Browse > Article
http://dx.doi.org/10.1080/12298093.2020.1727401

Analysis of Genetic Diversity and Population Structure of Wild Strains and Cultivars Using Genomic SSR Markers in Lentinula edodes  

Lee, Hwa-Yong (Department of Forest Science, Chungbuk National University)
Moon, Suyun (Department of Biology, Chungbuk National University)
Ro, Hyeon-Su (Division of Applied Life Science and Research Institute of Life Science, Gyeongsang National University)
Chung, Jong-Wook (Department of Industrial Plant Science and Technology, Chungbuk National University)
Ryu, Hojin (Department of Biology, Chungbuk National University)
Publication Information
Mycobiology / v.48, no.2, 2020 , pp. 115-121 More about this Journal
Abstract
In this study, the genetic diversity and the population structure of 77 wild strains and 23 cultivars of Lentinula edodes from Korea were analyzed using 20 genomic SSRs, and their genetic relationship was investigated. The tested strains of L. edodes were divided into three sub-groups consisting of only wild strains, mainly wild strains and several cultivars, and mainly cultivars and several wild strains by distance-based analysis. Using model-based analysis, L. edodes strains were divided into two subpopulations; the first one consisting of only wild strains and the second one with mainly cultivars and several wild strains. Moreover, AMOVA analysis revealed that the genetic variation in the cultivars was higher than that in the wild strains. The expected and observed heterozygosity and values indicating the polymorphic information content of L. edodes cultivars from Korea were also higher than that of the wild strains. Based on these results, we presume that the cultivars in Korea have developed by using numerous strains from other countries. In conclusion, the usage of wild strains for the development of new cultivars could improve the adaptability of L. edodes to biotic and abiotic stress.
Keywords
Lentinula edodes; genetic diversity; population structure;
Citations & Related Records
Times Cited By KSCI : 6  (Citation Analysis)
연도 인용수 순위
1 Chang S, Miles P. Historical record of the early cultivation of Lentinus in China. Mushroom J Trop. 1987;7:31-37.
2 Terashima K, Matsumoto T, Hasebe K, et al. Genetic diversity and strain-typing in cultivated strains of Lentinula edodes (the shii-take mushroom) in Japan by AFLP analysis. Mycol Res. 2002;106(1):34-39.   DOI
3 Royse DJ, Barrs J, Tan Q. Current overview of mushroom production in the world. In: Zeid DC, Pardo-Gimenez A, editors. Edible and medical mushrooms: technology and applications. Hoboken: John Wiley & Sons Ltd.; 2017. p. 5-13.
4 Kim KH, Ka KH, Kang JH, et al. Identification of single nucleotide polymorphism markers in the Laccase gene of Shiitake mushrooms (Lentinula edodes). Mycobiology. 2015;43(1):75-80.   DOI
5 George PL, Sripathi VR, Seloame TN, et al. DNAbased identification of Lentinula edodes strains with species-specific primers. Afr J Biotechnol. 2016;15:191-198.   DOI
6 Abid G, Mingeot D, Udupa SM, et al. Genetic relationship and diversity analysis of Faba Bean (Vicia faba L. var. Minor) genetic resources using morphological and microsatellite molecular markers. Plant Mol Biol Rep. 2015;33(6):1755-1767.   DOI
7 Rao NK, Reddy LJ, Bramel PJ. Potential of wild species for genetic enhancement of some semi-arid food crops. Genet Resour Crop Evol. 2003;50:707-721.   DOI
8 Jarvis A, Lane A, Hijmans RJ. The effect of climate change on crop wild relatives. Agric Ecosyst Environ. 2008;126(1-2):13-23.   DOI
9 Finimundy TC, Dillon AJ, Henriques JA, et al. A review on general nutritional compounds and pharmacological properties of the Lentinula edodes mushroom. Food Nutr Sci . 2014;5:1095-1105.   DOI
10 Tanskley SD, McCouch SR. Seed banks and molecular maps: unlocking genetic potential from the wild. Science. 1997;277:1063-1066.   DOI
11 Cirillo A, Gaudio SD, Bernardo DG, et al. Molecular characterization of Italian rice cultivars. Eur Food Res Technol. 2009;228(6):875-881.   DOI
12 Xiang X, Li C, Li L, et al. Genetic diversity and population structure of Chinese Lentinula edodes revealed by InDel and SSR markers. Mycol Prog. 2016;15:37.   DOI
13 Liu CJ. Geographical distribution of genetic variation in Stylosanthes scabra revealed by RAPD analysis. Euphytica. 1997;98(1/2):21-27.   DOI
14 Eagles HA, Bariana HS, Ogbonnaya FC, et al. Implementation of markers in Australian wheat breeding. Aust J Agric Res. 2001;52(12):1349-1356.   DOI
15 Kaur S, Panesar PS, Bera MB, et al. Simple sequence repeat markers in genetic divergence and marker-assisted selection of rice cultivars: a review. Crit Rev Food Sci Nutr. 2015;55(1):41-49.   DOI
16 Ye-Yun X, Zhan Z, Yi-Ping X, et al. Identification and purity test of super hybrid rice with SSR molecular markers. Rice Sci. 2005;12:7-12.
