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Iwata H, Ito T, Park JS, Kokubugata G, Kakezawa A, Kurosawa T, Nishimura A, Noda H, Takayama K. Intraspecific divergence in a coastal plant, Euphorbia jolkinii, at a major biogeographic boundary in East Asia. AMERICAN JOURNAL OF BOTANY 2024; 111:e16327. [PMID: 38725176 DOI: 10.1002/ajb2.16327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 03/11/2024] [Accepted: 03/12/2024] [Indexed: 05/29/2024]
Abstract
PREMISE Quaternary climatic fluctuations and long-distance seed dispersal across the sea are critical factors affecting the distribution of coastal plants, but the spatiotemporal nature of population expansion and distribution change of East Asian coastal plants during this period are rarely examined. To explore this process, we investigated the genome-wide phylogenetic patterns of Euphorbia jolkinii Boiss. (Euphorbiaceae), which grows widely on littoral areas of Japan, Korea, and Taiwan. METHODS We used plastome sequences and genome-wide single nucleotide polymorphisms in samples across the species range to reveal phylogeographic patterns and spatiotemporal distributional changes. We conducted ecological niche modeling for the present and the last glacial maximum (LGM). RESULTS Genetic differentiation was observed between the northern and southern populations of E. jolkinii, separated by the major biogeographic boundary, the Tokara Gap. These two groups of populations differentiated during the glacial period and subsequently intermingled in the intermorainic areas of the central Ryukyu Islands after the LGM. Ecological niche models suggested that the potential range of E. jolkinii was restricted to southern Kyushu; however, it was widespread in the southern Ryukyu Islands and Taiwan during the LGM. CONCLUSIONS This study provides evidence of genetic differentiation among coastal plant populations separated by the prominent biogeographical boundary. Although coastal plants are typically expected to maintain population connectivity through sea-drifted seed dispersal, our findings suggest that genetic differences may arise because of a combination of limited gene flow and changes in climate during the glacial period.
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Affiliation(s)
- Hiroyuki Iwata
- Department of Botany, Faculty of Science, Kyoto University, Kyoto, Japan
| | - Takuro Ito
- Botanical Gardens, Tohoku University, Sendai, Japan
| | - Jong-Soo Park
- Honam National Institute of Biological Resources, Mokpo-si, Jeollanam-do, South Korea
| | - Goro Kokubugata
- Department of Botany, National Museum of Nature and Science, Amakubo, Tsukuba, Japan
| | | | - Takahide Kurosawa
- Faculty of Symbiotic System Science, Fukushima University, Fukushima, Japan
| | - Akihiro Nishimura
- Department of Botany, Graduate School of Science, Kyoto University, Kyoto, Japan
| | - Hiroshi Noda
- Department of Botany, Graduate School of Science, Kyoto University, Kyoto, Japan
| | - Koji Takayama
- Department of Botany, Graduate School of Science, Kyoto University, Kyoto, Japan
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Choi I, Han E, Wojciechowski MF, Heo T, Park J, Yang J, Gantsetseg A, Cheon K, Tamaki I, Lee J. The genetic structure and demographic history of Zabelia tyaihyonii, endemic to Korean limestone karst forests, based on genome-wide SNP markers. Ecol Evol 2023; 13:e10252. [PMID: 37404698 PMCID: PMC10316687 DOI: 10.1002/ece3.10252] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 06/13/2023] [Accepted: 06/20/2023] [Indexed: 07/06/2023] Open
Abstract
Similar to the global phenomenon, many plant species endemic to Korean limestone karst forests are at risk of extinction due to human intervention. Zabelia tyaihyonii is a familiar shrub, called "Hardy abelia" and "Fragrant abelia" growing in the karst forests of Korea, where it is one of the most threatened species. We investigated the genetic structure and demographic history of Z. tyaihyonii, which allow us to develop appropriate conservation and management strategies. The genetic structure was evaluated using a total of 187 samples from 14 populations, covering the entire distribution of Z. tyaihyonii in South Korea. We utilized 254 and 1753 SNP loci obtained via MIG-seq (Multiplexed ISSR Genotyping by sequencing) for structure and demographic analyses, respectively. The population demographic modeling was performed with site frequency spectrum. To gain further historical insights, we also employed ENM (Ecological Niche Modeling). We found two distinct clusters (CLI and CLII) of ancient origin (ca. 490 ka). Despite CLII experiencing a more severe bottleneck, both clusters showed similar levels of genetic diversity, indicating mutual historical gene flow. Their historical distribution range seems to have changed very little. We proposed a historical distribution scenario for Z. tyaihyonii, taking into account its intrinsic factors, and emphasized a more complex response to Quaternary climate change beyond simple allopatric speciation models. These findings provide valuable insights for conservation and management strategies for Z. tyaihyonii.
