Ginger and turmeric expressed sequence tags identify signature genes for rhizome identity and development and the biosynthesis of curcuminoids, gingerols and terpenoids

Persistent Link:
http://hdl.handle.net/10150/610084
Title:
Ginger and turmeric expressed sequence tags identify signature genes for rhizome identity and development and the biosynthesis of curcuminoids, gingerols and terpenoids
Author:
Koo, Hyun Jo; McDowell, Eric; Ma, Xiaoqiang; Greer, Kevin; Kapteyn, Jeremy; Xie, Zhengzhi; Descour, Anne; Kim, HyeRan; Yu, Yeisoo; Kudrna, David; Wing, Rod; Soderlund, Carol; Gang, David
Affiliation:
School of Plant Sciences and BIO5 Institute, The University of Arizona, Tucson, AZ, 85721, USA; Arizona Genomics Computational Laboratory and BIO5 Institute, The University of Arizona, Tucson, AZ, 85721, USA; Department of Pharmaceutical Sciences, The University of Arizona, Tucson, AZ, 85721, USA; Arizona Genomics Institute, The University of Arizona, Tucson, AZ, 85721, USA; Institute of Biological Chemistry, Washington State University, Pullman, WA, 99164, USA; Present address: Salk Institute for Biological Studies, PO Box 85800, San Diego, CA, 92186, USA; Present address: XenoBiotic Laboratories, Inc., Morgan Ln 107, Plainsboro, NJ, 08536, USA; Present address: Department of Surgery, College of Medicine, The University of Arizona, Tucson, AZ, 85724, USA; Present address: Division of Cardiovascular Medicine, University of Louisville, Louisville, KY, 40202, USA; Present address: Plant Genome Research Center, KRIBB, Daejeon, 305-803, South Korea; Institute of Biological Chemistry, Washington State University, P.O. Box 646340, Pullman, WA, 99164-6340, USA
Issue Date:
2013
Publisher:
BioMed Central
Citation:
Koo et al. BMC Plant Biology 2013, 13:27 http://www.biomedcentral.com/1471-2229/13/27
Journal:
BMC Plant Biology
Rights:
© 2013 Koo et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0)
Collection Information:
This item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.
Abstract:
BACKGROUND:Ginger (Zingiber officinale) and turmeric (Curcuma longa) accumulate important pharmacologically active metabolites at high levels in their rhizomes. Despite their importance, relatively little is known regarding gene expression in the rhizomes of ginger and turmeric.RESULTS:In order to identify rhizome-enriched genes and genes encoding specialized metabolism enzymes and pathway regulators, we evaluated an assembled collection of expressed sequence tags (ESTs) from eight different ginger and turmeric tissues. Comparisons to publicly available sorghum rhizome ESTs revealed a total of 777 gene transcripts expressed in ginger/turmeric and sorghum rhizomes but apparently absent from other tissues. The list of rhizome-specific transcripts was enriched for genes associated with regulation of tissue growth, development, and transcription. In particular, transcripts for ethylene response factors and AUX/IAA proteins appeared to accumulate in patterns mirroring results from previous studies regarding rhizome growth responses to exogenous applications of auxin and ethylene. Thus, these genes may play important roles in defining rhizome growth and development. Additional associations were made for ginger and turmeric rhizome-enriched MADS box transcription factors, their putative rhizome-enriched homologs in sorghum, and rhizomatous QTLs in rice. Additionally, analysis of both primary and specialized metabolism genes indicates that ginger and turmeric rhizomes are primarily devoted to the utilization of leaf supplied sucrose for the production and/or storage of specialized metabolites associated with the phenylpropanoid pathway and putative type III polyketide synthase gene products. This finding reinforces earlier hypotheses predicting roles of this enzyme class in the production of curcuminoids and gingerols.CONCLUSION:A significant set of genes were found to be exclusively or preferentially expressed in the rhizome of ginger and turmeric. Specific transcription factors and other regulatory genes were found that were common to the two species and that are excellent candidates for involvement in rhizome growth, differentiation and development. Large classes of enzymes involved in specialized metabolism were also found to have apparent tissue-specific expression, suggesting that gene expression itself may play an important role in regulating metabolite production in these plants.
EISSN:
1471-2229
DOI:
10.1186/1471-2229-13-27
Keywords:
Ginger; Turmeric; EST; Microarray; Metabolite; Rhizome development
Version:
Final published version
Additional Links:
http://www.biomedcentral.com/1471-2229/13/27

