Note
First record of Goodyera × tamnaensis (Orchidaceae) from Boso Peninsula, Chiba Prefecture, Japan, based on morphological and molecular data
Kenji Suetsugu, Shun K. Hirota, Yoshihisa Suyama
Published on: 05 March 2021
Page: 113 - 120
DOI: 10.6165/tai.2021.66.113
Abstract
Several individuals of an unknown taxon of Goodyera were discovered in Boso Peninsula, Katsuura City, Chiba Prefecture, Japan. Detailed morphological investigation suggests that this taxon is a presumably natural hybrid between G. schlechtendaliana and G. velutina based on traits such as leaf venation pattern, the color of bract, ovary and inflorescence, the shape of the lip, lateral petal and sepal and column, hair length on inflorescence and ovary. Molecular data based on genome-wide markers using the next-generation sequencing platform (i.e., MIG-seq data) provide further support of the hybrid status of the plants from Boso Peninsula, Chiba Prefecture, Japan. The natural hybrid between G. schlechtendaliana and G. velutina was recently described as G. ×tamnaensis in Jeju Island, South Korea. Therefore, based on our findings, we reported the first occurrence of G. ×tamnaensis in Japan.
Keyword: DNA barcoding, Goodyera schlechtendaliana, Goodyera velutina, MIG-seq, hybridization
Literature Cited
Bolger, A.M., M. Lohse and B. Usadel. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30(15): 2114–2120.
DOI: 10.1093/bioinformatics/btu170View Article
Google Scholar
Catchen, J., P.A. Hohenlohe, S. Bassham, A. Amores and W.A. Cresko. 2013. Stacks: an analysis tool set for population genomics. Mol. Ecol. 22(11): 3124–3140.
DOI: 10.1111/mec.12354View Article
Google Scholar
Chen, X., K. Y. Lang, S. W. Gale, P. J. Cribb and P. Ormerod. 2009. Goodyera. In: Wu, Z. Y., P. H. Raven and D. Y. Hong (eds.), Flora of China, vol. 25, pp. 45–54. Science Press, Beijing, and Missouri Botanical Garden Press, St. Louis.
Earl, D.A. and B.M. vonHoldt. 2012. STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conserv. Genet. Resour. 4(2): 359–361.
DOI: 10.1007/s12686-011-9548-7View Article
Google Scholar
Evanno, G., S. Regnaut and J. Goudet. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol. Ecol. 14(8): 2611–2620.
DOI: 10.1111/j.1365-294X.2005.02553.xView Article
Google Scholar
Francis, R.M. 2017. POPHELPER: an R package and web app to analyse and visualize population structure. Mol. Ecol. Resour. 17(1): 27–32.
DOI: 10.1111/1755-0998.12509View Article
Google Scholar
Guan, Q.X., G.Z. Chen, M.H. Li and S.P. Chen. 2014. Goodyera malipoensis (Cranichideae, Orchidaceae), a new species from China: Evidence from morphological and molecular analyses. Phytotaxa 186(1): 51–60.
DOI: 10.11646/phytotaxa.186.1.4View Article
Google Scholar
Hu, C., H. Tian, H. Li, A. Hu, F. Xing, A. Bhattacharjee, T. Hsu, P. Kumar and S. Chung. 2016. Phylogenetic analysis of a ‘jewel orchid’ genus Goodyera (Orchidaceae) based on DNA sequence data from nuclear and plastid regions. PloS One 11(2): e0150366.
DOI: 10.1371/journal.pone.0150366View Article
Google Scholar
Huson, D.H. and D. Bryant. 2006. Application of phylogenetic networks in evolutionary studies. Mol. Biol. Evol. 23(2): 254–267.
DOI: 10.1093/molbev/msj030View Article
Google Scholar
Kallunki, J.A. 1976. Population studies in Goodyera (Orchidaceae) with emphasis on the hybrid origin of G. tesselata. Brittonia 28(1): 53–75.
DOI: 10.2307/2805559View Article
Google Scholar
Kopelman, N.M., J. Mayzel, M. Jakobsson, N.A. Rosenberg and I. Mayrose. 2015. CLUMPAK: a program for identifying clustering modes and packaging population structure inferences across K. Mol. Ecol. Resour. 15(5): 1179–1191.
DOI: 10.1111/1755-0998.12387View Article
Google Scholar
Lee, C.S., S. Kim, S.H. Yeau and N.S. Lee. 2012. Nuclear and cpDNA sequences demonstrate spontaneous hybridization between Goodyera schlechtendaliana Rchb. f. and G. velutina Maxim. (Orchidaceae) in Jeju Island, Korea. Syst. Bot. 37(2): 356–364.
DOI: 10.1600/036364412X635421View Article
Google Scholar
Lee, C.S., S.H. Yeau, K.S. Lee and N.S. Lee. 2010. A new taxon of Goodyera (Orchidaceae): G. × tamnaensis. Korean J. Pl. Taxon. 40(4): 251–254.
DOI: 10.11110/kjpt.2010.40.4.251View Article
Google Scholar
Nakahama, N., K. Suetsugu, A. Ito, M. Hino, T. Yukawa and Y. Isagi. 2019. Natural hybridization patterns between widespread Calanthe discolor (Orchidaceae) and insular Calanthe izu-insularis on the oceanic Izu Islands. Bot. J. Linn. Soc. 190(4): 436–449.
DOI: 10.1093/botlinnean/boz025View Article
Google Scholar
Pace, M.C., G. Giraldo, J. Frericks, C.A. Lehnebach and K.M. Cameron. 2019. Illuminating the systematics of the Spiranthes sinensis species complex (Orchidaceae): ecological speciation with little morphological differentiation. Bot. J. Linn. Soc. 189(1): 36–62.
DOI: 10.1093/botlinnean/boy072View Article
Google Scholar
Pritchard, J.K., M. Stephens and P. Donnelly. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945–959.
Rochette, N.C., A.G. Rivera-Col?n and J.M. Catchen. 2019. Stacks 2: Analytical methods for paired-end sequencing improve RADseq-based population genomics. Mol. Ecol. 28(21): 4737–4754.
DOI: 10.1111/mec.15253View Article
Google Scholar
Shin, K., Y.K. Shin, J. Kim and K. Tae. 2002. Phylogeny of the genus Goodyera (Orchidaceae; Cranichideae) in Korea based on nuclear ribosomal DNA ITS region sequences. J. Plant Biol. 45(3): 182–187.
DOI: 10.1007/BF03030312View Article
Google Scholar
So, J.-H. and N.-S. Lee. 2017. The origin of new natural hybrid, Goodyera × maximo-velutina (Orchidaceae) from Jeju Island, Korea. Phytotaxa 317(1): 61–68.
DOI: 10.11646/phytotaxa.317.1.6View Article
Google Scholar
Suetsugu, K. and H. Hayakawa. 2019. A new variety of Goodyera schlechtendaliana (Orchidaceae) from Yakushima and Okinawa, Japan. Acta Phytotax. Geobot. 70: 49–55.
Suetsugu, K., T. Shitara, N. Nakato, K. Ishida and H. Hayakawa. 2019. First record of Goodyera × maximo-velutina (Orchidaceae) from Kozu Island, Japan. Taiwania 64(4): 347–352.
DOI: 10.6165/tai.2019.64.347View Article
Google Scholar
Suyama, Y. and Y. Matsuki. 2015. MIG-seq: An effective PCR-based method for genome-wide single-nucleotide polymorphism genotyping using the next-generation sequencing platform. Sci. Rep. 5(1): 16963.
DOI: 10.1038/srep16963View Article
Google Scholar