Combined metabolomic and transcriptomic analysis reveals the characteristics of the lignan in Isatis indigotica Fortune
•Analyzed the synthase genes and compounds related to the lignan in diploid Isatis indigotica Fortune, tetraploid I.indigotica, and Isatis tinctoria Linnaeus through metabolomic and transcriptomic.•The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin2484...
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| Veröffentlicht in: | Gene 2023-12, Vol.888, p.147752-147752, Article 147752 |
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| creator | Su, Yong Huang, Jiabin Guo, Qiaosheng Shi, Hongzhuan Wei, Min Wang, Chengxiang Zhao, Kun Bao, Tao |
| description | •Analyzed the synthase genes and compounds related to the lignan in diploid Isatis indigotica Fortune, tetraploid I.indigotica, and Isatis tinctoria Linnaeus through metabolomic and transcriptomic.•The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549.•Serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.
Isatis indigotica Fortune is a plant species containing lignan compounds of significant economic value. Its root plays a crucial role in treating viruses and exhibits antitumor, anti-inflammatory, antibacterial, and other biological activities. Now, I. indigotica has been included in Isatis tinctoria Linnaeus. In this study, the roots of diploid I. indigotica, tetraploid I. indigotica, and Isatis tinctoria Linnaeus were analyzed using metabolome and transcriptome analysis. The metabolomic analysis detected 48 lignan metabolites, including Lirioresinol A, Vladinol A, Syringaresinol, Arctigenin, Acanthoside B, and Sesamin as characteristic compounds, without significant variations among the remaining metabolites. The transcriptomic analysis identified 41 differentially expressed phenylpropanoid synthase genes, which were further analyzed for variations in lignan transcriptome profiles across different samples. RT-qPCR analysis also revealed differential genes expression related to lignan biosynthesis pathway among the three sample groups. The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549. Phylogenetic analyses also indicate that Iin14549 may play a role in lignan synthesis. These transcription factor families exhibited high expression in tetraploid I. indigotica, moderate expression in diploid I. indigotica, and low expression in I. tinctoria. The findings of this study can serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Additionally, these results lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway. |
| doi_str_mv | 10.1016/j.gene.2023.147752 |
| format | Article |
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Isatis indigotica Fortune is a plant species containing lignan compounds of significant economic value. Its root plays a crucial role in treating viruses and exhibits antitumor, anti-inflammatory, antibacterial, and other biological activities. Now, I. indigotica has been included in Isatis tinctoria Linnaeus. In this study, the roots of diploid I. indigotica, tetraploid I. indigotica, and Isatis tinctoria Linnaeus were analyzed using metabolome and transcriptome analysis. The metabolomic analysis detected 48 lignan metabolites, including Lirioresinol A, Vladinol A, Syringaresinol, Arctigenin, Acanthoside B, and Sesamin as characteristic compounds, without significant variations among the remaining metabolites. The transcriptomic analysis identified 41 differentially expressed phenylpropanoid synthase genes, which were further analyzed for variations in lignan transcriptome profiles across different samples. RT-qPCR analysis also revealed differential genes expression related to lignan biosynthesis pathway among the three sample groups. The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549. Phylogenetic analyses also indicate that Iin14549 may play a role in lignan synthesis. These transcription factor families exhibited high expression in tetraploid I. indigotica, moderate expression in diploid I. indigotica, and low expression in I. tinctoria. The findings of this study can serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Additionally, these results lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.</description><identifier>ISSN: 0378-1119</identifier><identifier>EISSN: 1879-0038</identifier><identifier>DOI: 10.1016/j.gene.2023.147752</identifier><language>eng</language><publisher>Elsevier B.V</publisher><subject>biosynthesis ; diploidy ; economic valuation ; genes ; germplasm ; Isatis indigotica Fortune ; Isatis tinctoria ; Lignan ; lignans ; metabolites ; Metabolome ; metabolomics ; phylogeny ; tetraploidy ; transcription factors ; Transcriptome ; transcriptomics ; UGTs</subject><ispartof>Gene, 2023-12, Vol.888, p.147752-147752, Article 147752</ispartof><rights>2023 Elsevier B.V.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c410t-f0ff23749a26d2957f6c3b0324d3ef415329e5a130984695a9ef68d7942f6a7f3</citedby><cites>FETCH-LOGICAL-c410t-f0ff23749a26d2957f6c3b0324d3ef415329e5a130984695a9ef68d7942f6a7f3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0378111923005930$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65306</link.rule.ids></links><search><creatorcontrib>Su, Yong</creatorcontrib><creatorcontrib>Huang, Jiabin</creatorcontrib><creatorcontrib>Guo, Qiaosheng</creatorcontrib><creatorcontrib>Shi, Hongzhuan</creatorcontrib><creatorcontrib>Wei, Min</creatorcontrib><creatorcontrib>Wang, Chengxiang</creatorcontrib><creatorcontrib>Zhao, Kun</creatorcontrib><creatorcontrib>Bao, Tao</creatorcontrib><title>Combined metabolomic and transcriptomic analysis reveals the characteristics of the lignan in Isatis indigotica Fortune</title><title>Gene</title><description>•Analyzed the synthase genes and compounds related to the lignan in diploid Isatis indigotica Fortune, tetraploid I.indigotica, and Isatis tinctoria Linnaeus through metabolomic and transcriptomic.•The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549.•Serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.
