• Applied Biological Chemistry
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• v.36 no.3
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• pp.208-214
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• 1993

To investigate the gene rearrangement via short repeated sequences in chloroplast DNA, the pattern of heterologous gene clusters containing the 151 bp repeated sequence with the development of plastid was compared in rice and the homologous gene clusters from various plant sources were searched for comparative analysis. Southern blot analysis of rice DNA using rp12 gene containing 151 bp repeated sequence as a probe showed the presence of heterologous gene clusters. Such heterologous gene clusters varied with the development of plastid. Also it was observed that the heterologous gene clusters were observed in all of the rice cultivars used in this work. Finally the comparative analysis of DNA sequence of the homologous gene clusters from various plants showed the evolutionary gene rearragngement via short repeated sequence among plants. These results suggest the possible relationship between the plastid development and gene rearrangement through short repeated sequences.

• Proceedings of the Plant Resources Society of Korea Conference
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• 2020.12a
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• pp.55-55
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• 2020

뫼제비꽃(Viola selkirkii)의 엽록체 DNA 염기서열을 차세대염기서열분석법(NGS)을 이용하여 분석하였다. 재료는 강원도 화천군 일산과 제주도 한라산의 2개체를 사용하였다. 분석결과, 염기서열의 길이는 일산의 뫼제비꽃이 156,774 bp (GC content: 36.30%), 한라산의 뫼제비꽃이 157,451 bp(GC content: 36.30%)로 한라산 개체가 길게 분석되었다. 구간별로 LSC(Large single copy)지역은 한라산 개체(85,950 bp)가 일산 개체(85,930 bp)보다 20 bp 길었으며, SSC(Small single copy)지역은 한라산 개체(17,261 bp)보다 일산 개체가 17,982 bp로 길게 분석되었다. IR(Inverted repeat)지역은 한라산 개체가 27,120 bp로 일산 개체(26,431 bp)보다 길게 분석되었다. 이러한 염기서열 길이의 차이는 종내 개체 간 빈번하게 발생하는 현상으로 IGS와 intron 구간에서 확인 된 단순반복서열의 일부 누락과 IR지역 내의 수축과 확장에 의한 것으로 판단된다. 뫼제비꽃 2개체의 엽록체 게놈을 구성하는 유전자 수는 총 111개로 동일하였으며, protein coding gene 77개, tRNA(transfer RNA) gene 30개, 그리고 rRNA (ribosomal RNA) gene 4개로 구성되어 있었다. 이는 기 발표된 엽록체 DNA 전체 염기서열이 밝혀진 제비꽃속 (Viola) 종류들과 동일한 결과이다.

• Korean Journal of Plant Taxonomy
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• v.42 no.4
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• pp.282-293
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• 2012

Phylogenetic studies were conducted to evaluate the taxonomic relationships among 28 taxa, including 2 outgroups of Korean Campanulaceae, using atpB, atpB-rbcL, atpF-H, matK, rbcL, rpl16, rpoC1 and trnL-F regions sequences in chloroplast DNA. The combined analyses of eight chloroplast DNA regions suggest that Codonopsis and Platycodon basally branches within the phylogenetic tree; Wahlenbergia distinguished an independent clade; Campanula forms a clade; Peracarpa and Asyneuma clade is a sister to the Adenophora-Hanabusaya clade; Hanabusaya is placed within the section Remotiflorae of Adenophora; Adenophora form a clade. Our present results support the generic level, although discordance remained at the infrageneric groups such as section and series based on morphological characteristics in the genus Adenophora.

• Proceedings of the Plant Resources Society of Korea Conference
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• 2021.04a
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• pp.22-22
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• 2021

큰졸방제비꽃(Viola kusanoana)의 엽록체 DNA 염기서열을 밝히고자 차세대염기서열분석법(NGS)을 이용하여 분석하였다. 재료는 경상북도 울릉군 나리분지에 자생하는 개체의 잎을 사용하였다. 염기서열 분석결과, 총 길이는 158,644 bp 였고, GC함량은 36.3%로 분석되었다. 구간별로는 LSC (Large single copy)지역이 86,999 bp (GC content: 33.9%)였고 SSC (Small single copy)지역은 17,439 bp (GC content: 29.9%)으로 분석되었으며 IR (Invertied repeats)지역은 27,103 bp (GC content: 42.2%)로 확인되었다. 유전자는 protein coding gene 77개, tRNA gene 30개, rRNA 4개 등 총 111개로 이는 선행 연구된 제비꽃속 8개 분류군과 유전자의 순서와 방향이 모두 일치하였다. 이를 통해 제비꽃속의 엽록체 게놈의 유전자는 상당히 보존되어 있음을 확인하였다.

• Korean Journal of Plant Taxonomy
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• v.40 no.3
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• pp.157-162
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• 2010

Sequences of the trnL/F intergenic spacer of chloroplast DNA were used to investigate the intraspecific evoution and phylogeography of Sedum takesimense (Crassulaceae). The trnL/F intergeneric spacer sequences from 32 individuals of S. takesimense were either 291 bp (17 samples "without indel" in the following) or 297 bp (15samples "with indel 1") in length due to an indel of 6 bp. Two main cpDNA haplotypes were detected within S. takesimense. The haplotype with indel was found on Ulleung Island and without indel on Ulleung Island and Dok Island. This confirmed the existence of two cpDNA lineages with different geographical distributions. The cpDNA sequence analysis also suggested a putative long-distance dispersal event between Ulleung Island and Dok Island.

