Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.)
- Autores
- Zhang, D.; Choi, D. W.; Wanamaker, S.; Fenton, R. D.; Chin, A.; Malatrasi, M.; Turuspekov, Y.; Walia, H.; Akhunov, E.D.; Kianian, P.; Otto, C.; Simons, K.; Deal, K.R.; Echenique, Carmen Viviana; Stamova, B.; Ross, K.; Butler, G. E.; Strader, L.; Verhey, S.D.; Johnson, R.; Altenbach, S.; Kothari, K.; Shah, M. M.; Laudencia Chingcuanco, D.; Han, P.; Miller, R. E.; Crossman, C. C.; Chao, S.; Lazo, G. R.; Klueva, N.; Gustafson, J. P.; Kianian, S. F.; Dubcovsky, J.; Walker Simmons, M. K.; Gill, K. S.; Dvořák, J.; Anderson, O. D.; Sorrells, M. E.; McGuire, P. E.; Qualset, C. O.; Nguyen, H. T.; Close, T. J.
- Año de publicación
- 2004
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- A total of 37 original cDNA libraries and 9 derivative libraries enriched for rare sequences were produced from Chinese Spring wheat (Triticum aestivum L.), five other hexaploid wheat genotypes (Cheyenne, Brevor, TAM W101, BH1146, Butte 86), tetraploid durum wheat (T. turgidum L.), diploid wheat (T. monococcum L.), and two other diploid members of the grass tribe Triticeae (Aegilops speltoides Tausch and Secale cereale L.). The emphasis in the choice of plant materials for library construction was reproductive development subjected to environmental factors that ultimately affect grain quality and yield, but roots and other tissues were also included. Partial cDNA expressed sequence tags (ESTs) were examined by various measures to assess the quality of these libraries. All ESTs were processed to remove cloning system sequences and contaminants and then assembled using CAP3. Following these processing steps, this assembly yielded 101,107 sequences derived from 89,043 clones, which defined 16,740 contigs and 33,213 singletons, a total of 49,953 “unigenes.” Analysis of the distribution of these unigenes among the libraries led to the conclusion that the enrichment methods were effective in reducing the most abundant unigenes and to the observation that the most diverse libraries were from tissues exposed to environmental stresses including heat, drought, salinity, or low temperature.
Fil: Zhang, D.. University of Texas; Estados Unidos
Fil: Choi, D. W.. University of California; Estados Unidos
Fil: Wanamaker, S.. University of California; Estados Unidos
Fil: Fenton, R. D.. University of California; Estados Unidos
Fil: Chin, A.. University of California; Estados Unidos
Fil: Malatrasi, M.. University of California; Estados Unidos
Fil: Turuspekov, Y.. University of California; Estados Unidos
Fil: Walia, H.. University of California; Estados Unidos
Fil: Akhunov, E.D.. University of California at Davis; Estados Unidos
Fil: Kianian, P.. North Dakota State University ; Estados Unidos
Fil: Otto, C.. North Dakota State University ; Estados Unidos
Fil: Simons, K.. North Dakota State University ; Estados Unidos
Fil: Deal, K.R.. University of California at Davis; Estados Unidos
Fil: Echenique, Carmen Viviana. Universidad Nacional del Sur. Departamento de Agronomía; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiárida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiárida; Argentina
Fil: Stamova, B.. University of California at Davis; Estados Unidos
Fil: Ross, K.. University of Missouri; Estados Unidos
Fil: Butler, G. E.. University of Arizona; Estados Unidos
Fil: Strader, L.. Washington State University; Estados Unidos
Fil: Verhey, S.D.. Washington State University; Estados Unidos
Fil: Johnson, R.. Washington State University; Estados Unidos
Fil: Altenbach, S.. United States Departamento of Agriculture; Albania
Fil: Kothari, K.. United States Department of Agriculture; Estados Unidos
Fil: Shah, M. M.. North Dakota State University ; Estados Unidos
Fil: Laudencia Chingcuanco, D.. United States Department of Agriculture; Estados Unidos
Fil: Han, P.. University of California at Davis; Estados Unidos
Fil: Miller, R. E.. University of California at Davis; Estados Unidos
Fil: Crossman, C. C.. United States Department of Agriculture; Estados Unidos
Fil: Chao, S.. University of California at Davis; Estados Unidos
