Genetic Kinship and Discrimination between the Cultivars Consisting a Sister Cultivar Group in Spring Orchid Cymbidium goeringii

Da Eun Nam; Jin Seok Yu; Seung Woo Noh; Kyung Suk Lee; Jung Hee Hwang; Dae Gun Lee; Ki Wha Chung

doi:10.7235/HORT.20210010

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2021 Vol.39, Issue 1 Preview Page Next Page

Research Article

Genetic Kinship and Discrimination between the Cultivars Consisting a Sister Cultivar Group in Spring Orchid Cymbidium goeringii 춘란(Cymbidium goeringii)의 자매품종 그룹내 품종들 간의 유전적 친족성과 식별에 대한 연구

28 February 2021. pp. 106-121

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Abstract

Cultivars collected from similar regions and exhibiting similar phenotypes to each other are commonly called sister cultivars in spring orchid (Cymbidium goeringii). However, no exact information is available for the original collection places and collectors of sister cultivars, and no study has revealed the degree of genetic relationship among them. This study was performed to determine genetic kinship among sister cultivars. Thirteen flower-variant types of cultivars consisting of four sister cultivar groups (358 samples) were collected, and then thirteen combined genotypes were identified by the determination of 12 SSR genotypes using the multiplex PCR. The phylogenetic analysis and the sibling probabilities of the combined genotypes suggested that the cultivars constituting each group were close relatives. Some combined genotypes were regarded to be a cultivar-specific, but others were observed simultaneously in two or more cultivars within a group. Therefore, it was suggested to establish a new classification criteria on the sister cultivars. This study particularly proposes to prepare a detailed evaluation criteria for cultivar pairs of ‘Hongnoeul’ and ‘Ruby’, and ‘Noeul’ and ‘Sehongso’ in group-1 through exact co-analysis of the phenotypes and genotypes. As the first study on the genetic kinship between sister cultivars, this study will help to understand the genetic nature of the sister cultivars, and to re-classify them.

Keywords

combined genotypes

flower-variant type

multiplex PCR

sibling probability

simple sequence repeats (SSR)

춘란(Cymbidium goeringii)에서 비슷한 지역에서 채취되고 유사한 표현형을 보이는 품종들을 서로 자매품종들로 흔히 불린다. 그런데, 자매품종들의 원 채집지나 채집자에 대한 정확하지 않은 경우가 많고, 서로 간의 유전적 근연성을 밝힌 연구는 없었다. 본 연구는 자매품종들 간의 유전적 근친성에 대해 처음으로 조사하였다. 4 자매품종 그룹의 13 품종(358 시료)을 수집한 후 12 SSR의 유전자형을 multiplex PCR 방법으로 분석하여, 13 가지 복합유전자형을 분리하였다. 각 그룹에서 유래된 복합유전자형들의 계통도 분석과 형매 확률은 각 그룹을 구성하는 품종들이 서로 가까운 친척일 가능성을 시사하였다. 복합유전자형들은 품종-특이적인 경우도 있었지만, 일부는 그룹 내 여러 품종에서 동시에 관찰되었기 때문에, 자매 그룹내 품종들의 새로운 분류 기준의 확립이 요구되었다. 특히, 유사한 꽃의 특징을 보이면서 유전적 식별이 어려운 ‘홍노을’과 ‘루비’ 및 ‘노을’과 ‘세홍소’는 세밀한 표현형과 유전자형의 병행 분석을 통한 품종 별 정확한 식별 기준의 확립 및 품종 분류의 재정립이 필요하다고 판단된다. 본 연구는 춘란의 자매품종들의 근친 정도를 처음 밝힌 연구로서, 자매품종들의 유전적 본질에 대한 이해도를 높이고, 자매품종 명명의 재정립에 유용한 유전적 식별 기준을 마련하는데 도움을 줄 수 있을 것이다.