Isatis indigotica Fortune is a plant species containing lignan compounds of significant economic value. Its root plays a crucial role in treating viruses and exhibits antitumor, anti-inflammatory, antibacterial, and other biological activities. Now, I. indigotica has been included in Isatis tinctoria Linnaeus. In this study, the roots of diploid I. indigotica, tetraploid I. indigotica, and Isatis tinctoria Linnaeus were analyzed using metabolome and transcriptome analysis. The metabolomic analysis detected 48 lignan metabolites, including Lirioresinol A, Vladinol A, Syringaresinol, Arctigenin, Acanthoside B, and Sesamin as characteristic compounds, without significant variations among the remaining metabolites. The transcriptomic analysis identified 41 differentially expressed phenylpropanoid synthase genes, which were further analyzed for variations in lignan transcriptome profiles across different samples. RT-qPCR analysis also revealed differential genes expression related to lignan biosynthesis pathway among the three sample groups. The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549. Phylogenetic analyses also indicate that Iin14549 may play a role in lignan synthesis. These transcription factor families exhibited high expression in tetraploid I. indigotica, moderate expression in diploid I. indigotica, and low expression in I. tinctoria. The findings of this study can serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Additionally, these results lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.</description><subject>biosynthesis</subject><subject>diploidy</subject><subject>economic valuation</subject><subject>genes</subject><subject>germplasm</subject><subject>Isatis indigotica Fortune</subject><subject>Isatis tinctoria</subject><subject>Lignan</subject><subject>lignans</subject><subject>metabolites</subject><subject>Metabolome</subject><subject>metabolomics</subject><subject>phylogeny</subject><subject>tetraploidy</subject><subject>transcription factors</subject><subject>Transcriptome</subject><subject>transcriptomics</subject><subject>UGTs</subject><issn>0378-1119</issn><issn>1879-0038</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><recordid>eNqFkctKAzEUhoMoWC8v4CpLN1NzmSQTcCPFGwhudB3SzElNmUlqkiq-vVPrWs_mwOH7fjj8CF1QMqeEyqv1fAUR5owwPqetUoIdoBntlG4I4d0hmhGuuoZSqo_RSSlrMo0QbIY-F2lchgg9HqHaZRrSGBy2scc121hcDpv6e7LDVwkFZ_gAOxRc3wC7N5utq5BDqcEVnPzPeQiraCMOET8WWycnxD6s0oRYfJdy3UY4Q0d-SoHz332KXu9uXxYPzdPz_ePi5qlxLSW18cR7xlWrLZM900J56fiScNb2HHxLBWcahKWc6K6VWlgNXna90i3z0irPT9HlPneT0_sWSjVjKA6GwUZI22L4FEEFY0L9i7JOEkkl5XRC2R51OZWSwZtNDqPNX4YSsyvErM2uELMrxOwLmaTrvQTTvx8BsikuQHTQhwyumj6Fv_RvqGCVOA</recordid><startdate>20231220</startdate><enddate>20231220</enddate><creator>Su, Yong</creator><creator>Huang, Jiabin</creator><creator>Guo, Qiaosheng</creator><creator>Shi, Hongzhuan</creator><creator>Wei, Min</creator><creator>Wang, Chengxiang</creator><creator>Zhao, Kun</creator><creator>Bao, Tao</creator><general>Elsevier B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope></search><sort><creationdate>20231220</creationdate><title>Combined metabolomic and transcriptomic analysis reveals the characteristics of the lignan in Isatis indigotica Fortune</title><author>Su, Yong ; Huang, Jiabin ; Guo, Qiaosheng ; Shi, Hongzhuan ; Wei, Min ; Wang, Chengxiang ; Zhao, Kun ; Bao, Tao</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c410t-f0ff23749a26d2957f6c3b0324d3ef415329e5a130984695a9ef68d7942f6a7f3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>biosynthesis</topic><topic>diploidy</topic><topic>economic valuation</topic><topic>genes</topic><topic>germplasm</topic><topic>Isatis indigotica Fortune</topic><topic>Isatis tinctoria</topic><topic>Lignan</topic><topic>lignans</topic><topic>metabolites</topic><topic>Metabolome</topic><topic>metabolomics</topic><topic>phylogeny</topic><topic>tetraploidy</topic><topic>transcription