Fil: Lazo, G. R.. United States Department of Agriculture; Estados Unidos
Fil: Klueva, N.. University of Texas; Estados Unidos
Fil: Gustafson, J. P.. University of Missouri; Estados Unidos
Fil: Kianian, S. F.. North Dakota State University ; Estados Unidos
Fil: Dubcovsky, J.. University of California at Davis; Estados Unidos
Fil: Walker Simmons, M. K.. Washington State University; Estados Unidos
Fil: Gill, K. S.. Washington State University; Estados Unidos
Fil: Dvořák, J.. University of California at Davis; Estados Unidos
Fil: Anderson, O. D.. United States Department of Agriculture; Estados Unidos
Fil: Sorrells, M. E.. Cornell University; Estados Unidos
Fil: McGuire, P. E.. University of California at Davis; Estados Unidos
Fil: Qualset, C. O.. University of California at Davis; Estados Unidos
Fil: Nguyen, H. T.. University of Missouri; Estados Unidos
Fil: Close, T. J.. University of California; Estados Unidos - Materia
-
Triticum Aestivum
Cdna
Libraries
Ests - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
- Repositorio
.jpg)
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/34244
Ver los metadatos del registro completo
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Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.)Zhang, D.Choi, D. W.Wanamaker, S.Fenton, R. D.Chin, A.Malatrasi, M.Turuspekov, Y.Walia, H.Akhunov, E.D.Kianian, P.Otto, C.Simons, K.Deal, K.R.Echenique, Carmen VivianaStamova, B.Ross, K.Butler, G. E.Strader, L.Verhey, S.D.Johnson, R.Altenbach, S.Kothari, K.Shah, M. M.Laudencia Chingcuanco, D.Han, P.Miller, R. E.Crossman, C. C.Chao, S.Lazo, G. R.Klueva, N.Gustafson, J. P.Kianian, S. F.Dubcovsky, J.Walker Simmons, M. K.Gill, K. S.Dvořák, J.Anderson, O. D.Sorrells, M. E.McGuire, P. E.Qualset, C. O.Nguyen, H. T.Close, T. J.Triticum AestivumCdnaLibrariesEstshttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1A total of 37 original cDNA libraries and 9 derivative libraries enriched for rare sequences were produced from Chinese Spring wheat (Triticum aestivum L.), five other hexaploid wheat genotypes (Cheyenne, Brevor, TAM W101, BH1146, Butte 86), tetraploid durum wheat (T. turgidum L.), diploid wheat (T. monococcum L.), and two other diploid members of the grass tribe Triticeae (Aegilops speltoides Tausch and Secale cereale L.). The emphasis in the choice of plant materials for library construction was reproductive development subjected to environmental factors that ultimately affect grain quality and yield, but roots and other tissues were also included. Partial cDNA expressed sequence tags (ESTs) were examined by various measures to assess the quality of these libraries. All ESTs were processed to remove cloning system sequences and contaminants and then assembled using CAP3. Following these processing steps, this assembly yielded 101,107 sequences derived from 89,043 clones, which defined 16,740 contigs and 33,213 singletons, a total of 49,953 “unigenes.” Analysis of the distribution of these unigenes among the libraries led to the conclusion that the enrichment methods were effective in reducing the most abundant unigenes and to the observation that the most diverse libraries were from tissues exposed to environmental stresses including heat, drought, salinity, or low temperature.Fil: Zhang, D.. University of Texas; Estados UnidosFil: Choi, D. W.. University of California; Estados UnidosFil: Wanamaker, S.. University of California; Estados UnidosFil: Fenton, R. D.. University of California; Estados UnidosFil: Chin, A.. University of California; Estados UnidosFil: Malatrasi, M.. University of California; Estados UnidosFil: Turuspekov, Y.. University of California; Estados UnidosFil: Walia, H.. University of California; Estados UnidosFil: Akhunov, E.D.. University of California at Davis; Estados UnidosFil: Kianian, P.. North Dakota State University ; Estados UnidosFil: Otto, C.. North Dakota State University ; Estados UnidosFil: Simons, K.. North Dakota State University ; Estados UnidosFil: Deal, K.R.. University of California at Davis; Estados UnidosFil: Echenique, Carmen