Full metadata record

DC FieldValue Language
dc.contributor.authorKoo, Hyun Joen
dc.contributor.authorMcDowell, Ericen
dc.contributor.authorMa, Xiaoqiangen
dc.contributor.authorGreer, Kevinen
dc.contributor.authorKapteyn, Jeremyen
dc.contributor.authorXie, Zhengzhien
dc.contributor.authorDescour, Anneen
dc.contributor.authorKim, HyeRanen
dc.contributor.authorYu, Yeisooen
dc.contributor.authorKudrna, Daviden
dc.contributor.authorWing, Roden
dc.contributor.authorSoderlund, Carolen
dc.contributor.authorGang, Daviden
dc.date.accessioned2016-05-20T08:58:12Z-
dc.date.available2016-05-20T08:58:12Z-
dc.date.issued2013en
dc.identifier.citationKoo et al. BMC Plant Biology 2013, 13:27 http://www.biomedcentral.com/1471-2229/13/27en
dc.identifier.doi10.1186/1471-2229-13-27en
dc.identifier.urihttp://hdl.handle.net/10150/610084-
dc.description.abstractBACKGROUND:Ginger (Zingiber officinale) and turmeric (Curcuma longa) accumulate important pharmacologically active metabolites at high levels in their rhizomes. Despite their importance, relatively little is known regarding gene expression in the rhizomes of ginger and turmeric.RESULTS:In order to identify rhizome-enriched genes and genes encoding specialized metabolism enzymes and pathway regulators, we evaluated an assembled collection of expressed sequence tags (ESTs) from eight different ginger and turmeric tissues. Comparisons to publicly available sorghum rhizome ESTs revealed a total of 777 gene transcripts expressed in ginger/turmeric and sorghum rhizomes but apparently absent from other tissues. The list of rhizome-specific transcripts was enriched for genes associated with regulation of tissue growth, development, and transcription. In particular, transcripts for ethylene response factors and AUX/IAA proteins appeared to accumulate in patterns mirroring results from previous studies regarding rhizome growth responses to exogenous applications of auxin and ethylene. Thus, these genes may play important roles in defining rhizome growth and development. Additional associations were made for ginger and turmeric rhizome-enriched MADS box transcription factors, their putative rhizome-enriched homologs in sorghum, and rhizomatous QTLs in rice. Additionally, analysis of both primary and specialized metabolism genes indicates that ginger and turmeric rhizomes are primarily devoted to the utilization of leaf supplied sucrose for the production and/or storage of specialized metabolites associated with the phenylpropanoid pathway and putative type III polyketide synthase gene products. This finding reinforces earlier hypotheses predicting roles of this enzyme class in the production of curcuminoids and gingerols.CONCLUSION:A significant set of genes were found to be exclusively or preferentially expressed in the rhizome of ginger and turmeric. Specific transcription factors and other regulatory genes were found that were common to the two species and that are excellent candidates for involvement in rhizome growth, differentiation and development. Large classes of enzymes involved in specialized metabolism were also found to have apparent tissue-specific expression, suggesting that gene expression itself may play an important role in regulating metabolite production in these plants.en
dc.language.isoenen
dc.publisherBioMed Centralen
dc.relation.urlhttp://www.biomedcentral.com/1471-2229/13/27en
dc.rights© 2013 Koo et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0)en
dc.subjectGingeren
dc.subjectTurmericen
dc.subjectESTen
dc.subjectMicroarrayen
dc.subjectMetaboliteen
dc.subjectRhizome developmenten
dc.titleGinger and turmeric expressed sequence tags identify signature genes for rhizome identity and development and the biosynthesis of curcuminoids, gingerols and terpenoidsen
dc.typeArticleen
dc.identifier.eissn1471-2229en
dc.contributor.departmentSchool of Plant Sciences and BIO5 Institute, The University of Arizona, Tucson, AZ, 85721, USAen
dc.contributor.departmentArizona Genomics Computational Laboratory and BIO5 Institute, The University of Arizona, Tucson, AZ, 85721, USAen
dc.contributor.departmentDepartment of Pharmaceutical Sciences, The University of Arizona, Tucson, AZ, 85721, USAen
dc.contributor.departmentArizona Genomics Institute, The University of Arizona, Tucson, AZ, 85721, USAen
dc.contributor.departmentInstitute of Biological Chemistry, Washington State University, Pullman, WA, 99164, USAen
dc.contributor.departmentPresent address: Salk Institute for Biological Studies, PO Box 85800, San Diego, CA, 92186, USAen
dc.contributor.departmentPresent address: XenoBiotic Laboratories, Inc., Morgan Ln 107, Plainsboro, NJ, 08536, USAen
dc.contributor.departmentPresent address: Department of Surgery, College of Medicine, The University of Arizona, Tucson, AZ, 85724, USAen
dc.contributor.departmentPresent address: Division of Cardiovascular Medicine, University of Louisville, Louisville, KY, 40202, USAen
dc.contributor.departmentPresent address: Plant Genome Research Center, KRIBB, Daejeon, 305-803, South Koreaen
dc.contributor.departmentInstitute of Biological Chemistry, Washington State University, P.O. Box 646340, Pullman, WA, 99164-6340, USAen
dc.identifier.journalBMC Plant Biologyen
dc.description.collectioninformationThis item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.en
dc.eprint.versionFinal published versionen
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