The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling
Pholidota chinensis Lindl. is an epiphytic or lithophytic perennial herb of Orchidaceae family used as a garden flower or medicinal plant to treat high blood pressure, dizziness and headache in traditional Chinese medicine. Gastrodin (GAS) is considered as a main bioactive ingredient of this herb bu...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-11-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2022.1024239/full |
| _version_ | 1811244044439781376 |
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| author | Baocai Liu Baocai Liu Baocai Liu Baocai Liu Baocai Liu Jingying Chen Wujun Zhang Yingzhen Huang Yunqing Zhao Seifu Juneidi Aman Dekebo Aman Dekebo Meijuan Wang Le Shi Le Shi Le Shi Le Shi Xuebo Hu Xuebo Hu Xuebo Hu Xuebo Hu |
| author_facet | Baocai Liu Baocai Liu Baocai Liu Baocai Liu Baocai Liu Jingying Chen Wujun Zhang Yingzhen Huang Yunqing Zhao Seifu Juneidi Aman Dekebo Aman Dekebo Meijuan Wang Le Shi Le Shi Le Shi Le Shi Xuebo Hu Xuebo Hu Xuebo Hu Xuebo Hu |
| author_sort | Baocai Liu |
| collection | DOAJ |
| description | Pholidota chinensis Lindl. is an epiphytic or lithophytic perennial herb of Orchidaceae family used as a garden flower or medicinal plant to treat high blood pressure, dizziness and headache in traditional Chinese medicine. Gastrodin (GAS) is considered as a main bioactive ingredient of this herb but the biosynthetic pathway remains unclear in P. chinensis. To elucidate the GAS biosynthesis and identify the related genes in P. chinensis, a comprehensive analysis of transcriptome and metabolome of roots, rhizomes, pseudobulbs and leaves were performed by using PacBio SMART, Illumina Hiseq and Ultra Performance Liquid Chromatography Tandem Mass Spectrometry (UPLC-MS/MS). A total of 1,156 metabolites were identified by UPLC-MS/MS, of which 345 differential metabolites were mainly enriched in phenylpropanoid/phenylalanine, flavone and flavonol biosynthesis. The pseudobulbs make up nearly half of the fresh weight of the whole plant, and the GAS content in the pseudobulbs was also the highest in four tissues. Up to 23,105 Unigenes were obtained and 22,029 transcripts were annotated in the transcriptome analysis. Compared to roots, 7,787, 8,376 and 9,146 differentially expressed genes (DEGs) were identified in rhizomes, pseudobulbs and leaves, respectively. And in total, 80 Unigenes encoding eight key enzymes for GAS biosynthesis, were identified. Particularly, glycosyltransferase, the key enzyme of the last step in the GAS biosynthetic pathway had 39 Unigenes candidates, of which, transcript28360/f2p0/1592, was putatively identified as the most likely candidate based on analysis of co-expression, phylogenetic analysis, and homologous searching. The metabolomics and transcriptomics of pseudobulbs versus roots showed that 8,376 DEGs and 345 DEMs had a substantial association based on the Pearson’s correlation. This study notably enriched the metabolomic and transcriptomic data of P. chinensis, and it provides valuable information for GAS biosynthesis in the plant. |
| first_indexed | 2024-04-12T14:19:05Z |
| format | Article |
| id | doaj.art-c67f45ceb4e24d2a88dfb011edd376b6 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-12T14:19:05Z |
| publishDate | 2022-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-c67f45ceb4e24d2a88dfb011edd376b62022-12-22T03:29:39ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2022-11-011310.3389/fpls.2022.10242391024239The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profilingBaocai Liu0Baocai Liu1Baocai Liu2Baocai Liu3Baocai Liu4Jingying Chen5Wujun Zhang6Yingzhen Huang7Yunqing Zhao8Seifu Juneidi9Aman Dekebo10Aman Dekebo11Meijuan Wang12Le Shi13Le Shi14Le Shi15Le Shi16Xuebo Hu17Xuebo Hu18Xuebo Hu19Xuebo Hu20Institute for Medicinal Plants, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, ChinaInstitute of Agricultural Bioresource, Fujian Academy of Agricultural Sciences, Fuzhou, ChinaInnovation Academy of International Traditional Chinese Medicinal Materials, Huazhong Agricultural University, Wuhan, ChinaNational-Regional Joint Engineering Research Center in Hubei for Medicinal Plant Breeding and Cultivation, Huazhong Agricultural University, Wuhan, ChinaMedicinal Plant Engineering Research Center of Hubei Province, Huazhong Agricultural University, Wuhan, ChinaInstitute of Agricultural Bioresource, Fujian Academy of Agricultural Sciences, Fuzhou, ChinaInstitute of Agricultural Bioresource, Fujian Academy of Agricultural Sciences, Fuzhou, ChinaInstitute of Agricultural Bioresource, Fujian Academy of Agricultural Sciences, Fuzhou, ChinaInstitute of Agricultural Bioresource, Fujian