Viviana. Universidad Nacional del Sur. Departamento de Agronomía; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiárida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiárida; ArgentinaFil: Stamova, B.. University of California at Davis; Estados UnidosFil: Ross, K.. University of Missouri; Estados UnidosFil: Butler, G. E.. University of Arizona; Estados UnidosFil: Strader, L.. Washington State University; Estados UnidosFil: Verhey, S.D.. Washington State University; Estados UnidosFil: Johnson, R.. Washington State University; Estados UnidosFil: Altenbach, S.. United States Departamento of Agriculture; AlbaniaFil: Kothari, K.. United States Department of Agriculture; Estados UnidosFil: Shah, M. M.. North Dakota State University ; Estados UnidosFil: Laudencia Chingcuanco, D.. United States Department of Agriculture; Estados UnidosFil: Han, P.. University of California at Davis; Estados UnidosFil: Miller, R. E.. University of California at Davis; Estados UnidosFil: Crossman, C. C.. United States Department of Agriculture; Estados UnidosFil: Chao, S.. University of California at Davis; Estados UnidosFil: Lazo, G. R.. United States Department of Agriculture; Estados UnidosFil: Klueva, N.. University of Texas; Estados UnidosFil: Gustafson, J. P.. University of Missouri; Estados UnidosFil: Kianian, S. F.. North Dakota State University ; Estados UnidosFil: Dubcovsky, J.. University of California at Davis; Estados UnidosFil: Walker Simmons, M. K.. Washington State University; Estados UnidosFil: Gill, K. S.. Washington State University; Estados UnidosFil: Dvořák, J.. University of California at Davis; Estados UnidosFil: Anderson, O. D.. United States Department of Agriculture; Estados UnidosFil: Sorrells, M. E.. Cornell University; Estados UnidosFil: McGuire, P. E.. University of California at Davis; Estados UnidosFil: Qualset, C. O.. University of California at Davis; Estados UnidosFil: Nguyen, H. T.. University of Missouri; Estados UnidosFil: Close, T. J.. University of California; Estados UnidosGenetics Soc Am2004-10info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/34244Zhang, D.; Choi, D. W.; Wanamaker, S.; Fenton, R. D.; Chin, A.; et al.; Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.); Genetics Soc Am; Genetics; 168; 2; 10-2004; 595-6080016-6731CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/http://www.genetics.org/content/168/2/595info:eu-repo/semantics/altIdentifier/doi/10.1534/genetics.104.034785info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T09:55:47Zoai:ri.conicet.gov.ar:11336/34244instacron: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:34982025-09-03 09:55:47.903CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
| dc.title.none.fl_str_mv |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| title |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| spellingShingle |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) Zhang, D. Triticum Aestivum Cdna Libraries Ests |
| title_short |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| title_full |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| title_fullStr |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| title_full_unstemmed |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| title_sort |
Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.) |
| dc.creator.none.fl_str_mv |
Zhang, D. Choi, D. W. Wanamaker, S. Fenton, R. D. Chin, A. Malatrasi, M. Turuspekov, Y. Walia, H. Akhunov, E.D. Kianian, P. Otto, C. Simons, K. Deal, K.R. Echenique, Carmen Viviana Stamova, B. Ross, K. Butler, G. E. Strader, L. Verhey, S.D. Johnson, R. Altenbach, S. Kothari, K. Shah, M. M. Laudencia Chingcuanco, D. Han, P. Miller, R. E. Crossman, C. C. Chao, S. Lazo, G. R. Klueva, N. Gustafson, J. P. Kianian, S. F. Dubcovsky, J. Walker Simmons, M. K. Gill, K. S. Dvořák, J. Anderson, O. D. Sorrells, M. E. McGuire, P. E. Qualset, C. O. Nguyen, H. T. Close, T. J. |
| author |
Zhang, D. |
| author_facet |
