Metabolome and transcriptome profiling reveals quality variation and underlying regulation of three ecotypes for Cistanche deserticola
Cistanche deserticola is a plant used both as food and medicine. We are interested in understanding how C. deserticola responds to environmental conditions. Samples were collected from three ecotypes grown in saline–alkali land, grassland and sandy land. Transcriptome and metabolome analysis were pe...
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| Veröffentlicht in: | Plant molecular biology 2020-02, Vol.102 (3), p.253-269 |
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| creator | Sun, Xiao Li, Lin Pei, Jin Liu, Chang Huang, Lin-Fang |
| description | Cistanche deserticola
is a plant used both as food and medicine. We are interested in understanding how
C. deserticola
responds to environmental conditions. Samples were collected from three ecotypes grown in saline–alkali land, grassland and sandy land. Transcriptome and metabolome analysis were performed by using RNA-seq and LC–ESI–MS/MS. Among 578 metabolites identified, 218, 209 and 215 compounds were found differentially produced among the three ecotypes. Particularly, 2′-acetylacteoside, belonging to phenylethanoid glycosides (PhGs) is the most significantly differentially produced with a VIP > 0.5 and fold change > 2, representing a potential chemical marker to distinguish the three ecotypes. RNA-Seq analysis revealed 52,043 unigenes, and 947, 632 and 97 of them were found differentially expressed among the three ecotypes. Analysis of the correlation between the metabolome profiles and transcriptome profiles among three ecotypes identified that the 12 key genes related to PhGs biosynthesis were differentially expressed. Particularly, the expression of
PAL
,
ALDH
and
GOT
genes were significantly up-regulated in saline–alkali land compared to the other two. In summary, we found PhGs content was higher in saline–alkali land compared with other ecotypes. This is likely due to the up-regulation of the PhGs biosynthetic genes in response to the saline–alkali conditions. |
| doi_str_mv | 10.1007/s11103-019-00944-5 |
| format | Article |
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is a plant used both as food and medicine. We are interested in understanding how
C. deserticola
responds to environmental conditions. Samples were collected from three ecotypes grown in saline–alkali land, grassland and sandy land. Transcriptome and metabolome analysis were performed by using RNA-seq and LC–ESI–MS/MS. Among 578 metabolites identified, 218, 209 and 215 compounds were found differentially produced among the three ecotypes. Particularly, 2′-acetylacteoside, belonging to phenylethanoid glycosides (PhGs) is the most significantly differentially produced with a VIP > 0.5 and fold change > 2, representing a potential chemical marker to distinguish the three ecotypes. RNA-Seq analysis revealed 52,043 unigenes, and 947, 632 and 97 of them were found differentially expressed among the three ecotypes. Analysis of the correlation between the metabolome profiles and transcriptome profiles among three ecotypes identified that the 12 key genes related to PhGs biosynthesis were differentially expressed. Particularly, the expression of
PAL
,
ALDH
and
GOT
genes were significantly up-regulated in saline–alkali land compared to the other two. In summary, we found PhGs content was higher in saline–alkali land compared with other ecotypes. This is likely due to the up-regulation of the PhGs biosynthetic genes in response to the saline–alkali conditions.</description><identifier>ISSN: 0167-4412</identifier><identifier>EISSN: 1573-5028</identifier><identifier>DOI: 10.1007/s11103-019-00944-5</identifier><identifier>PMID: 31845304</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Biochemistry ; Biomedical and Life Sciences ; Biosynthesis ; Biosynthetic Pathways - genetics ; Chromatography, Liquid ; Cistanche - genetics ; Cistanche - metabolism ; Ecotype ; Ecotypes ; Environmental conditions ; Food plants ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation, Plant ; Genes, Plant - genetics ; Glucosides - metabolism ; Glycosides ; Glycosides - biosynthesis ; Glycosides - genetics ; Grasslands ; Life Sciences ; Medicinal plants ; Metabolites ; Metabolome ; Molecular Sequence Annotation ; Phenylethyl Alcohol - metabolism ; Plant Pathology ; Plant Sciences ; Ribonucleic acid ; RNA ; Tandem Mass Spectrometry ; Transcriptome</subject><ispartof>Plant molecular biology, 2020-02, Vol.102 (3), p.253-269</ispartof><rights>Springer Nature B.V. 2019</rights><rights>Plant Molecular Biology is a copyright of Springer, (2019). