Capturing wheat phenotypes at the genome level
Recent technological advances in next-generation sequencing (NGS) technologies have dramatically reduced the cost of DNA sequencing, allowing species with large and complex genomes to be sequenced. Although bread wheat (Triticum aestivum L.) is one of the world’s most important food crops, efficient...
| Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Estado: | Versión publicada |
| Fecha de publicación: | 2022 |
| País: | México |
| Institución: | Centro Internacional de Mejoramiento de Maíz y Trigo |
| Repositorio: | Repositorio Institucional de Publicaciones Multimedia del CIMMYT |
| OAI Identifier: | oai:repository.cimmyt.org:10883/22144 |
| Acceso en línea: | https://hdl.handle.net/10883/22144 |
| Access Level: | acceso abierto |
| Palabra clave: | AGRICULTURAL SCIENCES AND BIOTECHNOLOGY Genome-Wide Association Study Quantitative Trait Locus Mapping Abiotic Stress Tolerance Genomic Selection QTL Cloning CRISPR/Cas9 ABIOTIC STRESS CRISPR DISEASE RESISTANCE QUANTITATIVE TRAIT LOCI WHEAT |
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México |
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| dc.title.none.fl_str_mv |
Capturing wheat phenotypes at the genome level |
| title |
Capturing wheat phenotypes at the genome level |
| spellingShingle |
Capturing wheat phenotypes at the genome level Hussain, B. AGRICULTURAL SCIENCES AND BIOTECHNOLOGY Genome-Wide Association Study Quantitative Trait Locus Mapping Abiotic Stress Tolerance Genomic Selection QTL Cloning CRISPR/Cas9 ABIOTIC STRESS CRISPR DISEASE RESISTANCE QUANTITATIVE TRAIT LOCI WHEAT |
| title_short |
Capturing wheat phenotypes at the genome level |
| title_full |
Capturing wheat phenotypes at the genome level |
| title_fullStr |
Capturing wheat phenotypes at the genome level |
| title_full_unstemmed |
Capturing wheat phenotypes at the genome level |
| title_sort |
Capturing wheat phenotypes at the genome level |
| dc.creator.none.fl_str_mv |
Hussain, B. Akpınar, B.A. Alaux, M. Algharib, A.M. Sehgal, D. Ali, Z. Aradottir, G.I. Batley, J. Bellec, A. Bentley, A.R. Cagirici, H.B. Cattivelli, L. Choulet, F. Cockram, J. Desiderio, F. Devaux, P. Dogramaci, M. Dorado, G. Dreisigacker, S. Edwards, D. El Hassouni, K. Eversole, K. Fahima, T. Figueroa, M. Gálvez, S. Gill, K.S. Govta, L. Gul, A. Hensel, G. Hernandez, P. Crespo Herrera, L.A. Ibrahim, A.M.H. Kilian, B. Korzun, V. Krugman, T. Yinghui Li Shuyu Liu Mahmoud, A.F. Morgounov, A. Muslu, T. Naseer, F. Ordon, F. Paux, E. Perovic, D. Reddy, G.V.P. Reif, J.C. Reynolds, M.P. Roychowdhury, R. Rudd, J.C. Sen, T.Z. Sukumaran, S. Bahar Sogutmaz Ozdemir Tiwari, V.K. Ullah, N. Unver, T. Yazar, S. Appels, R. Budak, H. |
| author |
Hussain, B. |
| author_facet |
Hussain, B. Akpınar, B.A. Alaux, M. Algharib, A.M. Sehgal, D. Ali, Z. Aradottir, G.I. Batley, J. Bellec, A. Bentley, A.R. Cagirici, H.B. Cattivelli, L. Choulet, F. Cockram, J. Desiderio, F. Devaux, P. Dogramaci, M. Dorado, G. Dreisigacker, S. Edwards, D. El Hassouni, K. Eversole, K. Fahima, T. Figueroa, M. Gálvez, S. Gill, K.S. Govta, L. Gul, A. Hensel, G. Hernandez, P. Crespo Herrera, L.A. Ibrahim, A.M.H. Kilian, B. Korzun, V. Krugman, T. Yinghui Li Shuyu Liu Mahmoud, A.F. Morgounov, A. Muslu, T. Naseer, F. Ordon, F. Paux, E. Perovic, D. Reddy, G.V.P. Reif, J.C. Reynolds, M.P. Roychowdhury, R. Rudd, J.C. Sen, T.Z. Sukumaran, S. Bahar Sogutmaz Ozdemir Tiwari, V.K. Ullah, N. Unver, T. Yazar, S. Appels, R. Budak, H. |
| author_role |
author |
| author2 |
Akpınar, B.A. Alaux, M. Algharib, A.M. Sehgal, D. Ali, Z. Aradottir, G.I. Batley, J. Bellec, A. Bentley, A.R. Cagirici, H.B. Cattivelli, L. Choulet, F. Cockram, J. Desiderio, F. Devaux, P. Dogramaci, M. Dorado, G. Dreisigacker, S. Edwards, D. El Hassouni, K. Eversole, K. Fahima, T. Figueroa, M. Gálvez, S. Gill, K.S. Govta, L. Gul, A. Hensel, G. Hernandez, P. Crespo Herrera, L.A. Ibrahim, A.M.H. Kilian, B. Korzun, V. Krugman, T. Yinghui Li Shuyu Liu Mahmoud, A.F. Morgounov, A. Muslu, T. Naseer, F. Ordon, F. Paux, E. Perovic, D. Reddy, G.V.P. Reif, J.C. Reynolds, M.P. Roychowdhury, R. Rudd, J.C. Sen, T.Z. Sukumaran, S. Bahar Sogutmaz Ozdemir Tiwari, V.K. Ullah, N. Unver, T. Yazar, S. Appels, R. Budak, H. |
| 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 author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
AGRICULTURAL SCIENCES AND BIOTECHNOLOGY Genome-Wide Association Study Quantitative Trait Locus Mapping Abiotic Stress Tolerance Genomic Selection QTL Cloning CRISPR/Cas9 ABIOTIC STRESS CRISPR DISEASE RESISTANCE QUANTITATIVE TRAIT LOCI WHEAT |
