Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus
Liriope platyphylla F.T. Wang & Tang and Ophiopogon japonicus (Thunb.) Ker Gawl are morphologically similar perennial herbaceous plants belonging to the Asparagaceae family used as evergreen ornamental plants as well as for medicinal purposes. Complete plastid genomes (plastomes) and 45S nuc...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-06-01
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| Series: | Current Plant Biology |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S221466282200010X |
| _version_ | 1817977339748810752 |
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| author | Yeonjeong Lee Hyun-Seung Park Jae-Hyeon Jeon Jee Young Park Seung Hyun Kim Jungmoo Huh Sunmin Woo Do-Won Jeong Tae-Jin Yang |
| author_facet | Yeonjeong Lee Hyun-Seung Park Jae-Hyeon Jeon Jee Young Park Seung Hyun Kim Jungmoo Huh Sunmin Woo Do-Won Jeong Tae-Jin Yang |
| author_sort | Yeonjeong Lee |
| collection | DOAJ |
| description | Liriope platyphylla F.T. Wang & Tang and Ophiopogon japonicus (Thunb.) Ker Gawl are morphologically similar perennial herbaceous plants belonging to the Asparagaceae family used as evergreen ornamental plants as well as for medicinal purposes. Complete plastid genomes (plastomes) and 45S nuclear ribosomal DNA (45S rDNA) sequences were obtained from two L. platyphylla accessions and one O. japonicus accessions using low-coverage, whole-genome data. Phylogenomic analysis using plastomes or 45S rDNA of the three accessions showed identical topology. Comparative analysis of the three accessions and representatives of 28 other Asparagaceae species revealed that L. platyphylla and O. japonicus are the most closely related species in the family Asparagaceae. The plastomes were 156,754–157,071 bp and the 45S rDNA transcriptional unit was 5906–5789 bp, providing super-barcoding information. Plastome sequences contained 817 single-nucleotide polymorphisms (SNPs) and 173 insertions or deletions (InDels) at the interspecific level and 88 SNPs and 56 InDels at the intraspecific level. 45S rDNA sequences contained 70 SNPs and 3 InDels at the interspecific level and 12 SNPs and 1 InDel at the intraspecific level. We developed four dominant and two codominant DNA markers based on the plastome diversity for authentication of L. platyphylla and O. japonicus and successfully applied these to ingredients distributed in the herbal medicine market. |
| first_indexed | 2024-04-13T22:14:59Z |
| format | Article |
| id | doaj.art-c93558da2bd3465c95e00adabc863bdd |
| institution | Directory Open Access Journal |
| issn | 2214-6628 |
| language | English |
| last_indexed | 2024-04-13T22:14:59Z |
| publishDate | 2022-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Current Plant Biology |
| spelling | doaj.art-c93558da2bd3465c95e00adabc863bdd2022-12-22T02:27:35ZengElsevierCurrent Plant Biology2214-66282022-06-0130100244Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicusYeonjeong Lee0Hyun-Seung Park1Jae-Hyeon Jeon2Jee Young Park3Seung Hyun Kim4Jungmoo Huh5Sunmin Woo6Do-Won Jeong7Tae-Jin Yang8Department of Agriculture, Forestry and Bioresources, Plant Genomics & Breeding Institute, College of Agriculture & Life Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of KoreaDepartment of Agriculture, Forestry and Bioresources, Plant Genomics & Breeding Institute, College of Agriculture & Life Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of Korea; Department of Integrative Biological Sciences and Industry, Sejong University, Seoul 05006, Republic of KoreaDepartment of Agriculture, Forestry and Bioresources, Plant Genomics & Breeding Institute, College of Agriculture & Life Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of KoreaDepartment of Agriculture, Forestry and Bioresources, Plant Genomics & Breeding Institute, College of Agriculture & Life Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of KoreaCollege of Pharmacy, Yonsei Institute of Pharmaceutical Sciences, Yonsei University, Incheon, Republic of KoreaResearch Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University, Seoul 08826, Republic of KoreaResearch Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University, Seoul 08826, Republic of KoreaDepartment of Food and Nutrition, Dongduk Women's University, Seoul 02478, Republic of KoreaDepartment of Agriculture, Forestry and Bioresources, Plant Genomics & Breeding Institute, College of Agriculture & Life Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of Korea; Corresponding author.Liriope platyphylla F.T. Wang & Tang and Ophiopogon japonicus (Thunb.) Ker Gawl are morphologically similar perennial herbaceous plants belonging to the Asparagaceae family used as evergreen ornamental plants as well as for medicinal purposes. Complete plastid genomes (plastomes) and 45S nuclear ribosomal DNA (45S rDNA) sequences were obtained from two L. platyphylla accessions and one O. japonicus accessions using low-coverage, whole-genome data. Phylogenomic analysis using plastomes or 45S rDNA of the three accessions showed identical topology. Comparative analysis of the three accessions and representatives of 28 other Asparagaceae species revealed that L. platyphylla and O. japonicus are the most closely related species in the family Asparagaceae. The plastomes were 156,754–157,071 bp and the 45S rDNA transcriptional unit was 5906–5789 bp, providing super-barcoding information. Plastome sequences contained 817 single-nucleotide polymorphisms (SNPs) and 173 insertions or deletions (InDels) at the interspecific level and 88 SNPs and 56 InDels at the intraspecific level. 45S rDNA sequences contained 70 SNPs and 3 InDels at the interspecific level and 12 SNPs and 1 InDel at the intraspecific level. We developed four dominant and two codominant DNA markers based on the plastome diversity for authentication of L. platyphylla and O. japonicus and successfully applied these to ingredients distributed in the herbal medicine market.http://www.sciencedirect.com/science/article/pii/S221466282200010XLiriope platyphyllaOphiopogon japonicusPlastome45S rDNADNA barcodingMolecular markers |
| spellingShingle | Yeonjeong Lee Hyun-Seung Park Jae-Hyeon Jeon Jee Young Park Seung Hyun Kim Jungmoo Huh Sunmin Woo Do-Won Jeong Tae-Jin Yang Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus Current Plant Biology Liriope platyphylla Ophiopogon japonicus Plastome 45S rDNA DNA barcoding Molecular markers |
| title | Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus |
| title_full | Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus |
| title_fullStr | Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus |
| title_full_unstemmed | Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus |
| title_short | Complete plastid and 45S rDNA sequences allow authentication of Liriope platyphylla and Ophiopogon japonicus |
| title_sort | complete plastid and 45s rdna sequences allow authentication of liriope platyphylla and ophiopogon japonicus |
| topic | Liriope platyphylla Ophiopogon japonicus Plastome 45S rDNA DNA barcoding Molecular markers |
| url | http://www.sciencedirect.com/science/article/pii/S221466282200010X |
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