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c375t-58db7d5aeda0089781a7f4926e8f892e709ea0dd26a6e45a25ecd46876bfc3a73</citedby><cites>FETCH-LOGICAL-c375t-58db7d5aeda0089781a7f4926e8f892e709ea0dd26a6e45a25ecd46876bfc3a73</cites><orcidid>0000-0002-6822-0603 ; 0000-0001-9169-3356</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11103-019-00944-5$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11103-019-00944-5$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,778,782,27907,27908,41471,42540,51302</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31845304$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Sun, Xiao</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Pei, Jin</creatorcontrib><creatorcontrib>Liu, Chang</creatorcontrib><creatorcontrib>Huang, Lin-Fang</creatorcontrib><title>Metabolome and transcriptome profiling reveals quality variation and underlying regulation of three ecotypes for Cistanche deserticola</title><title>Plant molecular biology</title><addtitle>Plant Mol Biol</addtitle><addtitle>Plant Mol Biol</addtitle><description>Cistanche deserticola
is a plant used both as food and medicine. We are interested in understanding how
C. deserticola
responds to environmental conditions. Samples were collected from three ecotypes grown in saline–alkali land, grassland and sandy land. Transcriptome and metabolome analysis were performed by using RNA-seq and LC–ESI–MS/MS. Among 578 metabolites identified, 218, 209 and 215 compounds were found differentially produced among the three ecotypes. Particularly, 2′-acetylacteoside, belonging to phenylethanoid glycosides (PhGs) is the most significantly differentially produced with a VIP > 0.5 and fold change > 2, representing a potential chemical marker to distinguish the three ecotypes. RNA-Seq analysis revealed 52,043 unigenes, and 947, 632 and 97 of them were found differentially expressed among the three ecotypes. Analysis of the correlation between the metabolome profiles and transcriptome profiles among three ecotypes identified that the 12 key genes related to PhGs biosynthesis were differentially expressed. Particularly, the expression of
PAL
,
ALDH
and
GOT
genes were significantly up-regulated in saline–alkali land compared to the other two. In summary, we found PhGs content was higher in saline–alkali land compared with other ecotypes. This is likely due to the up-regulation of the PhGs biosynthetic genes in response to the saline–alkali conditions.</description><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Biosynthesis</subject><subject>Biosynthetic Pathways - genetics</subject><subject>Chromatography, Liquid</subject><subject>Cistanche - genetics</subject><subject>Cistanche - metabolism</subject><subject>Ecotype</subject><subject>Ecotypes</subject><subject>Environmental conditions</subject><subject>Food plants</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation, Plant</subject><subject>Genes, Plant - genetics</subject><subject>Glucosides - metabolism</subject><subject>Glycosides</subject><subject>Glycosides - biosynthesis</subject><subject>Glycosides - genetics</subject><subject>Grasslands</subject><subject>Life Sciences</subject><subject>Medicinal plants</subject><subject>Metabolites</subject><subject>Metabolome</subject><subject>Molecular Sequence Annotation</subject><subject>Phenylethyl Alcohol - metabolism</subject><subject>Plant Pathology</subject><subject>Plant Sciences</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>Tandem Mass Spectrometry</subject><subject>Transcriptome</subject><issn>0167-4412</issn><issn>1573-5028</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNp9kU1vVCEUhonR2LH6B1wYEjdurvLNZWkmfjSpcaNrwsC5UxrmMgVuk_kD_d3S3qqJC1cknOd9OeRB6DUl7ykh-kOllBI-EGoGQowQg3yCNlRqPkjCxqdoQ6jSgxCUnaEXtV4T0mNcPUdnnI5CciI26O4bNLfLKR8AuzngVtxcfYnHdn9zLHmKKc57XOAWXKr4ZnEpthO-dSW6FvP8kFrmACWdVnC_pHWSJ9yuCgAGn9vpCBVPueBtrM3N_gpwgAqlRZ-Te4meTb0eXj2e5-jn508_tl-Hy-9fLrYfLwfPtWyDHMNOB-kgOEJGo0fq9CQMUzBOo2GgiQFHQmDKKRDSMQk-CDVqtZs8d5qfo3drb__ZzQK12UOsHlJyM-SlWsaZNoIabTr69h_0Oi9l7tt1SiiuiGK8U2ylfMm1FpjsscSDKydLib23ZFdLtluyD5as7KE3j9XL7gDhT-S3lg7wFah9NO-h_H37P7W_AACvoFs</recordid><startdate>20200201</startdate><enddate>20200201</enddate><creator>Sun, Xiao</creator><creator>Li, Lin</creator><creator>Pei, Jin</creator><creator>Liu, Chang</creator><creator>Huang, Lin-Fang</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>M7P</scope><scope>MBDVC</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-6822-0603</orcidid><orcidid>https://orcid.org/0000-0001-9169-3356</orcidid></search><sort><creationdate>20200201</creationdate><title>Metabolome and transcriptome profiling reveals quality variation and underlying regulation of three ecotypes for Cistanche deserticola</title><author>Sun, Xiao ; Li, Lin ; Pei, Jin ; Liu, Chang ; Huang, Lin-Fang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c375t-58db7d5aeda0089781a7f4926e8f892e709ea0dd26a6e45a25ecd46876bfc3a73</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Biosynthesis</topic><topic>Biosynthetic Pathways - genetics</topic><topic>Chromatography, Liquid</topic><topic>Cistanche - genetics</topic><topic>Cistanche - metabolism</topic><topic>Ecotype</topic><topic>Ecotypes</topic><topic>Environmental conditions</topic><topic>Food plants</topic><topic>Gene expression</topic><topic>Gene Expression Profiling</topic><topic>Gene Expression Regulation, Plant</topic><topic>Genes, Plant - genetics</topic><topic>Glucosides - metabolism</topic><topic>Glycosides</topic><topic>Glycosides - biosynthesis</topic><topic>Glycosides - genetics</topic><topic>Grasslands</topic><topic>Life Sciences</topic><topic>Medicinal plants</topic><topic>Metabolites</topic><topic>Metabolome</topic><topic>Molecular Sequence Annotation</topic><topic>Phenylethyl Alcohol - metabolism</topic><topic>Plant Pathology</topic><topic>Plant Sciences</topic><topic>Ribonucleic acid</topic><topic>RNA</topic><topic>Tandem Mass Spectrometry</topic><topic>Transcriptome</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sun, Xiao</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Pei, Jin</creatorcontrib><creatorcontrib>Liu, Chang</creatorcontrib><creatorcontrib>Huang, Lin-Fang</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Nucleic Acids Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Research Library (Alumni Edition)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection (ProQuest)</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>Research Library Prep</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Research Library</collection><collection>Biological Science Database</collection><collection>Research Library (Corporate)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Plant molecular biology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sun, Xiao</au><au>Li, Lin</au><au>Pei, Jin</au><au>Liu, Chang</au><au>Huang, Lin-Fang</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Metabolome and transcriptome profiling reveals quality variation and underlying regulation of three ecotypes for Cistanche deserticola</atitle><jtitle>Plant molecular biology</jtitle><stitle>Plant Mol Biol</stitle><addtitle>Plant Mol Biol</addtitle><date>2020-02-01</date><risdate>2020</risdate><volume>102</volume><issue>3</issue><spage>253</spage><epage>269</epage><pages>253-269</pages><issn>0167-4412</issn><eissn>1573-5028</eissn><abstract>Cistanche deserticola
is a plant used both as food and medicine. We are interested in understanding how
C. deserticola
responds to environmental conditions. Samples were collected from three ecotypes grown in saline–alkali land, grassland and sandy land. Transcriptome and metabolome analysis were performed by using RNA-seq and LC–ESI–MS/MS. Among 578 metabolites identified, 218, 209 and 215 compounds were found differentially produced among the three ecotypes. Particularly, 2′-acetylacteoside, belonging to phenylethanoid glycosides (PhGs) is the most significantly differentially produced with a VIP > 0.5 and fold change > 2, representing a potential chemical marker to distinguish the three ecotypes. RNA-Seq analysis revealed 52,043 unigenes, and 947, 632 and 97 of them were found differentially expressed among the three ecotypes. Analysis of the correlation between the metabolome profiles and transcriptome profiles among three ecotypes identified that the 12 key genes related to PhGs biosynthesis were differentially expressed. Particularly, the expression of
PAL
,
ALDH
and
GOT
genes were significantly up-regulated in saline–alkali land compared to the other two. In summary, we found PhGs content was higher in saline–alkali land compared with other ecotypes. This is likely due to the up-regulation of the PhGs biosynthetic genes in response to the saline–alkali conditions.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>31845304</pmid><doi>10.1007/s11103-019-00944-5</doi><tpages>17</tpages><orcidid>https://orcid.org/0000-0002-6822-0603</orcidid><orcidid>https://orcid.org/0000-0001-9169-3356</orcidid></addata></record> |
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| ispartof | Plant molecular biology, 2020-02, Vol.102 (3), p.253-269 |
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| subjects | Biochemistry Biomedical and Life Sciences Biosynthesis Biosynthetic Pathways - genetics Chromatography, Liquid Cistanche - genetics Cistanche - metabolism Ecotype Ecotypes Environmental conditions Food plants Gene expression Gene Expression Profiling Gene Expression Regulation, Plant Genes, Plant - genetics Glucosides - metabolism Glycosides Glycosides - biosynthesis Glycosides - genetics Grasslands Life Sciences Medicinal plants Metabolites Metabolome Molecular Sequence Annotation Phenylethyl Alcohol - metabolism Plant Pathology Plant Sciences Ribonucleic acid RNA Tandem Mass Spectrometry Transcriptome |
| title | Metabolome and transcriptome profiling reveals quality variation and underlying regulation of three ecotypes for Cistanche deserticola |
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