Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis
Abstract Background Dendrobium huoshanense C.Z. Tang et S.J. Cheng is a traditional Chinese herbal medicine with high medicinal value in China. Polysaccharides and alkaloids are its main active ingredients. To understand the difference of main active ingredients in different tissues, we determined t...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2018-12-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12864-018-5305-6 |
| _version_ | 1818935986904629248 |
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| author | Yingdan Yuan Maoyun Yu Zhaohui Jia Xue’er Song Yingquan Liang Jinchi Zhang |
| author_facet | Yingdan Yuan Maoyun Yu Zhaohui Jia Xue’er Song Yingquan Liang Jinchi Zhang |
| author_sort | Yingdan Yuan |
| collection | DOAJ |
| description | Abstract Background Dendrobium huoshanense C.Z. Tang et S.J. Cheng is a traditional Chinese herbal medicine with high medicinal value in China. Polysaccharides and alkaloids are its main active ingredients. To understand the difference of main active ingredients in different tissues, we determined the contents of polysaccharides and alkaloids in the roots, stems and leaves of D. huoshanense. In order to explore the reasons for the differences of active ingredients at the level of transcription, we selected roots, stems and leaves of D. huoshanenese for transcriptome sequencing and pathway mining. Results The contents of polysaccharides and alkaloids of D. huoshanense were determined and it was found that there were significant differences in different tissues. A total of 716,634,006 clean reads were obtained and 478,361 unigenes were assembled by the Illumina platform sequencing. We identified 1407 carbohydrate-active related unigenes against CAZy database including 447 glycosyltransferase genes (GTs), 818 glycoside hydrolases (GHs), 60 carbohydrate esterases (CEs), 62 carbohydrate-binding modules (CBMs), and 20 polysaccharide lyases (PLs). In the glycosyltransferases (GTs) family, 315 differential expression genes (DEGs) were identified. In total, 124 and 58 DEGs were associated with the biosynthesis of alkaloids in Dh_L vs. Dh_S and Dh_R vs. Dh_L, respectively. A total of 62 DEGs associated with the terpenoid pathway were identified between Dh_R and Dh_S. Five key enzyme genes involved in the terpenoids pathway were identified, and their expression patterns in different tissues was validated using quantitative real-time PCR. Conclusions In summary, our study presents a transcriptome profile of D. huoshanense. These data contribute to our deeper relevant researches on active ingredients and provide useful insights into the molecular mechanisms regulating polysaccharides and alkaloids in Dendrobium. |
| first_indexed | 2024-12-20T05:28:53Z |
| format | Article |
| id | doaj.art-5ebdc60b7e5d4e7b8e47debfe8d0cb9e |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-20T05:28:53Z |
| publishDate | 2018-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-5ebdc60b7e5d4e7b8e47debfe8d0cb9e2022-12-21T19:51:49ZengBMCBMC Genomics1471-21642018-12-0119111610.1186/s12864-018-5305-6Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesisYingdan Yuan0Maoyun Yu1Zhaohui Jia2Xue’er Song3Yingquan Liang4Jinchi Zhang5Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry UniversityAnhui Tongjisheng Biotechnology Co., LtdCo-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry UniversityInstitute of Pathology and Southwest Cancer Center, The First Affiliated Hospital, Third Military Medical UniversityAnhui Tongjisheng Biotechnology Co., LtdCo-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry UniversityAbstract Background Dendrobium huoshanense C.Z. Tang et S.J. Cheng is a traditional Chinese herbal medicine with high medicinal value in China. Polysaccharides and alkaloids are its main active ingredients. To understand the difference of main active ingredients in different tissues, we determined the contents of polysaccharides and alkaloids in the roots, stems and leaves of D. huoshanense. In order to explore the reasons for the differences of active ingredients at the level of transcription, we selected roots, stems and leaves of D. huoshanenese for transcriptome sequencing and pathway mining. Results The contents of polysaccharides and alkaloids of D. huoshanense were determined and it was found that there were significant differences in different tissues. A total of 716,634,006 clean reads were obtained and 478,361 unigenes were assembled by the Illumina platform sequencing. We identified 1407 carbohydrate-active related unigenes against CAZy database including 447 glycosyltransferase genes (GTs), 818 glycoside hydrolases (GHs), 60 carbohydrate esterases (CEs), 62 carbohydrate-binding modules (CBMs), and 20 polysaccharide lyases (PLs). In the glycosyltransferases (GTs) family, 315 differential expression genes (DEGs) were identified. In total, 124 and 58 DEGs were associated with the biosynthesis of alkaloids in Dh_L vs. Dh_S and Dh_R vs. Dh_L, respectively. A total of 62 DEGs associated with the terpenoid pathway were identified between Dh_R and Dh_S. Five key enzyme genes involved in the terpenoids pathway were identified, and their expression patterns in different tissues was validated using quantitative real-time PCR. Conclusions In summary, our study presents a transcriptome profile of D. huoshanense. These data contribute to our deeper relevant researches on active ingredients and provide useful insights into the molecular mechanisms regulating polysaccharides and alkaloids in Dendrobium.http://link.springer.com/article/10.1186/s12864-018-5305-6Dendrobium huoshanenseTranscriptomePolysaccharides synthesisAlkaloids synthesisGlycosyltransferase |
| spellingShingle | Yingdan Yuan Maoyun Yu Zhaohui Jia Xue’er Song Yingquan Liang Jinchi Zhang Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis BMC Genomics Dendrobium huoshanense Transcriptome Polysaccharides synthesis Alkaloids synthesis Glycosyltransferase |
| title | Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| title_full | Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| title_fullStr | Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| title_full_unstemmed | Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| title_short | Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| title_sort | analysis of dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis |
| topic | Dendrobium huoshanense Transcriptome Polysaccharides synthesis Alkaloids synthesis Glycosyltransferase |
| url | http://link.springer.com/article/10.1186/s12864-018-5305-6 |
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