| topic |
AGRICULTURAL SCIENCES AND BIOTECHNOLOGY Genome-Wide Association Study Quantitative Trait Locus Mapping Abiotic Stress Tolerance Genomic Selection QTL Cloning CRISPR/Cas9 ABIOTIC STRESS CRISPR DISEASE RESISTANCE QUANTITATIVE TRAIT LOCI WHEAT |
| description |
Recent technological advances in next-generation sequencing (NGS) technologies have dramatically reduced the cost of DNA sequencing, allowing species with large and complex genomes to be sequenced. Although bread wheat (Triticum aestivum L.) is one of the world’s most important food crops, efficient exploitation of molecular marker-assisted breeding approaches has lagged behind that achieved in other crop species, due to its large polyploid genome. However, an international public–private effort spanning 9 years reported over 65% draft genome of bread wheat in 2014, and finally, after more than a decade culminated in the release of a gold-standard, fully annotated reference wheat-genome assembly in 2018. Shortly thereafter, in 2020, the genome of assemblies of additional 15 global wheat accessions was released. As a result, wheat has now entered into the pan-genomic era, where basic resources can be efficiently exploited. Wheat genotyping with a few hundred markers has been replaced by genotyping arrays, capable of characterizing hundreds of wheat lines, using thousands of markers, providing fast, relatively inexpensive, and reliable data for exploitation in wheat breeding. These advances have opened up new opportunities for marker-assisted selection (MAS) and genomic selection (GS) in wheat. Herein, we review the advances and perspectives in wheat genetics and genomics, with a focus on key traits, including grain yield, yield-related traits, end-use quality, and resistance to biotic and abiotic stresses. We also focus on reported candidate genes cloned and linked to traits of interest. Furthermore, we report on the improvement in the aforementioned quantitative traits, through the use of (i) clustered regularly interspaced short-palindromic repeats/CRISPR-associated protein 9 (CRISPR/Cas9)-mediated gene-editing and (ii) positional cloning methods, and of genomic selection. Finally, we examine the utilization of genomics for the next-generation wheat breeding, providing a practical example of using in silico bioinformatics tools that are based on the wheat reference-genome sequence. |
| publishDate |
2022 |
| dc.date.none.fl_str_mv |
2022-08-16T00:20:13Z 2022-08-16T00:20:13Z 2022 |
| dc.type.none.fl_str_mv |
Published Version info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
| format |
article |
| status_str |
publishedVersion |
| dc.identifier.none.fl_str_mv |
https://hdl.handle.net/10883/22144 10.3389/fpls.2022.851079 |
| url |
https://hdl.handle.net/10883/22144 |
| identifier_str_mv |
10.3389/fpls.2022.851079 |
| dc.language.none.fl_str_mv |
English |
| language_invalid_str_mv |
English |
| dc.relation.none.fl_str_mv |
https://figshare.com/collections/Capturing_Wheat_Phenotypes_at_the_Genome_Level/6077481 Nutrition, health & food security Accelerated Breeding Genetic Innovation United States Department of Agriculture (USDA) CGIAR Trust Fund Small Business Innovation Research Initiative Junta de Andalucía (Andalusian Regional Government), Spain Biotechnology and Biological Sciences Research Council (BBSRC) 2Blades Foundation Australian Grains Research and Development Corporation (GRDC) Ministry of Science and Higher Education, Russian Federation Deutsche Forschungsgemeinschaft European Regional Development Fund https://hdl.handle.net/10568/127283 |
| dc.rights.none.fl_str_mv |
Open Access info:eu-repo/semantics/openAccess |
| rights_invalid_str_mv |
Open Access |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.coverage.none.fl_str_mv |
Switzerland |
| dc.publisher.none.fl_str_mv |
Frontiers Media S.A. |
| publisher.none.fl_str_mv |
Frontiers Media S.A. |
| dc.source.none.fl_str_mv |
13 1664-462X Frontiers in Plant Science 851079 reponame:Repositorio Institucional de Publicaciones Multimedia del CIMMYT instname:Centro Internacional de Mejoramiento de Maíz y Trigo instacron:CIMMYT |
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Centro Internacional de Mejoramiento de Maíz y Trigo |
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CIMMYT |
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CIMMYT |
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Repositorio Institucional de Publicaciones Multimedia del CIMMYT |