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Affiliation(s)
- In‐Su Choi
- Department of Biological Sciences and BiotechnologyHannam UniversityDaejeonKorea
| | - Eun‐Kyeong Han
- Department of Biology EducationChonnam National UniversityGwangjuKorea
| | | | - Tae‐Im Heo
- Division of Baekdudaegan Biodiversity ConservationBaekdudaegan National ArboretumBonghwaKorea
| | - Jong‐Soo Park
- Division of BotanyHonam National Institute of Biological ResourcesMokpoKorea
| | - Jong‐Cheol Yang
- Division of Baekdudaegan Biodiversity ConservationBaekdudaegan National ArboretumBonghwaKorea
| | | | | | | | - Jung‐Hyun Lee
- Department of Biology EducationChonnam National UniversityGwangjuKorea
- School of Life SciencesArizona State UniversityTempeArizonaUSA
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Han EK, Tamaki I, Oh SH, Park JS, Cho WB, Jin DP, Kim BY, Yang S, Son DC, Choi HJ, Gantsetseg A, Isagi Y, Lee JH. Genetic and demographic signatures accompanying the evolution of the selfing syndrome in Daphne kiusiana, an evergreen shrub. ANNALS OF BOTANY 2023; 131:751-767. [PMID: 36469429 PMCID: PMC10184445 DOI: 10.1093/aob/mcac142] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 11/23/2022] [Indexed: 05/16/2023]
Abstract
BACKGROUND AND AIMS The evolution of mating systems from outcrossing to self-fertilization is a common transition in flowering plants. This shift is often associated with the 'selfing syndrome', which is characterized by less visible flowers with functional changes to control outcrossing. In most cases, the evolutionary history and demographic dynamics underlying the evolution of the selfing syndrome remain poorly understood. METHODS Here, we characterize differences in the demographic genetic consequences and associated floral-specific traits between two distinct geographical groups of a wild shrub, Daphne kiusiana, endemic to East Asia; plants in the eastern region (southeastern Korea and Kyushu, Japan) exhibit smaller and fewer flowers compared to those of plants in the western region (southwestern Korea). Genetic analyses were conducted using nuclear microsatellites and chloroplast DNA (multiplexed phylogenetic marker sequencing) datasets. KEY RESULTS A high selfing rate with significantly increased homozygosity characterized the eastern lineage, associated with lower levels of visibility and herkogamy in the floral traits. The two lineages harboured independent phylogeographical histories. In contrast to the western lineage, the eastern lineage showed a gradual reduction in the effective population size with no signs of a severe bottleneck despite its extreme range contraction during the last glacial period. CONCLUSIONS Our results suggest that the selfing-associated morphological changes in D. kiusiana are of relatively old origin (at least 100 000 years ago) and were driven by directional selection for efficient self-pollination. We provide evidence that the evolution of the selfing syndrome in D. kiusiana is not strongly associated with a severe population bottleneck.