키워드

복합유전자형

화예품

multiplex PCR

형매 확률

simple sequence repeats (SSR)

References

Bär W, Brinkmann B, Budowle B, Carracedo A, Gill P, Lincoln P, Mayr W, Olaisen B (1997) DNA recommendations-Further report of the DNA Commission of the ISFH regarding the use of short tandem repeat systems. Int J Legal Med 110:175-176. doi:10.1007/s004140050061 10.1007/s0041400500619274938

Chen Y, Gao Y, Song L, Zhao Z, Guo S, Xing X (2019) Mycorrhizal fungal community composition in seven orchid species inhabiting Song Mountain, Beijing, China. Sci China Life Sci. 62:838-847. doi:10.1007/s11427-018-9471-x 10.1007/s11427-018-9471-x30810964

Choi H, Kim MJ, Lee JS, Ryu KH (2006) Genetic diversity and phylogenetic relationships among and within species of oriental based on RAPD analysis. Sci Hortic 108:79-85. doi:10.1016/j.scienta.2006.01.010 10.1016/j.scienta.2006.01.010

Dressler RL (1993) Phylogeny and classification of the orchid family. Cambridge University Press, Cambridge, UK

DuPuy D, Cribb PJ (2007) The genus . Richmond, Kew Publishing, UK

Evett IW, Weir BS (1998) Interpreting DNA evidence: statistical genetics for forensic scientists (Vol. 244). Sunderland, MA, Sinauer Associates, USA

Gervasi DDL, Selosse MA, Sauve M, Francke W, Vereecken NJ, Cozzolino S, Schiestl FP (2017) Floral scent and species divergence in a pair of sexually deceptive orchids. Ecol Evol 7:6023-6034. doi:10.1002/ece3.3147 10.1002/ece3.314728808562PMC5551101

Hahn S, Garvin AM, Di Naro E, Holzgreve W (1998) Allele drop-out can occur in alleles differing by a single nucleotide and is not alleviated by preamplification or minor template increments. Genet Test 2:351-355. doi:10.1089/gte.1998.2.351 10.1089/gte.1998.2.35110464616

Huang JL, Zeng CX, Li HT, Yang JB (2011) Isolation and characterization of 15 microsatellite markers from the spring orchid (Cymbidium goeringii) (Orchidaceae). Am J Bot 98:e76-e77. doi:10.3732/ajb.1000446 10.3732/ajb.100044621613151

Huang W, Fang Z, Zeng S, Zhang J, Wu K, Chen Z, Teixeira da Silva JA, Duan J (2012) Molecular cloning and functional analysis of Three FLOWERING LOCUS T (FT) homologous genes from Chinese Cymbidium. Int J Mol Sci 13:11385-11398. doi:10.3390/ijms130911385 10.3390/ijms13091138523109860PMC3472752

Hyun YS, Kim J, Chung KW (2012) Development of polymorphic microsatellite markers for Cymbidium goeringii (Orchidaeceae). Am J Bot 99:e193-e198. doi:10.3732/ajb.1100505 10.3732/ajb.110050522539509

Jian L, Zhu L-Q (2013) Genetic diversity of Cymbidium kanran detected by Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) markers. J Plant Breed Crop Sci 5:158-163. doi:10.5897/JPBCS2013.0397 10.5897/JPBCS2013.0397

Lee DG, Koh JC, Chung KW (2012) Determination and application of simple sequence repeats (SSR) DNA ID for cultivars of Cymbidium goeringii. Korean J Hortic Sci Technol 30:278-285. doi:10.7235/hort.2012.12012 10.7235/hort.2012.12012

Lee HJ, Park HR, Lee AJ, Nam DE, Lee DG, Do Y, Chung KW (2020) Genetic authentication of cultivars with flower-variant types using SSR markers in spring orchid Cymbidium goeringii. Hortic Environ Biotechnol 61:577-590. doi:10.1007/s13580-020-00243-9 10.1007/s13580-020-00243-9

Lee JS, Kim BM, Yu SO, Ryu KH (2004) Analysis of phenotypic and genetic polymorphism of self-pollinated seedings of Korean native Cymbidium goeringii. Korean J Hortic Sci Technol 22:486-490

Leitch IJ, Kahandawala I, Suda J, Hanson L, Ingrouille MJ, Chase MW, Fay MF (2009) Genome size diversity in orchids: consequences and evolution. Ann Bot 104:469-481. doi:10.1093/aob/mcp003 10.1093/aob/mcp00319168860PMC2720655

Li X, Jin F, Jin L, Jackson A, Huang C, Li K, Shu X (2014) Development of Cymbidium ensifolium genic-SSR markers and their utility in genetic diversity and population structure analysis in cymbidiums. BMC Genet 5:124 doi:10.1186/s12863-014-0124-5 10.1186/s12863-014-0124-525481640PMC4276258

Moe KT, Zhao W, Song H-S, Kim Y-H, Chung J-W, Cho Y-I, Park PH, Park H-S, Chae S-C, et al. (2010) Development of SSR markers to study diversity in the genus Cymbidium. Biochem Syst Ecol 38:585-594. doi:10.1016/j.bse.2010.07.004 10.1016/j.bse.2010.07.004