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Repositorio Institucional de Publicaciones Multimedia del CIMMYT |
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1858177003809669120 |
| spelling |
Capturing wheat phenotypes at the genome levelHussain, B.Akpınar, B.A.Alaux, M.Algharib, A.M.Sehgal, D.Ali, Z.Aradottir, G.I.Batley, J.Bellec, A.Bentley, A.R.Cagirici, H.B.Cattivelli, L.Choulet, F.Cockram, J.Desiderio, F.Devaux, P.Dogramaci, M.Dorado, G.Dreisigacker, S.Edwards, D.El Hassouni, K.Eversole, K.Fahima, T.Figueroa, M.Gálvez, S.Gill, K.S.Govta, L.Gul, A.Hensel, G.Hernandez, P.Crespo Herrera, L.A.Ibrahim, A.M.H.Kilian, B.Korzun, V.Krugman, T.Yinghui LiShuyu LiuMahmoud, A.F.Morgounov, A.Muslu, T.Naseer, F.Ordon, F.Paux, E.Perovic, D.Reddy, G.V.P.Reif, J.C.Reynolds, M.P.Roychowdhury, R.Rudd, J.C.Sen, T.Z.Sukumaran, S.Bahar Sogutmaz OzdemirTiwari, V.K.Ullah, N.Unver, T.Yazar, S.Appels, R.Budak, H.AGRICULTURAL SCIENCES AND BIOTECHNOLOGYGenome-Wide Association StudyQuantitative Trait Locus MappingAbiotic Stress ToleranceGenomic SelectionQTL CloningCRISPR/Cas9ABIOTIC STRESSCRISPRDISEASE RESISTANCEQUANTITATIVE TRAIT LOCIWHEATRecent technological advances in next-generation sequencing (NGS) technologies have dramatically reduced the cost of DNA sequencing, allowing species with large and complex genomes to be sequenced. Although bread wheat (Triticum aestivum L.) is one of the world’s most important food crops, efficient exploitation of molecular marker-assisted breeding approaches has lagged behind that achieved in other crop species, due to its large polyploid genome. However, an international public–private effort spanning 9 years reported over 65% draft genome of bread wheat in 2014, and finally, after more than a decade culminated in the release of a gold-standard, fully annotated reference wheat-genome assembly in 2018. Shortly thereafter, in 2020, the genome of assemblies of additional 15 global wheat accessions was released. As a result, wheat has now entered into the pan-genomic era, where basic resources can be efficiently exploited. Wheat genotyping with a few hundred markers has been replaced by genotyping arrays, capable of characterizing hundreds of wheat lines, using thousands of markers, providing fast, relatively inexpensive, and reliable data for exploitation in wheat breeding. These advances have opened up new opportunities for marker-assisted selection (MAS) and genomic selection (GS) in wheat. Herein, we review the advances and perspectives in wheat genetics and genomics, with a focus on key traits, including grain yield, yield-related traits, end-use quality, and resistance to biotic and abiotic stresses. We also focus on reported candidate genes cloned and linked to traits of interest. Furthermore, we report on the improvement in the aforementioned quantitative traits, through the use of (i) clustered regularly interspaced short-palindromic repeats/CRISPR-associated protein 9 (CRISPR/Cas9)-mediated gene-editing and (ii) positional cloning methods, and of genomic selection. Finally, we examine the utilization of genomics for the next-generation wheat breeding, providing a practical example of using in silico bioinformatics tools that are based on the wheat reference-genome sequence.Frontiers Media S.A.2022-08-16T00:20:13Z2022-08-16T00:20:13Z2022Published Versioninfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/10883/2214410.3389/fpls.2022.851079131664-462XFrontiers in Plant Science851079reponame:Repositorio Institucional de Publicaciones Multimedia del CIMMYTinstname:Centro Internacional de Mejoramiento de Maíz y Trigoinstacron:CIMMYTEnglishhttps://figshare.com/collections/Capturing_Wheat_Phenotypes_at_the_Genome_Level/6077481Nutrition, health & food securityAccelerated BreedingGenetic InnovationUnited States Department of Agriculture (USDA)CGIAR Trust FundSmall Business Innovation Research InitiativeJunta de Andalucía (Andalusian Regional Government), SpainBiotechnology and Biological Sciences Research Council (BBSRC)2Blades FoundationAustralian Grains Research and Development Corporation (GRDC)Ministry of Science and Higher Education, Russian FederationDeutsche ForschungsgemeinschaftEuropean Regional Development Fundhttps://hdl.handle.net/10568/127283SwitzerlandCIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purposeOpen Accessinfo:eu-repo/semantics/openAccessoai:repository.cimmyt.org:10883/221442024-10-11T19:58:01Z |
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15.81155 |