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Affiliation(s)
- Eun-Kyeong Han
- Department of Biology Education, Chonnam National University, Gwangju 61186, Republic of Korea
| | - Ichiro Tamaki
- Gifu Academy of Forest Science and Culture, 88 Sodai, Mino, Gifu 501-3714, Japan
| | - Sang-Hun Oh
- Department of Biology, Daejeon University, Daejeon 34520, Republic of Korea
| | - Jong-Soo Park
- Department of Botany, Honam National Institute of Biological Resources, Mokpo 58762, Republic of Korea
| | - Won-Bum Cho
- Department of Plant Variety Protection, National Forest Seed and Variety Center, Chungju 27495, Republic of Korea
| | - Dong-Pil Jin
- Urban Biodiversity Research Division, Sejong National Arboretum, Sejong 30106, Republic of Korea
| | - Bo-Yun Kim
- Plant Resources Division, National Institute of Biological Resources, Incheon 22689, Republic of Korea
| | - Sungyu Yang
- Herbal Medicine Resources Research Center, Korea Institute of Oriental Medicine, Naju 58245, Republic of Korea
| | - Dong Chan Son
- Division of Forest Biodiversity and Herbarium, Korea National Arboretum, Pocheon 11186, Republic of Korea
| | - Hyeok-Jae Choi
- Department of Biology and Chemistry, Changwon National University, Changwon 51140, Republic of Korea
| | - Amarsanaa Gantsetseg
- Department of Biology Education, Chonnam National University, Gwangju 61186, Republic of Korea
| | - Yuji Isagi
- Division of Forest and Biomaterials Science, Graduate School of Agriculture, Kyoto University, Kyoto 606-8502, Japan
| | - Jung-Hyun Lee
- Department of Biology Education, Chonnam National University, Gwangju 61186, Republic of Korea
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Spatial and temporal changes in moth assemblages along an altitudinal gradient, Jeju-do island. Sci Rep 2022; 12:20534. [PMID: 36446881 PMCID: PMC9709042 DOI: 10.1038/s41598-022-24600-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Accepted: 11/17/2022] [Indexed: 11/30/2022] Open
Abstract
Montane species on islands attract attention due to their small and isolated populations and limited dispersal potential, making them vulnerable to extinction. We investigated the diversity pattern of moth assemblages over the 12-years-period (2009-2020) at 11 study plots on an island mountain (Mount Hallasan, Jeju-do Island, South Korea) to assess the changes in the moth assemblages in terms of species composition, richness, and abundances. We expected to find a decline in the number of species at these sites, given the reported decline in similar taxa in other temperate regions, such as Europe and North America. In contrast, we found that the numbers of species and individuals of moth populations on the island mountain have not significantly changed, except at the high-elevation sites, where the number of species has increased. Our results also show that the numbers of species and individuals are closely related to energy availability, actual evapotranspiration. Moreover, we found that the species composition during the study period has not been greatly changed, except at the lowermost and uppermost elevations. The mechanism driving this high dissimilarity of moth assemblages differed: the low-elevation site experienced high temporal turnover, and the high elevation sites also experienced high temporal turnover and nestedness resulting from active species replacement due to a recent forest fire and vegetation changes and the geographic and ecological constraints of the high elevations. To date, the moth species diversity of the temperate forests of the island mountain is not showing a drastic change. However, we observed that the moth assemblages had changed the number of species and individuals at low and high elevations. Given the biological and ecological limitations of moths (ectothermic organisms with limited habitat range) and considering the results of our study, we infer that climate change has impacted the diversity and species composition of moths on the island mountain.
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Zhou X, Liu N, Jiang X, Qin Z, Farooq TH, Cao F, Li H. A chromosome-scale genome assembly of Quercus gilva: Insights into the evolution of Quercus section Cyclobalanopsis (Fagaceae). FRONTIERS IN PLANT SCIENCE 2022; 13:1012277. [PMID: 36212339 PMCID: PMC9539764 DOI: 10.3389/fpls.2022.1012277] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Accepted: 09/13/2022] [Indexed: 05/30/2023]
Abstract
Quercus gilva is an ecologically and economically important species of Quercus section Cyclobalanopsis and is a dominant species in evergreen broad-leaved forests in subtropical regions of East Asia. In the present study, we reported a high-quality chromosome-scale genome assembly of Q. gilva, the first reference genome for section Cyclobalanopsis, using the combination of Illumina and PacBio sequencing with Hi-C technologies. The assembled genome size of Q. gilva was 889.71 Mb, with a contig number of 773 and a contig N50 of 28.32 Mb. Hi-C scaffolding anchored 859.07 Mb contigs (96.54% of the assembled genome) onto 12 pseudochromosomes, with a scaffold N50 of 70.35 Mb. A combination of de novo, homology-based, and transcript-based predictions predicted a final set of 36,442 protein-coding genes distributed on 12 pseudochromosomes, and 97.73% of them were functionally annotated. A total of 535.64 Mb (60.20%) of repetitive sequences were identified. Genome evolution analysis revealed that Q. gilva was most closely related to Q. suber and they diverged at 40.35 Ma, and Q. gilva did not experience species-specific whole-genome duplication in addition to the ancient gamma (γ) whole-genome triplication event shared by core eudicot plants. Q. gilva underwent considerable gene family expansion and contraction, with 598 expanded and 6,509 contracted gene families detected. The first chromosome-scale genome of Q. gilva will promote its germplasm conservation and genetic improvement and provide essential resources for better studying the evolution of Quercus section Cyclobalanopsis.