Academy of Agricultural Sciences, Fuzhou, ChinaDepartment of Applied Biology, School of Natural Science, Adama Science and Technology University, Adama, EthiopiaApplied Chemistry Department, School of Applied Natural Sciences, Adama Science and Technology University, Adama, EthiopiaInstitute of Pharmaceutical Sciences, Adama Science and Technology University, Adama, EthiopiaShengnongjia Academy of Forestry, Shengnongjia, Hubei, ChinaInstitute for Medicinal Plants, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, ChinaInnovation Academy of International Traditional Chinese Medicinal Materials, Huazhong Agricultural University, Wuhan, ChinaNational-Regional Joint Engineering Research Center in Hubei for Medicinal Plant Breeding and Cultivation, Huazhong Agricultural University, Wuhan, ChinaMedicinal Plant Engineering Research Center of Hubei Province, Huazhong Agricultural University, Wuhan, ChinaInstitute for Medicinal Plants, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, ChinaInnovation Academy of International Traditional Chinese Medicinal Materials, Huazhong Agricultural University, Wuhan, ChinaNational-Regional Joint Engineering Research Center in Hubei for Medicinal Plant Breeding and Cultivation, Huazhong Agricultural University, Wuhan, ChinaMedicinal Plant Engineering Research Center of Hubei Province, Huazhong Agricultural University, Wuhan, ChinaPholidota chinensis Lindl. is an epiphytic or lithophytic perennial herb of Orchidaceae family used as a garden flower or medicinal plant to treat high blood pressure, dizziness and headache in traditional Chinese medicine. Gastrodin (GAS) is considered as a main bioactive ingredient of this herb but the biosynthetic pathway remains unclear in P. chinensis. To elucidate the GAS biosynthesis and identify the related genes in P. chinensis, a comprehensive analysis of transcriptome and metabolome of roots, rhizomes, pseudobulbs and leaves were performed by using PacBio SMART, Illumina Hiseq and Ultra Performance Liquid Chromatography Tandem Mass Spectrometry (UPLC-MS/MS). A total of 1,156 metabolites were identified by UPLC-MS/MS, of which 345 differential metabolites were mainly enriched in phenylpropanoid/phenylalanine, flavone and flavonol biosynthesis. The pseudobulbs make up nearly half of the fresh weight of the whole plant, and the GAS content in the pseudobulbs was also the highest in four tissues. Up to 23,105 Unigenes were obtained and 22,029 transcripts were annotated in the transcriptome analysis. Compared to roots, 7,787, 8,376 and 9,146 differentially expressed genes (DEGs) were identified in rhizomes, pseudobulbs and leaves, respectively. And in total, 80 Unigenes encoding eight key enzymes for GAS biosynthesis, were identified. Particularly, glycosyltransferase, the key enzyme of the last step in the GAS biosynthetic pathway had 39 Unigenes candidates, of which, transcript28360/f2p0/1592, was putatively identified as the most likely candidate based on analysis of co-expression, phylogenetic analysis, and homologous searching. The metabolomics and transcriptomics of pseudobulbs versus roots showed that 8,376 DEGs and 345 DEMs had a substantial association based on the Pearson’s correlation. This study notably enriched the metabolomic and transcriptomic data of P. chinensis, and it provides valuable information for GAS biosynthesis in the plant.https://www.frontiersin.org/articles/10.3389/fpls.2022.1024239/fullPholidota chinensisgastrodinmetabolometranscriptomemolecular mechanism |
| spellingShingle | Baocai Liu Baocai Liu Baocai Liu Baocai Liu Baocai Liu Jingying Chen Wujun Zhang Yingzhen Huang Yunqing Zhao Seifu Juneidi Aman Dekebo Aman Dekebo Meijuan Wang Le Shi Le Shi Le Shi Le Shi Xuebo Hu Xuebo Hu Xuebo Hu Xuebo Hu The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling Frontiers in Plant Science Pholidota chinensis gastrodin metabolome transcriptome molecular mechanism |
| title | The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling |
| title_full | The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling |
| title_fullStr | The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling |
| title_full_unstemmed | The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling |
| title_short | The gastrodin biosynthetic pathway in Pholidota chinensis Lindl. revealed by transcriptome and metabolome profiling |
| title_sort | gastrodin biosynthetic pathway in pholidota chinensis lindl revealed by transcriptome and metabolome profiling |
| topic | Pholidota chinensis gastrodin metabolome transcriptome molecular mechanism |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2022.1024239/full |
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