factors</topic><topic>Transcriptome</topic><topic>transcriptomics</topic><topic>UGTs</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Su, Yong</creatorcontrib><creatorcontrib>Huang, Jiabin</creatorcontrib><creatorcontrib>Guo, Qiaosheng</creatorcontrib><creatorcontrib>Shi, Hongzhuan</creatorcontrib><creatorcontrib>Wei, Min</creatorcontrib><creatorcontrib>Wang, Chengxiang</creatorcontrib><creatorcontrib>Zhao, Kun</creatorcontrib><creatorcontrib>Bao, Tao</creatorcontrib><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><jtitle>Gene</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Su, Yong</au><au>Huang, Jiabin</au><au>Guo, Qiaosheng</au><au>Shi, Hongzhuan</au><au>Wei, Min</au><au>Wang, Chengxiang</au><au>Zhao, Kun</au><au>Bao, Tao</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Combined metabolomic and transcriptomic analysis reveals the characteristics of the lignan in Isatis indigotica Fortune</atitle><jtitle>Gene</jtitle><date>2023-12-20</date><risdate>2023</risdate><volume>888</volume><spage>147752</spage><epage>147752</epage><pages>147752-147752</pages><artnum>147752</artnum><issn>0378-1119</issn><eissn>1879-0038</eissn><abstract>•Analyzed the synthase genes and compounds related to the lignan in diploid Isatis indigotica Fortune, tetraploid I.indigotica, and Isatis tinctoria Linnaeus through metabolomic and transcriptomic.•The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549.•Serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.
Isatis indigotica Fortune is a plant species containing lignan compounds of significant economic value. Its root plays a crucial role in treating viruses and exhibits antitumor, anti-inflammatory, antibacterial, and other biological activities. Now, I. indigotica has been included in Isatis tinctoria Linnaeus. In this study, the roots of diploid I. indigotica, tetraploid I. indigotica, and Isatis tinctoria Linnaeus were analyzed using metabolome and transcriptome analysis. The metabolomic analysis detected 48 lignan metabolites, including Lirioresinol A, Vladinol A, Syringaresinol, Arctigenin, Acanthoside B, and Sesamin as characteristic compounds, without significant variations among the remaining metabolites. The transcriptomic analysis identified 41 differentially expressed phenylpropanoid synthase genes, which were further analyzed for variations in lignan transcriptome profiles across different samples. RT-qPCR analysis also revealed differential genes expression related to lignan biosynthesis pathway among the three sample groups. The analysis of transcription factors showed that the AP2-EREBP family (Iin24319), MYB family (Iin24843), and WRKY family (Iin08158) displayed expression patterns similar to Iin14549. Phylogenetic analyses also indicate that Iin14549 may play a role in lignan synthesis. These transcription factor families exhibited high expression in tetraploid I. indigotica, moderate expression in diploid I. indigotica, and low expression in I. tinctoria. The findings of this study can serve as a reference for improving the quality of I. indigotica and developing germplasms with high lignan content. Additionally, these results lay a foundation for the functional characterization of UGTs in lignan biosynthesis pathway.</abstract><pub>Elsevier B.V</pub><doi>10.1016/j.gene.2023.147752</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | biosynthesis diploidy economic valuation genes germplasm Isatis indigotica Fortune Isatis tinctoria Lignan lignans metabolites Metabolome metabolomics phylogeny tetraploidy transcription factors Transcriptome transcriptomics UGTs |
| title | Combined metabolomic and transcriptomic analysis reveals the characteristics of the lignan in Isatis indigotica Fortune |
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