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Affiliation(s)
- Xia Zhou
- College of Forestry, Central South University of Forestry and Technology, Changsha, China
| | - Na Liu
- College of Forestry, Central South University of Forestry and Technology, Changsha, China
| | - Xiaolong Jiang
- College of Forestry, Central South University of Forestry and Technology, Changsha, China
| | - Zhikuang Qin
- College of Forestry, Central South University of Forestry and Technology, Changsha, China
| | - Taimoor Hassan Farooq
- Bangor College China, A Joint Unit of Bangor University and Central South University of Forestry and Technology, Changsha, China
| | - Fuliang Cao
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China
| | - He Li
- College of Forestry, Central South University of Forestry and Technology, Changsha, China
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Genetic Diversity and Structure of Quercus hondae, a Rare Evergreen Oak Species in Southwestern Japan. FORESTS 2022. [DOI: 10.3390/f13040579] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Conservation of rare species is essential for maintaining ecosystem function. Quercus hondae is a rare evergreen oak species (Cyclobalanopsis) endemic to Japan. This species is found in several locations in Southwestern Japan; small populations remain in the tutelary forests of the Japanese shrine. To evaluate the genetic diversity and phylogeographic structure of this rare species, 11 microsatellite loci and chloroplast DNA sequences are analyzed for 12 populations of Q. hondae and 8 populations of the more widespread congeneric species, Q. glauca. It is found that heterozygosity at both the population and species level is substantially lower in Q. hondae than in Q. glauca. Genetic differentiation among populations of Q. hondae was high, in contrast to Q. glauca, in which populations exhibit largely insignificant differentiation. STRUCTURE analysis shows that at K = 7, the clusters largely corresponded to major predefined populations. This study suggests that there is little gene flow among extant Q. hondae populations and that Q. hondae is genetically differentiated due to the greater effect of genetic drift in small populations. This pattern is in sharp contrast to that of a more common congeneric species, which will be an important consideration in the conservation of Q. hondae.
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Fifer JE, Yasuda N, Yamakita T, Bove CB, Davies SW. Genetic divergence and range expansion in a western North Pacific coral. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 813:152423. [PMID: 34942242 DOI: 10.1016/j.scitotenv.2021.152423] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2021] [Revised: 12/09/2021] [Accepted: 12/11/2021] [Indexed: 06/14/2023]
Abstract
Coral poleward range expansions have recently been observed in response to warming oceans. Range expansion can lead to reduced genetic diversity and increased frequency of deleterious mutations that were rare in core populations, potentially limiting the ability for adaptation and persistence in novel environments. Successful expansions that overcome these founder effects and colonize new habitat have been attributed to multiple introductions from different sources, hybridization with native populations, or rapid adaptive evolution. Here, we investigate population genomic patterns of the reef-building coral Acropora hyacinthus along a latitudinal cline that includes a well-established range expansion front in Japan using 2b-RAD sequencing. A total of 184 coral samples were collected across seven sites spanning from ~24°N to near its northern range front at ~33°N. We uncover the presence of three cryptic lineages of A. hyacinthus, which occupy discrete reefs within this region. Only one lineage is present along the expansion front and we find evidence for its historical occupation of marginal habitats. Within this lineage we also find evidence of bottleneck pressures associated with expansion events including higher clonality, increased linkage disequilibrium, and lower genetic diversity in range edge populations compared to core populations. Asymmetric migration between populations was also detected with lower migration from edge sites. Lastly, we describe genomic signatures of local adaptation potentially attributed to lower winter temperatures experienced at the more recently expanded northern populations. Together these data illuminate the genomic consequences of range expansion in a coral and highlight how adaptation to discrete environments along expansion fronts may facilitate further range expansion in this temperate coral lineage.
