Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits

Autores
Diaz, M.; Garbus, Ingrid; Stamova, B.; Echenique, Carmen Viviana
Año de publicación
2011
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The diploid wheat Triticum monococcum (2n = 2x = 14, A mA m) constitutes an excellent and simplified model to study wheat genome expression since it has lower genome complexity compared to polyploid wheat species.The analysis of a collection of near 10,000 ESTs obtained from two libraries of T. monococcum (TM011XXX and TM043E1X) and one from T. monococcum ssp. aegilopoides (TM046E1X), lead to 2246, 1843 and 2405 unigenes, respectively. The unigenes from each library were individually analyzed through the Blast2Go interface revealing higher identity compared to EST databases. However, a low percentage of sequences showed significant similarity with Triticum databases, reflecting that several novel Triticum expressed genes have been identified in these libraries. The sequences annotation and classification under GO categories showed similar distribution for the three libraries, but differences were identified in some subcategories.When a virtual unique library was constructed including the sequences from the three libraries, seventeen genes were found to be over-expressed between reproductive and vegetative tissues and thirty-five showed genotype-specific expression. These differentially expressed genes included several regulatory proteins and some unreported sequences. Some of these differentially expressed genes were validated by qRT-PCR. The exploration for specific polymorphisms allowed the identification of several SNPs.These EST libraries constitute a valuable tool for the assessment of active metabolic pathways in vegetative and reproductive tissues in diploid wheat species. A more detailed assessment of expression profiles of genotypes with spring and winter growth habits would allow the identification of the transcriptomic strategies developed under the pressure of these antagonistic growth conditions.
Fil: Diaz, M.. Universidad Nacional del Sur. Departamento de Biología, Bioquímica y Farmacia; Argentina
Fil: Garbus, Ingrid. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; Argentina
Fil: Stamova, B.. University Of California; Estados Unidos
Fil: Echenique, Carmen Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; Argentina
Materia
Diploid Wheat
Cdna Libraries
Ests
Digital Differential Expression
Qrt-Pcr
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/16150
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/16150
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habitsDiaz, M.Garbus, IngridStamova, B.Echenique, Carmen VivianaDiploid WheatCdna LibrariesEstsDigital Differential ExpressionQrt-Pcrhttps://purl.org/becyt/ford/4.4https://purl.org/becyt/ford/4The diploid wheat Triticum monococcum (2n = 2x = 14, A mA m) constitutes an excellent and simplified model to study wheat genome expression since it has lower genome complexity compared to polyploid wheat species.The analysis of a collection of near 10,000 ESTs obtained from two libraries of T. monococcum (TM011XXX and TM043E1X) and one from T. monococcum ssp. aegilopoides (TM046E1X), lead to 2246, 1843 and 2405 unigenes, respectively. The unigenes from each library were individually analyzed through the Blast2Go interface revealing higher identity compared to EST databases. However, a low percentage of sequences showed significant similarity with Triticum databases, reflecting that several novel Triticum expressed genes have been identified in these libraries. The sequences annotation and classification under GO categories showed similar distribution for the three libraries, but differences were identified in some subcategories.When a virtual unique library was constructed including the sequences from the three libraries, seventeen genes were found to be over-expressed between reproductive and vegetative tissues and thirty-five showed genotype-specific expression. These differentially expressed genes included several regulatory proteins and some unreported sequences. Some of these differentially expressed genes were validated by qRT-PCR. The exploration for specific polymorphisms allowed the identification of several SNPs.These EST libraries constitute a valuable tool for the assessment of active metabolic pathways in vegetative and reproductive tissues in diploid wheat species. A more detailed assessment of expression profiles of genotypes with spring and winter growth habits would allow the identification of the transcriptomic strategies developed under the pressure of these antagonistic growth conditions.Fil: Diaz, M.. Universidad Nacional del Sur. Departamento de Biología, Bioquímica y Farmacia; ArgentinaFil: Garbus, Ingrid. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; ArgentinaFil: Stamova, B.. University Of California; Estados UnidosFil: Echenique, Carmen Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; ArgentinaAkademiai Kiado Rt2011-11-30info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/16150Diaz, M.; Garbus, Ingrid; Stamova, B.; Echenique, Carmen Viviana; Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits; Akademiai Kiado Rt; Cereal Research Communications; 39; 4; 30-11-2011; 475-4860133-37201788-9170enginfo:eu-repo/semantics/altIdentifier/url/http://akademiai.com/doi/abs/10.1556/CRC.39.2011.4.2info:eu-repo/semantics/altIdentifier/doi/10.1556/CRC.39.2011.4.2info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-15T14:43:30Zoai:ri.conicet.gov.ar:11336/16150instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-15 14:43:30.938CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
title Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
spellingShingle Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
Diaz, M.
Diploid Wheat
Cdna Libraries
Ests
Digital Differential Expression
Qrt-Pcr
title_short Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
title_full Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
title_fullStr Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
title_full_unstemmed Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
title_sort Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits
dc.creator.none.fl_str_mv Diaz, M.