Motomura H, Yukawa T, Ueno O, Kagawa A (2008) The occurrence of crassulacean acid metabolism in (Orchidaceae) and its ecological and evolutionary implications. J Plant Res 121:163-177. doi:10.1007/s10265-007-0144-6 10.1007/s10265-007-0144-618246297

Obara-Okeyo P, Kako S (1998) Genetic diversity and identification of Cymbidium cultivars as measured by random amplified polymorphic DNA (RAPD) markers. Euphytica 99:95-101. doi:10.1023/A:1018374226074 10.1023/A:1018374226074

Padian K, Lindberg DR, Polly PD (1994) Cladistics and the fossil record: the uses of history. Annu Rev Earth Planet Sci 22:63-89. doi:10.1146/annurev.ea.22.050194.000431 10.1146/annurev.ea.22.050194.000431

Peakall R, Smouse PE (2012) GenAlEx 6.5: Genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics 28:2537-2539. doi:10.1093/bioinformatics/bts460 10.1093/bioinformatics/bts46022820204PMC3463245

Ramya M, Park PH, Chuang YC, Kwon OK, An HR, Park PM, Baek YS, Kang BC, Tsai WC, et al. (2019) RNA sequencing analysis of Cymbidium goeringii identifies floral scent biosynthesis related genes. BMC Plant Biol 19:337. doi:10.1186/s12870-019-1940-6 10.1186/s12870-019-1940-631375064PMC6679452

Rogers JS (1972) Measures of genetic similarity and genetic distance. Studies in Genetics VII. University of Texas Publication 7213:145-153

Suetsugu K (2015) Autonomous self-pollination and insect visitors in partially and fully mycoheterotrophic species of Cymbidium (Orchidaceae). J Plant Res 128:115-125. doi:10.1007/s10265-014-0669-4 10.1007/s10265-014-0669-425286768

Sujii PS, Cozzolino S, Pinheiro F (2019) Hybridization and geographic distribution shapes the spatial genetic structure of two co-occurring orchid species. Heredity 123:458-469. doi:10.1038/s41437-019-0254-7 10.1038/s41437-019-0254-731391556PMC6781141

Sun M, Schlüter PM, Gross K, Schiestl FP (2015) Floral isolation is the major reproductive barrier between a pair of rewarding orchid sister species. J Evol Biol 28:117-129. doi:10.1111/jeb.12544 10.1111/jeb.1254425382492

Tang M, Zeng CX, Bi YF, Yang JB (2012) Microsatellite markers for the Chinese endangered and endemic orchid Cymbidium tortisepalum (Orchidaceae). Am J Bot 99:e11-e13. doi:10.3732/ajb.1100307 10.3732/ajb.110030722203651

Wang HZ, Wu ZX, Lu JJ, Shi NN, Zhao Y, Zhang ZT, Liu JJ (2009) Molecular diversity and relationships among Cymbidium goeringii cultivars based on inter-simple sequence repeat (ISSR) markers. Genetica 136:391-399. doi:10.1007/s10709-008-9340-0 10.1007/s10709-008-9340-019085060

Xiang L, Li X, Qin D, Guo F, Wu C, Miao L, Sun C (2012) Functional analysis of FLOWERING LOCUS T orthologs from spring orchid (Cymbidium goeringii Rchb. f.) that regulates the vegetative to reproductive transition. Plant Physiol Biochem 58:98-105. doi: 10.1016/j.plaphy.2012.06.011 10.1016/j.plaphy.2012.06.01122796899

Yang F, Zhu G, Wang Z, Liu H, Xu Q, Huang D, Zhao C (2017) Integrated mRNA and microRNA transcriptome variations in the multi-tepal mutant provide insights into the floral patterning of the orchid Cymbidium goeringii. BMC Genomics 18:367. doi:10.1186/s12864-017-3756-9 10.1186/s12864-017-3756-928490318PMC5426072

Information

Publisher :KOREAN SOCIETY FOR HORTICULTURAL SCIENCE
Publisher(Ko) :원예과학기술지
Journal Title :Horticultural Science and Technology
Journal Title(Ko) :원예과학기술지
Volume : 39
No :1
Pages :106-121
Received Date : 2020-06-24
Revised Date : 2020-08-05
Accepted Date : 2020-11-14
DOI :https://doi.org/10.7235/HORT.20210010

Horticultural Science and Technology ISSN:1226-8763(Print) 2465-8588(Online) 원예과학기술지

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