• Journal of Life Science
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• v.21 no.2
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• pp.273-278
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• 2011

Plants which had been classified to the Scrophulariaceae of the Lamiales were recently reclassified. Many of them were moved to the other families of Lamiales according to the DNA sequences of the plastid DNA. Among those, Melampyrum roseum, Phtheirospermum japonicum, Pseudolysimachion undulata, Lindernia crustacea and Mazus pumilus were chosen for phylogenetic analyses. DNA sequences of 18S rRNA gene and ITS1 of those plants were determined and deposited into GenBank (accession numbers GU359046, GU359047, GU359048, GU359049, GU359050, respectively). Analyses of those DNA sequences confirmed the current classification done on the basis of the plastid DNA sequences of Melampyrum roseum, Phtheirospermum japonicum and Pseudolysimachion undulata. However, it was not possible to classify Mazus pumilus and Lindernia crustacea due to discrepancies of analyses data.

• Journal of Plant Biotechnology
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• v.43 no.1
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• pp.82-90
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• 2016

Most Araliaceae plant species distributed in Korea are economically important because of their high medicinal values. This study was conducted to develop barcode markers from sequence analysis of chloroplast DNA in 14 taxa of Araliaceae species grown in South Korea. Sequencing of seven chloroplast DNA regions was performed to establish the DNA barcode markers, as suggested by the Consortium for the Barcode of Life (CBOL). From the sequence analysis of chloroplast DNA, we identified specific sequences and nucleotides that allowed us to discriminate among each other 14 Korean Araliaceae species. The sequence in the region of psbA-trnH revealed the most frequent DNA indels and substitutions of all 7 regions studied. This psbA-trnH marker alone can discriminate among all 14 species. There are no differences between Korean and Chinese Panax ginseng in all seven sequenced chloroplast DNA regions. A phylogenetic tree constructed using the seven chloroplast DNA regions revealed that Tetrapanax papyriferus should be classified as an independent clade. The Aralia and Panax genera showed a close phylogenetic relationship. Five species in the Eleutherococcus genus were more closely related to Kalopanax septemlobus than to any Panax species.

• Korean Journal of Plant Taxonomy
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• v.45 no.3
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• pp.213-220
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• 2015

To elucidate the origin and patterns of establishment of insular plants on Ulleungdo Island, maternally inherited chloroplast DNA, which is useful for tracing seed movements, was used. Fagus multinervis, an endemic species that dominated broadleaf deciduous forests on Ulleungdo Island, is an excellent model for such a study. To understand the diversity and spatial distribution of the chloroplast haplotypes of F. multinervis, nucleotide sequences of the psbA-trnH region were determined from 144 individuals sampled throughout the island. Results of a phylogenetic analysis of the region with close relatives of F. multinervis suggest that F. multinervis is sister to a clade of F. japonica and F. engleriana. No haplotype variation was found within F. multinervis. This remarkably low cpDNA haplotype diversity is in contrast to the findings of previous allozyme studies of F. multinervis populations that showed high genetic diversity on Ulleungdo Island. Repeated colonization during the early stage of establishment via birds that migrated from a source area where the F. multinervis cpDNA haplotype was geographically structured may have resulted in the observed pattern of haplotype diversity. Alternatively, long-distance dispersal of seeds of the progenitor of F. multinervis via birds or typhoons to Ulleungdo may have been a single event, whereas the immigration of pollen from the mainland likely occurred frequently. Comparative phylogeographic studies of other species endemic to Ulleungdo Island and their close relatives on the neighboring mainland are necessary for a more complete understanding of the evolution of the island's native species.

• Animal cells and systems
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• v.8
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• pp.74-74
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• 2004

• Korean Journal of Plant Taxonomy
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• v.53 no.2
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• pp.126-147
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• 2023

The taxonomic identity of Elaeagnus ×maritima and E. ×submacrophylla (Elaeagnaceae) in Korea is unclear, yet they are presumed to be hybrid taxa based on their morphology. To determine their hybrid origins, a morphological analysis (field surveys and specimen examinations) and a molecular analysis involving two nuclear ribosomal DNA (nrDNA) regions (internal transcribed spacer and 5S non-transcribed spacer) and one chloroplast DNA (cpDNA) region (matK) were conducted. The morphological analysis revealed that E. ×maritima showed certain morphological similarities to E. glabra, whereas E. ×submacrophylla showed certain morphological similarities to E. pungens. However, the molecular analysis indicated that E. ×maritima exhibited additive species-specific sites of E. glabra and E. macrophylla in the nrDNA regions. Notably, E. ×submacrophylla showed various aspects, with some individuals exhibiting additive species-specific sites of E. pungens and E. macrophylla in the nrDNA and E. macrophylla sequences in the cpDNA regions, some individuals exhibiting E. macrophylla sequences in the nrDNA and E. pungens sequences in the cpDNA regions, and some individuals displaying E. macrophylla sequences in both the nrDNA and cpDNA regions, despite an intermediate morphology between E. pungens and E. macrophylla. These results indicate that these two species are of hybrid origin and frequently cross between parental and hybrid individuals.