RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum
Chrysanthemum morifolium cv. ‘Huaihuang’ has great medicinal and commercial value. However, limited genomic and transcriptional information restricts the further research of ‘Huaihuang’. In this study, using ‘Huaihuang’ leaf as the sample, we performed RNA-Seq and obtained numerous unigene sequences...
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| Format: | Article |
| Language: | English |
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University of Belgrade, University of Novi Sad
2019-01-01
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| Series: | Archives of Biological Sciences |
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| Online Access: | http://www.doiserbia.nb.rs/img/doi/0354-4664/2019/0354-46641900032Z.pdf |
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| author | Zhao Xiting Song Lingyu Ma Mengdan Liu Ke Lv Meng Zhu Yuting Jiang Liwei |
| author_facet | Zhao Xiting Song Lingyu Ma Mengdan Liu Ke Lv Meng Zhu Yuting Jiang Liwei |
| author_sort | Zhao Xiting |
| collection | DOAJ |
| description | Chrysanthemum morifolium cv. ‘Huaihuang’ has great medicinal and commercial value. However, limited genomic and transcriptional information restricts the further research of ‘Huaihuang’. In this study, using ‘Huaihuang’ leaf as the sample, we performed RNA-Seq and obtained numerous unigene sequences for functional characterization, and developed new EST-SSR markers. The results show that 176 unigenes were assigned to the ‘antioxidant activity’ in GO annotations, 998 unigenes were assigned to ‘Secondary metabolite biosynthesis, transport and catabolism’ in the KOG database, 381 unigenes were assigned to ‘Biosynthesis of other secondary metabolites’, and 377 unigenes were assigned to ‘Metabolism of terpenoids and polyketides’ in the KEGG database. A number of genes involved in the biosynthesis of flavones and terpenes, such as CHS, CHI, FLS, HMGR and MVD, were found in the transcription data of ‘Huaihuang’. Also, 36 new polymorphic EST-SSR markers were developed and validated. Using them, the genetic diversity was analyzed and a dendrogram of six clades was constructed among 15 medicinal chrysanthemum varieties. The excavated unigenes and identified new ESTSSR markers will provide useful resources for the study of biosynthesis of active components, genetic diversity analysis, population structure identification and in molecular breeding research of ‘Huaihuang’ and related species. |
| first_indexed | 2024-12-21T07:44:26Z |
| format | Article |
| id | doaj.art-dccc7054daac4aea97a51ebca94d6a68 |
| institution | Directory Open Access Journal |
| issn | 0354-4664 1821-4339 |
| language | English |
| last_indexed | 2024-12-21T07:44:26Z |
| publishDate | 2019-01-01 |
| publisher | University of Belgrade, University of Novi Sad |
| record_format | Article |
| series | Archives of Biological Sciences |
| spelling | doaj.art-dccc7054daac4aea97a51ebca94d6a682022-12-21T19:11:14ZengUniversity of Belgrade, University of Novi SadArchives of Biological Sciences0354-46641821-43392019-01-0171348950010.2298/ABS181226032Z0354-46641900032ZRNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemumZhao Xiting0Song Lingyu1Ma Mengdan2Liu Ke3Lv Meng4Zhu Yuting5Jiang Liwei6College of Life Sciences, Henan Normal University, Xinxiang, China + Engineering Technology Research Center of Nursing and Utilization of Genuine Chinese Crude Drugs in Henan Province, Xinxiang, China + Engineering Laboratory of Biotechnology for Green MeCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaCollege of Life Sciences, Henan Normal University, Xinxiang, ChinaChrysanthemum morifolium cv. ‘Huaihuang’ has great medicinal and commercial value. However, limited genomic and transcriptional information restricts the further research of ‘Huaihuang’. In this study, using ‘Huaihuang’ leaf as the sample, we performed RNA-Seq and obtained numerous unigene sequences for functional characterization, and developed new EST-SSR markers. The results show that 176 unigenes were assigned to the ‘antioxidant activity’ in GO annotations, 998 unigenes were assigned to ‘Secondary metabolite biosynthesis, transport and catabolism’ in the KOG database, 381 unigenes were assigned to ‘Biosynthesis of other secondary metabolites’, and 377 unigenes were assigned to ‘Metabolism of terpenoids and polyketides’ in the KEGG database. A number of genes involved in the biosynthesis of flavones and terpenes, such as CHS, CHI, FLS, HMGR and MVD, were found in the transcription data of ‘Huaihuang’. Also, 36 new polymorphic EST-SSR markers were developed and validated. Using them, the genetic diversity was analyzed and a dendrogram of six clades was constructed among 15 medicinal chrysanthemum varieties. The excavated unigenes and identified new ESTSSR markers will provide useful resources for the study of biosynthesis of active components, genetic diversity analysis, population structure identification and in molecular breeding research of ‘Huaihuang’ and related species.http://www.doiserbia.nb.rs/img/doi/0354-4664/2019/0354-46641900032Z.pdfchrysanthemum morifolium cv. ‘huaihuang’medicinal chrysanthemumrna-seqfunctionally related genesest-ssr markers |
| spellingShingle | Zhao Xiting Song Lingyu Ma Mengdan Liu Ke Lv Meng Zhu Yuting Jiang Liwei RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum Archives of Biological Sciences chrysanthemum morifolium cv. ‘huaihuang’ medicinal chrysanthemum rna-seq functionally related genes est-ssr markers |
| title | RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum |
| title_full | RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum |
| title_fullStr | RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum |
| title_full_unstemmed | RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum |
| title_short | RNA-Seq for excavation of genes involved in the biosynthesis of primary active components and identification of new EST-SSR markers in medicinal chrysanthemum |
| title_sort | rna seq for excavation of genes involved in the biosynthesis of primary active components and identification of new est ssr markers in medicinal chrysanthemum |
| topic | chrysanthemum morifolium cv. ‘huaihuang’ medicinal chrysanthemum rna-seq functionally related genes est-ssr markers |
| url | http://www.doiserbia.nb.rs/img/doi/0354-4664/2019/0354-46641900032Z.pdf |
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