17 Khan F. Molecular markers: an excellent tool for genetic analysis. J Mol Biomark Diagn. 2015;06(03):233.   DOI
18 Zhang Q, Li J, Zhao Y, et al. Evaluation of genetic diversity in Chinese wild apple species along with apple cultivars using SSR markers. Plant Mol Biol Rep. 2012;30(3):539-546.   DOI
19 Selkoe KA, Toonen RJ. Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol Lett. 2006;9(5):615-629.   DOI
20 Du QZ, Wang BW, Wei ZZ, et al. Genetic diversity and population structure of Chinese white poplar (Populus tomentosa) revealed by SSR markers. J Hered. 2012;103(6):853-862.   DOI
21 Lee HY, Moon S, Shim D, et al. Development of 44 Novel polymorphic SSR markers for determination of shiitake mushroom (Lentinula edodes) cultivars. Genes. 2017;8(4):109.   DOI
22 Pritchard JK, Stephens M, Donnelly P. Inference of population structure using multilocus genotype data. Genetics. 2000;155:945-959.   DOI
23 Moon S, Lee HY, Shim D, et al. Development and molecular characterization of novel polymorphic genomic DNA SSR markers in Lentinula edodes. Mycobiology. 2017;45(2):105-109.   DOI
24 Liu K, Muse SV. PowerMarker: a intergrated analysis environment for genetic marker analysis. Bioinformatics. 2005;21(9):2128-2129.   DOI
25 Nei M. Analysis of gene diversity in subdivided populations. Proc Natl Acad Sci USA. 1973;70(12):3321-3323.   DOI
26 Evanno G, Regnaut S, Goudet J. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol. 2005;14(8):2611-2620.   DOI
27 Yoon MY, Moe KT, Kim DY, et al. Genetic diversity and population structure analysis of strawberry (Fragaria x ananassa Duch.) using SSR markers. Electron J Biotechnol. 2012;15:1-16.
28 Peakall R, Smouse PE. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics. 2012;28(19):2537-2539.   DOI
29 Kim KH, Kim YY, Ka KH, et al. Microsatellite marker for population-genetics studies of shiitake (Lentinula edodes) strains. Genes Genom. 2009;31(6):403-411.   DOI
30 Jeong YS, Jang Y, Ryoo R, et al. Genotyping of the wild mushroom Lentinula edodes from Mt. Jungwang and Mt. Gariwang in Korea. Kor J Mycol. 2016;44:289-295.   DOI
31 Xiao Y, Cheng X, Liu J, et al. Population genomic analysis uncovers environmental stress-driven selection and adaptation of Lentinula edodes population in China. Sci Rep. 2016;6(1):36789.   DOI
32 Ha B, Kim S, Kim M, et al. Diversity of A mating type in Lentinula edodes and mating type preference in the cultivated strains. J Microbiol. 2018;56(6):416-425.   DOI
33 Greenbaum G, Templeton AR, Zarmi Y, et al. Allelic richness following population founding events - a stochastic modeling framework incorporating gene flow and genetic drift. PLOS One. 2014;9(12):e115203.   DOI
34 Sharma MV, Kantartzi SK, Stewart JM. Molecular diversity and polymorphism information content of selected Gossypium hirsutum accessions. Summ Ark Cotton Res. 2009;582:124-126.
35 Li C, Gong W, Zhang L, et al. Association mapping reveals genetic loci associated with important agronomic traits in Lentinula edodes, Shiitake mushroom. Front Microbiol. 2017;8:237.
36 Schaid DJ, Batzler AJ, Jenkins GD, et al. Exact tests of Hardy-Weinberg equilibrium and homogeneity of disequilibrium across strata. Am J Hum Genet. 2006;79(6):1071-1080.   DOI
37 Bisen PS, Baghel RK, Sanodiya BS, et al. Lentinus edodes: a macrofungus with pharmacological activities. Curr Med Chem. 2010;17(22):2419-2430.   DOI
38 Hibbett DS. Shiitake mushrooms and molecular clocks: historical biogeography of Lentinula. J Biogeogr. 2001;28(2):231-241.   DOI