (Lilium longiflorum) were used across 11 native lily species for their genetic relationship. Among these 30 markers, 24 SSR markers that showed polymorphism were used for evaluation of diversity spectrum. The allelic number at per locus ranged from 1 at SSR2 locus to 34 alleles at SSR15 locus, with an average of 11.25 alleles across 24 loci observed. The polymorphic information content, PIC, values ranged from 0.0523 for SSR9 to 0.9919 for SSR2 in all 24 loci with an average of 0.3827. The allelic frequency at every locus ranged from 0.81% at SSR2 locus to 99.6% at SSR14 locus. The pairwise genetic dissimilarity coefficient revealed the highest genetic distance with a value of 81.7% was in between L. dauricum and L. amabile. A relatively closer genetic distance was found between L. lancifolium and L. dauricum, L. maximowiczii and L. concolor, L. maximowiczii and L. distichum (Jeju), L. tsingtauense and L. callosum, L. cernuum and L. distichum (Jeju ecotype), of which dissimilarity coefficient was 50.0%. The molecular fingerprinting based on microsatellite marker could serve boldly to recognize genetically distant accessions and to sort morphologically close as well as duplicate accessions.
참고문헌 (25)
- Biswas MK, "Exploration and exploitation of novel SSR markers for candidate transcription factor genes in Lilium species", Genes, 9, pp.97~ (2018)
- Cuc LM, "Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated groundnut (Arachis hypogea)", BMC Plant Biol, 8, pp.55~ (2008)
- Du F, "Selection of generally applicable ssr markers for evaluation of genetic diversity and identity in Lilium", Biochem Syst Ecol, 61, pp.278~285 (2015)
- Enoki H, "SSR analysis of genetic diversity among maize inbred lines adapted to cold regions of Japan", Theor Appl Genet, 104, pp.1270~1277 (2002)
- Huang YF, "Genetic diversity and genetic structure analysis of the natural populations of Lilium brownii from Guangdong, China", Biochem Genet, 47, pp.503e~510e (2009)[DOI]
- Kumari S, "Internal transcribed spacer-based CAPS marker development for Lilium hansonii identification from wild Lilium native to Korea", Sci Horticulturae, 236, pp.52~59 (2018)
- 이성일, "Development of expressed sequence tag derived-simple sequence repeats in the genus Lilium", Genes & Genomics, 33(6), pp.727~733 (2011), 한국유전학회
- Liang SY, "Flora of China 24" (2000), Missouri Botanical Garden Press
- Mohammadi S, "Analysis of genetic diversity in crop plants—salient statistical tools and considerations", Crop Sci, 43, pp.1235~1248 (2003)
- Moyib OK, "SSR markers reveal genetic variation between improved cassava cultivars and landraces within a collection of Nigerian cassava germplasm", Afric J Biotechnol, 8, pp.2666~2674 (2007)
- Panaud O, "Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.)", Mol General Genet, 252, pp.597~607 (1996)
- Park YJ, "Simple sequence repeat polymorphisms (SSRPs) for evaluation of molecular diversity and germplasm classification of minor crops", Molecules, 14, pp.4546~4569 (2009)
- Peakall R, "GenAlEx 6.5: Genetic analysis in Excel. Population genetic software for teaching and researchan update", Bioinformatics, 28, pp.2537~2539 (2012)
- Thomas B. Patterson, "PHYLOGENY, CONCERTED CONVERGENCE, AND PHYLOGENETIC NICHE CONSERVATISM IN THE CORE LILIALES: INSIGHTS FROM rbcL AND ndhF SEQUENCE DATA", Evolution, 56(2), pp.233~252 (2002), Wiley[DOI]
- Robarts DW, "Sequence-related amplified polymorphism (SRAP) markers: A potential resource for studies in plant molecular biology", Appl Plant Sci, 2, pp.1400017~ (2014)
- Rohif FJ, "NTSYS-pc: Numerical taxonomy and multivariate analysis system (Ed. 2.2)" (2002), Department of Ecology and Evolution, State University of NY
- Shete S, "On estimating the heterozygosity and polymorphism information content value", Theor Pop. Biol, 57, pp.265~271 (2000)
- Simpson, MG, "Plant Systematics" (2011), Academic Press
- Sayeda Sultana, "Internal Transcribed Spacer (ITS) and Genetic Variations in Lilium Native to Korea", Horticulture, Environment, and Biotechnology, 52(5), pp.502~510 (2011), 한국원예학회
- Temnykh S, "Mapping and genome organization of microsatellite sequence in rice (Oryza sativa L.)", Theor Appl Genet, 100, pp.697~712 (2000)
- Ulukan H, "The evolution of cultivated plant species: classical plant breeding versus genetic engineering", Plant Syst Evol, 280, pp.133~142 (2009)
- Van Tuyl JM, "Effect of three pollination methods on embryo development and seed set in intra- and interspecific crosses between seven Lilium species", Sex Plant Reprod, 1, pp.119~123 (1988)
- Van Tuyl JM, "Application of in vitro pollination, ovary culture, ovule culture, and embryo rescue for overcoming incongruity barriers in interspecific Lilium crosses", Plant Sci, 74, pp.115~126 (1991)
- Xi ML, "In vitro mutagenesis and identification of mutants via ISSR in lily (Lilium longiflorum)", Plant Cell Rep, 31, pp.1043~ (2012)[DOI]
- PCR assisted marker based selection in rice breeding, "Zheng K", IRRI, ~, pp.Discussion Paper Series No. 12 (1995)