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Jeon MJ, Roy NS, Choi BS, Oh JY, Kim YI, Park HY, Um T, Kim NS, Kim S, Choi IY. Identifying Terpenoid Biosynthesis Genes in Euphorbia maculata via Full-Length cDNA Sequencing. Molecules 2022; 27:molecules27144591. [PMID: 35889464 PMCID: PMC9316252 DOI: 10.3390/molecules27144591] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 07/18/2022] [Accepted: 07/18/2022] [Indexed: 11/16/2022] Open
Abstract
The annual herb Euphorbia maculata L. produces anti-inflammatory and biologically active substances such as triterpenoids, tannins, and polyphenols, and it is used in traditional Chinese medicine. Of these bioactive compounds, terpenoids, also called isoprenoids, are major secondary metabolites in E. maculata. Full-length cDNA sequencing was carried out to characterize the transcripts of terpenoid biosynthesis reference genes and determine the copy numbers of their isoforms using PacBio SMRT sequencing technology. The Illumina short-read sequencing platform was also employed to identify differentially expressed genes (DEGs) in the secondary metabolite pathways from leaves, roots, and stems. PacBio generated 62 million polymerase reads, resulting in 81,433 high-quality reads. From these high-quality reads, we reconstructed a genome of 20,722 genes, in which 20,246 genes (97.8%) did not have paralogs. About 33% of the identified genes had two or more isoforms. DEG analysis revealed that the expression level differed among gene paralogs in the leaf, stem, and root. Whole sets of paralogs and isoforms were identified in the mevalonic acid (MVA), methylerythritol phosphate (MEP), and terpenoid biosynthesis pathways in the E. maculata L. The nucleotide information will be useful for identifying orthologous genes in other terpenoid-producing medicinal plants.
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Affiliation(s)
- Mi Jin Jeon
- Microorganism Resources Division, National Institute of Biological Resources, Incheon 22689, Korea; (M.J.J.); (J.Y.O.)
| | - Neha Samir Roy
- Agriculture and Life Sciences Research Institute, Kangwon National University, Chuncheon 24341, Korea; (N.S.R.); (T.U.)
| | | | - Ji Yeon Oh
- Microorganism Resources Division, National Institute of Biological Resources, Incheon 22689, Korea; (M.J.J.); (J.Y.O.)
| | - Yong-In Kim
- On Biological Resource Research Institute, Chuncheon 24239, Korea;
| | - Hye Yoon Park
- Biological Resources Assessment Division, National Institute of Biological Resources, Incheon 22689, Korea;
| | - Taeyoung Um
- Agriculture and Life Sciences Research Institute, Kangwon National University, Chuncheon 24341, Korea; (N.S.R.); (T.U.)
| | - Nam-Soo Kim
- BIT Institute, NBIT Co., Ltd., Chuncheon 24341, Korea;
- Correspondence: (N.-S.K.); (S.K.); (I.-Y.C.); Tel.: +82-10-5522-6472 (N.-S.K.); +82-32-590-7110 (S.K.); +82-33-250-7768 (I.-Y.C.)
| | - Soonok Kim
- Microorganism Resources Division, National Institute of Biological Resources, Incheon 22689, Korea; (M.J.J.); (J.Y.O.)
- Correspondence: (N.-S.K.); (S.K.); (I.-Y.C.); Tel.: +82-10-5522-6472 (N.-S.K.); +82-32-590-7110 (S.K.); +82-33-250-7768 (I.-Y.C.)
| | - Ik-Young Choi
- Agriculture and Life Sciences Research Institute, Kangwon National University, Chuncheon 24341, Korea; (N.S.R.); (T.U.)
- BIT Institute, NBIT Co., Ltd., Chuncheon 24341, Korea;
- Department of Agriculture and Life Industry, Kangwon National University, Chuncheon 24341, Korea
- Correspondence: (N.-S.K.); (S.K.); (I.-Y.C.); Tel.: +82-10-5522-6472 (N.-S.K.); +82-32-590-7110 (S.K.); +82-33-250-7768 (I.-Y.C.)
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Shi G, Li S, Wang Z, Sun D, Zhang S, Guo J, Ai J. EST-SSR markers development and application in an important medicinal plant, Schisandra chinensis (Schisandraceae). BIOTECHNOL BIOTEC EQ 2020. [DOI: 10.1080/13102818.2020.1822756] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
Affiliation(s)
- Guangli Shi
- Laboratory of Fruit, College of Life Science, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Shuang Li
- Management Office of Teaching and Scientific Research Base, Management Faculty of Facility Agricultural Base, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Zhenxing Wang
- Laboratory of Fruit, College of Horticulture, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Dan Sun
- Laboratory of Fruit, College of Horticulture, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Susu Zhang
- Laboratory of Fruit, College of Horticulture, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Jianhui Guo
- Laboratory of Fruit, College of Horticulture, Jilin Agricultural University, Changchun, Jilin, PR China
| | - Jun Ai
- Laboratory of Fruit, College of Horticulture, Jilin Agricultural University, Changchun, Jilin, PR China
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