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Affiliation(s)
- James E Fifer
- Department of Biology, Boston University, Boston, MA 02215, USA.
| | - Nina Yasuda
- Department of Marine Biology and Environmental Sciences, Faculty of Agriculture, University of Miyazaki, 1-1 Gakuenkibanadainishi, Miyazaki 889-2192, Japan.
| | - Takehisa Yamakita
- Marine Biodiversity and Environmental Assessment Research Center, Japan Agency for Marine-Earth Science and Technology, 2-15 Natsushimacho, Yokosuka, Kanagawa 237-0061, Japan
| | - Colleen B Bove
- Department of Biology, Boston University, Boston, MA 02215, USA
| | - Sarah W Davies
- Department of Biology, Boston University, Boston, MA 02215, USA
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Evolutionary Dynamics of Wild Populations. Genes (Basel) 2021; 12:genes12050778. [PMID: 34069746 PMCID: PMC8161051 DOI: 10.3390/genes12050778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Accepted: 05/12/2021] [Indexed: 11/17/2022] Open
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Jin DP, Park JS, Choi BH. Historical migration and taxonomic entity of Korean endemic shrub Lespedeza maritima (Fabaceae) based on microsatellite loci. AOB PLANTS 2021; 13:plab009. [PMID: 33767807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Accepted: 02/11/2021] [Indexed: 06/12/2023]
Abstract
Various plant species are endemic to the Korean Peninsula, but their evolutionary divergence and establishment are poorly understood. One of these, Lespedeza maritima, has been proposed as either a hybrid (L. cyrtobotrya × L. maximowiczii) or a synonym of L. thunbergii. A distinct taxon, L. uekii, has been proposed for inland populations. We investigated genetic diversity and structure in L. maritima and related taxa to resolve this. Genotypes of L. maritima (n = 244, including L. uekii) were determined using 12 microsatellite loci, then compared with those of related species. Genetic diversity within L. maritima was estimated, and Bayesian clustering analysis was used to represent its genetic structure and that of related taxa. Its distribution during the last glacial maximum (LGM) was predicted using ecological niche modelling (ENM). Neighbour-joining (NJ) analysis and principal coordinate analysis (PCoA) were used to investigate relationships among species. Bayesian tree based on nuclear ribosomal internal transcribed spacers (nrITS) was also reconstructed to show relationships and divergence time among species. Morphological features were examined using flower characteristics. In result, expected heterozygosity (H E) and allelic richness (A R) within L. maritima were higher in southern than northern populations. Bayesian clustering analysis largely assigned populations to two clusters (K = 2) (south vs. north). The ENM showed that L. maritima occurred around the East China Sea and Korean Strait land bridge during the LGM. Compared with other Lespedeza species, L. maritima was assigned to an independent cluster (K = 2-5), supported by the NJ, PCoA, Bayesian tree and morphological examination results. Lespedeza maritima and L. uekii were clustered to one clade on Bayesian tree. Given results, current L. maritima populations derive from post-LGM colonization away from southern refugia. The type L. uekii, which grows inland, is thought synonym of L. maritima. In addition, L. maritima is considered a distinct species, compared with related taxa.