Zhang, D. Choi, D. W. Wanamaker, S. Fenton, R. D. Chin, A. Malatrasi, M. Turuspekov, Y. Walia, H. Akhunov, E.D. Kianian, P. Otto, C. Simons, K. Deal, K.R. Echenique, Carmen Viviana Stamova, B. Ross, K. Butler, G. E. Strader, L. Verhey, S.D. Johnson, R. Altenbach, S. Kothari, K. Shah, M. M. Laudencia Chingcuanco, D. Han, P. Miller, R. E. Crossman, C. C. Chao, S. Lazo, G. R. Klueva, N. Gustafson, J. P. Kianian, S. F. Dubcovsky, J. Walker Simmons, M. K. Gill, K. S. Dvořák, J. Anderson, O. D. Sorrells, M. E. McGuire, P. E. Qualset, C. O. Nguyen, H. T. Close, T. J. |
| author_role |
author |
| author2 |
Choi, D. W. Wanamaker, S. Fenton, R. D. Chin, A. Malatrasi, M. Turuspekov, Y. Walia, H. Akhunov, E.D. Kianian, P. Otto, C. Simons, K. Deal, K.R. Echenique, Carmen Viviana Stamova, B. Ross, K. Butler, G. E. Strader, L. Verhey, S.D. Johnson, R. Altenbach, S. Kothari, K. Shah, M. M. Laudencia Chingcuanco, D. Han, P. Miller, R. E. Crossman, C. C. Chao, S. Lazo, G. R. Klueva, N. Gustafson, J. P. Kianian, S. F. Dubcovsky, J. Walker Simmons, M. K. Gill, K. S. Dvořák, J. Anderson, O. D. Sorrells, M. E. McGuire, P. E. Qualset, C. O. Nguyen, H. T. Close, T. J. |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
Triticum Aestivum Cdna Libraries Ests |
| topic |
Triticum Aestivum Cdna Libraries Ests |
| purl_subject.fl_str_mv |
https://purl.org/becyt/ford/1.6 https://purl.org/becyt/ford/1 |
| dc.description.none.fl_txt_mv |
A total of 37 original cDNA libraries and 9 derivative libraries enriched for rare sequences were produced from Chinese Spring wheat (Triticum aestivum L.), five other hexaploid wheat genotypes (Cheyenne, Brevor, TAM W101, BH1146, Butte 86), tetraploid durum wheat (T. turgidum L.), diploid wheat (T. monococcum L.), and two other diploid members of the grass tribe Triticeae (Aegilops speltoides Tausch and Secale cereale L.). The emphasis in the choice of plant materials for library construction was reproductive development subjected to environmental factors that ultimately affect grain quality and yield, but roots and other tissues were also included. Partial cDNA expressed sequence tags (ESTs) were examined by various measures to assess the quality of these libraries. All ESTs were processed to remove cloning system sequences and contaminants and then assembled using CAP3. Following these processing steps, this assembly yielded 101,107 sequences derived from 89,043 clones, which defined 16,740 contigs and 33,213 singletons, a total of 49,953 “unigenes.” Analysis of the distribution of these unigenes among the libraries led to the conclusion that the enrichment methods were effective in reducing the most abundant unigenes and to the observation that the most diverse libraries were from tissues exposed to environmental stresses including heat, drought, salinity, or low temperature. Fil: Zhang, D.. University of Texas; Estados Unidos Fil: Choi, D. W.. University of California; Estados Unidos Fil: Wanamaker, S.. University of California; Estados Unidos Fil: Fenton, R. D.. University of California; Estados Unidos Fil: Chin, A.. University of California; Estados Unidos Fil: Malatrasi, M.. University of California; Estados Unidos Fil: Turuspekov, Y.. University of California; Estados Unidos Fil: Walia, H.. University of California; Estados Unidos Fil: Akhunov, E.D.. University of California at Davis; Estados Unidos Fil: Kianian, P.. North Dakota State University ; Estados Unidos Fil: Otto, C.. North Dakota State University ; Estados Unidos Fil: Simons, K.. North Dakota State University ; Estados Unidos Fil: Deal, K.R.. University of California at Davis; Estados Unidos Fil: Echenique, Carmen Viviana. Universidad Nacional del Sur. Departamento de Agronomía; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Centro de Recursos Naturales Renovables de la Zona Semiárida. Universidad Nacional del Sur. Centro de Recursos Naturales Renovables de la Zona Semiárida; Argentina Fil: Stamova, B.. University of California at Davis; Estados Unidos Fil: Ross, K.. University of Missouri; Estados Unidos Fil: Butler, G. E.. University of Arizona; Estados Unidos Fil: Strader, L.. Washington State University; Estados Unidos Fil: Verhey, S.D.. Washington State