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Phylogeny and genetic variation in the genus Eranthis using nrITS and cpIS single nucleotide polymorphisms

Park, Seo Young ; Jeon, Mi Jin ; Ma, Sang Hoon ; Wahlsteen, Eric LU orcid ; Amundsen, Keenan ; Kim, Ji Hee ; Suh, Jeung Keun ; Chang, Jin Sung and Joung, Young Hee (2019) In Horticulture Environment and Biotechnology 60(2). p.239-252
Abstract

The relationships among species in the genus Eranthis Salisb. were investigated using single nucleotide polymorphisms (SNPs) of the nuclear DNA internal transcribed spacer 1, 2 region (nrITS) and the chloroplast trnL-trnF interspacer region (cpIS). Phylogenetic relationships based on the nrITS and cpIS were inferred with posterior probabilities with STRUCTURE analysis and the neighbor-joining method. Two major clades from nrITS and cpIS were consistent with species with yellow sepals in E. hyemalis, E. cilicica, E. longistipitata and the hybrid E. ×tubergenii; and white sepals in E. sibirica, E. longituba, E. albiflora, E. stellata, E. pungdoensis, E. byunsanensis, and E. pinnatifida. The phylogenetic tree of nrITS formed more subclades... (More)

The relationships among species in the genus Eranthis Salisb. were investigated using single nucleotide polymorphisms (SNPs) of the nuclear DNA internal transcribed spacer 1, 2 region (nrITS) and the chloroplast trnL-trnF interspacer region (cpIS). Phylogenetic relationships based on the nrITS and cpIS were inferred with posterior probabilities with STRUCTURE analysis and the neighbor-joining method. Two major clades from nrITS and cpIS were consistent with species with yellow sepals in E. hyemalis, E. cilicica, E. longistipitata and the hybrid E. ×tubergenii; and white sepals in E. sibirica, E. longituba, E. albiflora, E. stellata, E. pungdoensis, E. byunsanensis, and E. pinnatifida. The phylogenetic tree of nrITS formed more subclades than the tree of cpIS, which suggested that nrITS SNPs are useful molecular markers for phylogenetic studies in the genus Eranthis. Only the SNPs of cpIS in E. pungdoensis accessions had a deletion at positions 259–420, and the posterior probability values (PPVs) assigned E. pungdoensis to population 4, which suggested that E. pungdoensis is different from E. byunsanensis. Therefore, E. byunsanensis and E. pungdoensis are considered to be true-to-type based on q-values because the PPVs were greater than 0.9 in both species based on the STRUCTURE analysis of nrITS SNPs. Significant genetic variation in E. stellata collected in Goesan-kun and Mt. Mugap, Korea indicated a potential gene flow among closely related E. byunsanensis, E. pinnatifida, E. sibirica, and E. stellata that could be due to geographic proximity in their distributions. E. stellata from Mt. Mugap showed mixed PPVs for E. stellata and E. byunsanensis, therefore, E. byunsanensis might be a possible hybrid origin for E. stellata collected from Goesan-kun and Mt. Mugap.

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publishing date
type
Contribution to journal
publication status
published
keywords
2 Region, Chloroplast trnL-trnF interspacer region, Floral morphology, Hybrid origin, Intraspecific variation, Nuclear ITS 1, STRUCTURE analysis
in
Horticulture Environment and Biotechnology
volume
60
issue
2
pages
14 pages
publisher
Springer
external identifiers
  • scopus:85063646217
ISSN
2211-3452
DOI
10.1007/s13580-018-0113-0
language
English
LU publication?
no
additional info
Publisher Copyright: © 2019, Korean Society for Horticultural Science.
id
2e8b2439-9240-4414-b1f6-8ddf1930790b
date added to LUP
2025-12-11 19:16:35
date last changed
2025-12-16 11:54:55
@article{2e8b2439-9240-4414-b1f6-8ddf1930790b,
  abstract     = {{<p>The relationships among species in the genus Eranthis Salisb. were investigated using single nucleotide polymorphisms (SNPs) of the nuclear DNA internal transcribed spacer 1, 2 region (nrITS) and the chloroplast trnL-trnF interspacer region (cpIS). Phylogenetic relationships based on the nrITS and cpIS were inferred with posterior probabilities with STRUCTURE analysis and the neighbor-joining method. Two major clades from nrITS and cpIS were consistent with species with yellow sepals in E. hyemalis, E. cilicica, E. longistipitata and the hybrid E. ×tubergenii; and white sepals in E. sibirica, E. longituba, E. albiflora, E. stellata, E. pungdoensis, E. byunsanensis, and E. pinnatifida. The phylogenetic tree of nrITS formed more subclades than the tree of cpIS, which suggested that nrITS SNPs are useful molecular markers for phylogenetic studies in the genus Eranthis. Only the SNPs of cpIS in E. pungdoensis accessions had a deletion at positions 259–420, and the posterior probability values (PPVs) assigned E. pungdoensis to population 4, which suggested that E. pungdoensis is different from E. byunsanensis. Therefore, E. byunsanensis and E. pungdoensis are considered to be true-to-type based on q-values because the PPVs were greater than 0.9 in both species based on the STRUCTURE analysis of nrITS SNPs. Significant genetic variation in E. stellata collected in Goesan-kun and Mt. Mugap, Korea indicated a potential gene flow among closely related E. byunsanensis, E. pinnatifida, E. sibirica, and E. stellata that could be due to geographic proximity in their distributions. E. stellata from Mt. Mugap showed mixed PPVs for E. stellata and E. byunsanensis, therefore, E. byunsanensis might be a possible hybrid origin for E. stellata collected from Goesan-kun and Mt. Mugap.</p>}},
  author       = {{Park, Seo Young and Jeon, Mi Jin and Ma, Sang Hoon and Wahlsteen, Eric and Amundsen, Keenan and Kim, Ji Hee and Suh, Jeung Keun and Chang, Jin Sung and Joung, Young Hee}},
  issn         = {{2211-3452}},
  keywords     = {{2 Region; Chloroplast trnL-trnF interspacer region; Floral morphology; Hybrid origin; Intraspecific variation; Nuclear ITS 1; STRUCTURE analysis}},
  language     = {{eng}},
  month        = {{04}},
  number       = {{2}},
  pages        = {{239--252}},
  publisher    = {{Springer}},
  series       = {{Horticulture Environment and Biotechnology}},
  title        = {{Phylogeny and genetic variation in the genus Eranthis using nrITS and cpIS single nucleotide polymorphisms}},
  url          = {{http://dx.doi.org/10.1007/s13580-018-0113-0}},
  doi          = {{10.1007/s13580-018-0113-0}},
  volume       = {{60}},
  year         = {{2019}},
}