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Affiliation(s)
- Dong-Pil Jin
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
| | - Jong-Soo Park
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
| | - Byoung-Hee Choi
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
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Jin DP, Park JS, Choi BH. Historical migration and taxonomic entity of Korean endemic shrub Lespedeza maritima (Fabaceae) based on microsatellite loci. AOB PLANTS 2021; 13:plab009. [PMID: 33767807 PMCID: PMC7983312 DOI: 10.1093/aobpla/plab009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Accepted: 02/11/2021] [Indexed: 07/06/2023]
Abstract
Various plant species are endemic to the Korean Peninsula, but their evolutionary divergence and establishment are poorly understood. One of these, Lespedeza maritima, has been proposed as either a hybrid (L. cyrtobotrya × L. maximowiczii) or a synonym of L. thunbergii. A distinct taxon, L. uekii, has been proposed for inland populations. We investigated genetic diversity and structure in L. maritima and related taxa to resolve this. Genotypes of L. maritima (n = 244, including L. uekii) were determined using 12 microsatellite loci, then compared with those of related species. Genetic diversity within L. maritima was estimated, and Bayesian clustering analysis was used to represent its genetic structure and that of related taxa. Its distribution during the last glacial maximum (LGM) was predicted using ecological niche modelling (ENM). Neighbour-joining (NJ) analysis and principal coordinate analysis (PCoA) were used to investigate relationships among species. Bayesian tree based on nuclear ribosomal internal transcribed spacers (nrITS) was also reconstructed to show relationships and divergence time among species. Morphological features were examined using flower characteristics. In result, expected heterozygosity (H E) and allelic richness (A R) within L. maritima were higher in southern than northern populations. Bayesian clustering analysis largely assigned populations to two clusters (K = 2) (south vs. north). The ENM showed that L. maritima occurred around the East China Sea and Korean Strait land bridge during the LGM. Compared with other Lespedeza species, L. maritima was assigned to an independent cluster (K = 2-5), supported by the NJ, PCoA, Bayesian tree and morphological examination results. Lespedeza maritima and L. uekii were clustered to one clade on Bayesian tree. Given results, current L. maritima populations derive from post-LGM colonization away from southern refugia. The type L. uekii, which grows inland, is thought synonym of L. maritima. In addition, L. maritima is considered a distinct species, compared with related taxa.
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Affiliation(s)
- Dong-Pil Jin
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
| | - Jong-Soo Park
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
| | - Byoung-Hee Choi
- Department of Biological Sciences, Inha University, 100, Inha-ro, Michuhol-gu, Incheon 22212, Republic of Korea
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Cho WB, Han EK, Choi IS, Kwak M, Kim JH, Kim BY, Lee JH. The complete plastid genome sequence of Quercus acuta (Fagaceae), an evergreen broad-leaved oak endemic to East Asia. Mitochondrial DNA B Resour 2021; 6:320-322. [PMID: 33659663 PMCID: PMC7872549 DOI: 10.1080/23802359.2020.1866449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022] Open
Abstract
We are reporting the complete plastid genome (plastome) of Quercus acuta, an evergreen broad-leaved oak endemic to East Asia. This species is important for maintaining the warm-temperate evergreen forest biome in East Asia. The Q. acuta plastome is 160,522 base pairs (bp) long, with two inverted repeat (IR) regions (25,839 bp each) that separate a large single copy (LSC) region (90,199 bp) and a small single copy (SSC) region (18,645 bp). The phylogenetic tree shows that Quercus acuta is closely related to Quercus sichourensis with strong bootstrap support.
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Affiliation(s)
- Won-Bum Cho
- Department of Biology Education, Chonnam National University, Gwangju, Republic of Korea
| | - Eun-Kyeong Han
- Department of Biological Sciences and Biotechnology, Chonnam National University, Gwangju, Republic of Korea
| | - In-Su Choi
- School of Life Sciences, Arizona State University, Tempe, AZ, USA
| | - Myounghai Kwak
- Biological and Genetic Resources Utilization Division, National Institute of Biological Resources, Incheon, Republic of Korea
| | - Jung-Hyun Kim
- Plant Resources Division, National Institute of Biological Resources, Incheon, Republic of Korea
| | - Bo-Yun Kim
- Plant Resources Division, National Institute of Biological Resources, Incheon, Republic of Korea
| | - Jung-Hyun Lee
- Department of Biology Education, Chonnam National University, Gwangju, Republic of Korea
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