University; Estados Unidos Fil: Johnson, R.. Washington State University; Estados Unidos Fil: Altenbach, S.. United States Departamento of Agriculture; Albania Fil: Kothari, K.. United States Department of Agriculture; Estados Unidos Fil: Shah, M. M.. North Dakota State University ; Estados Unidos Fil: Laudencia Chingcuanco, D.. United States Department of Agriculture; Estados Unidos Fil: Han, P.. University of California at Davis; Estados Unidos Fil: Miller, R. E.. University of California at Davis; Estados Unidos Fil: Crossman, C. C.. United States Department of Agriculture; Estados Unidos Fil: Chao, S.. University of California at Davis; Estados Unidos Fil: Lazo, G. R.. United States Department of Agriculture; Estados Unidos Fil: Klueva, N.. University of Texas; Estados Unidos Fil: Gustafson, J. P.. University of Missouri; Estados Unidos Fil: Kianian, S. F.. North Dakota State University ; Estados Unidos Fil: Dubcovsky, J.. University of California at Davis; Estados Unidos Fil: Walker Simmons, M. K.. Washington State University; Estados Unidos Fil: Gill, K. S.. Washington State University; Estados Unidos Fil: Dvořák, J.. University of California at Davis; Estados Unidos Fil: Anderson, O. D.. United States Department of Agriculture; Estados Unidos Fil: Sorrells, M. E.. Cornell University; Estados Unidos Fil: McGuire, P. E.. University of California at Davis; Estados Unidos Fil: Qualset, C. O.. University of California at Davis; Estados Unidos Fil: Nguyen, H. T.. University of Missouri; Estados Unidos Fil: Close, T. J.. University of California; Estados Unidos |
| description |
A total of 37 original cDNA libraries and 9 derivative libraries enriched for rare sequences were produced from Chinese Spring wheat (Triticum aestivum L.), five other hexaploid wheat genotypes (Cheyenne, Brevor, TAM W101, BH1146, Butte 86), tetraploid durum wheat (T. turgidum L.), diploid wheat (T. monococcum L.), and two other diploid members of the grass tribe Triticeae (Aegilops speltoides Tausch and Secale cereale L.). The emphasis in the choice of plant materials for library construction was reproductive development subjected to environmental factors that ultimately affect grain quality and yield, but roots and other tissues were also included. Partial cDNA expressed sequence tags (ESTs) were examined by various measures to assess the quality of these libraries. All ESTs were processed to remove cloning system sequences and contaminants and then assembled using CAP3. Following these processing steps, this assembly yielded 101,107 sequences derived from 89,043 clones, which defined 16,740 contigs and 33,213 singletons, a total of 49,953 “unigenes.” Analysis of the distribution of these unigenes among the libraries led to the conclusion that the enrichment methods were effective in reducing the most abundant unigenes and to the observation that the most diverse libraries were from tissues exposed to environmental stresses including heat, drought, salinity, or low temperature. |
| publishDate |
2004 |
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2004-10 |
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info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
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article |
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http://hdl.handle.net/11336/34244 Zhang, D.; Choi, D. W.; Wanamaker, S.; Fenton, R. D.; Chin, A.; et al.; Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.); Genetics Soc Am; Genetics; 168; 2; 10-2004; 595-608 0016-6731 CONICET Digital CONICET |
| url |
http://hdl.handle.net/11336/34244 |
| identifier_str_mv |
Zhang, D.; Choi, D. W.; Wanamaker, S.; Fenton, R. D.; Chin, A.; et al.; Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivum L.); Genetics Soc Am; Genetics; 168; 2; 10-2004; 595-608 0016-6731 CONICET Digital CONICET |
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eng |
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eng |
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Genetics Soc Am |
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