Garbus, Ingrid
Stamova, B.
Echenique, Carmen Viviana
author Diaz, M.
author_facet Diaz, M.
Garbus, Ingrid
Stamova, B.
Echenique, Carmen Viviana
author_role author
author2 Garbus, Ingrid
Stamova, B.
Echenique, Carmen Viviana
author2_role author
author
author
dc.subject.none.fl_str_mv Diploid Wheat
Cdna Libraries
Ests
Digital Differential Expression
Qrt-Pcr
topic Diploid Wheat
Cdna Libraries
Ests
Digital Differential Expression
Qrt-Pcr
purl_subject.fl_str_mv https://purl.org/becyt/ford/4.4
https://purl.org/becyt/ford/4
dc.description.none.fl_txt_mv The diploid wheat Triticum monococcum (2n = 2x = 14, A mA m) constitutes an excellent and simplified model to study wheat genome expression since it has lower genome complexity compared to polyploid wheat species.The analysis of a collection of near 10,000 ESTs obtained from two libraries of T. monococcum (TM011XXX and TM043E1X) and one from T. monococcum ssp. aegilopoides (TM046E1X), lead to 2246, 1843 and 2405 unigenes, respectively. The unigenes from each library were individually analyzed through the Blast2Go interface revealing higher identity compared to EST databases. However, a low percentage of sequences showed significant similarity with Triticum databases, reflecting that several novel Triticum expressed genes have been identified in these libraries. The sequences annotation and classification under GO categories showed similar distribution for the three libraries, but differences were identified in some subcategories.When a virtual unique library was constructed including the sequences from the three libraries, seventeen genes were found to be over-expressed between reproductive and vegetative tissues and thirty-five showed genotype-specific expression. These differentially expressed genes included several regulatory proteins and some unreported sequences. Some of these differentially expressed genes were validated by qRT-PCR. The exploration for specific polymorphisms allowed the identification of several SNPs.These EST libraries constitute a valuable tool for the assessment of active metabolic pathways in vegetative and reproductive tissues in diploid wheat species. A more detailed assessment of expression profiles of genotypes with spring and winter growth habits would allow the identification of the transcriptomic strategies developed under the pressure of these antagonistic growth conditions.
Fil: Diaz, M.. Universidad Nacional del Sur. Departamento de Biología, Bioquímica y Farmacia; Argentina
Fil: Garbus, Ingrid. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; Argentina
Fil: Stamova, B.. University Of California; Estados Unidos
Fil: Echenique, Carmen Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiarida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiarida; Argentina
description The diploid wheat Triticum monococcum (2n = 2x = 14, A mA m) constitutes an excellent and simplified model to study wheat genome expression since it has lower genome complexity compared to polyploid wheat species.The analysis of a collection of near 10,000 ESTs obtained from two libraries of T. monococcum (TM011XXX and TM043E1X) and one from T. monococcum ssp. aegilopoides (TM046E1X), lead to 2246, 1843 and 2405 unigenes, respectively. The unigenes from each library were individually analyzed through the Blast2Go interface revealing higher identity compared to EST databases. However, a low percentage of sequences showed significant similarity with Triticum databases, reflecting that several novel Triticum expressed genes have been identified in these libraries. The sequences annotation and classification under GO categories showed similar distribution for the three libraries, but differences were identified in some subcategories.When a virtual unique library was constructed including the sequences from the three libraries, seventeen genes were found to be over-expressed between reproductive and vegetative tissues and thirty-five showed genotype-specific expression. These differentially expressed genes included several regulatory proteins and some unreported sequences. Some of these differentially expressed genes were validated by qRT-PCR. The exploration for specific polymorphisms allowed the identification of several SNPs.These EST libraries constitute a valuable tool for the assessment of active metabolic pathways in vegetative and reproductive tissues in diploid wheat species. A more detailed assessment of expression profiles of genotypes with spring and winter growth habits would allow the identification of the transcriptomic strategies developed under the pressure of these antagonistic growth conditions.
publishDate 2011
dc.date.none.fl_str_mv 2011-11-30
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/16150
Diaz, M.; Garbus, Ingrid; Stamova, B.; Echenique, Carmen Viviana; Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits; Akademiai Kiado Rt; Cereal Research Communications; 39; 4; 30-11-2011; 475-486
0133-3720
1788-9170
url http://hdl.handle.net/11336/16150
identifier_str_mv Diaz, M.; Garbus, Ingrid; Stamova, B.; Echenique, Carmen Viviana; Functional characterization of three cDNA libraries from the diploid wheat Triticum monoccocum (AmAm) with different growth habits; Akademiai Kiado Rt; Cereal Research Communications; 39; 4; 30-11-2011; 475-486
0133-3720
1788-9170
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/http://akademiai.com/doi/abs/10.1556/CRC.39.2011.4.2
info:eu-repo/semantics/altIdentifier/doi/10.1556/CRC.39.2011.4.2
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Akademiai Kiado Rt
publisher.none.fl_str_mv Akademiai Kiado Rt
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.22299

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