Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding
Large-scale evaluation of genetic diversity in crops with large and complex genomes benefits from the selective enrichment of relevant genomic regions prior to sequencing. Given the complexity of the sugarcane (Saccharum spp.) genome and the limited exploration of quantitative trait loci (QTL) for i...
| Autores principales: | , , , , |
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| Formato: | info:ar-repo/semantics/artículo |
| Lenguaje: | Inglés |
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Wiley
2022
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| Materias: | |
| Acceso en línea: | http://hdl.handle.net/20.500.12123/11570 https://onlinelibrary.wiley.com/doi/abs/10.1111/pbr.13013 https://doi.org/10.1111/pbr.13013 |
| _version_ | 1855036597278343168 |
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| author | Federico, María Laura Diniz, Augusto L. Souza, Glaucia M. Snowdon, Rod Erazzu, Luis Ernesto |
| author_browse | Diniz, Augusto L. Erazzu, Luis Ernesto Federico, María Laura Snowdon, Rod Souza, Glaucia M. |
| author_facet | Federico, María Laura Diniz, Augusto L. Souza, Glaucia M. Snowdon, Rod Erazzu, Luis Ernesto |
| author_sort | Federico, María Laura |
| collection | INTA Digital |
| description | Large-scale evaluation of genetic diversity in crops with large and complex genomes benefits from the selective enrichment of relevant genomic regions prior to sequencing. Given the complexity of the sugarcane (Saccharum spp.) genome and the limited exploration of quantitative trait loci (QTL) for important energy traits, we used comparative genomics with the related diploid crop sorghum (Sorghum bicolor) to mine for regions associated with bioenergy production. Twenty-one meta-QTL (mQTL) were identified after surveying 286 QTL from 24 different studies using the Sorghum QTL Atlas. Comparative genomics revealed that at least 35% of genes located within QTL can be found in highly conserved sorghum/sugarcane collinear chromosome blocks. Additionally, a targeted candidate search identified 200 genes known for their involvement in sugar and cell wall metabolism. For a subset of these sorghum genes, we evaluated sugarcane gene copy number, sequence identity, and homoeolog expression in target tissues. This work is an initial step towards targeting and resequencing sugarcane orthologous genomic regions to discover single nucleotide polymorphisms (SNPs) as a resource for genomics-assisted breeding. |
| format | info:ar-repo/semantics/artículo |
| id | INTA11570 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | INTA115702022-04-06T12:45:12Z Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding Federico, María Laura Diniz, Augusto L. Souza, Glaucia M. Snowdon, Rod Erazzu, Luis Ernesto Sorghum bicolor Sorgos Caña de Azúcar Genética Bioenergía Genómica Saccharum Sorghum Grain Sugar Cane Genetics Bioenergy Genomics Large-scale evaluation of genetic diversity in crops with large and complex genomes benefits from the selective enrichment of relevant genomic regions prior to sequencing. Given the complexity of the sugarcane (Saccharum spp.) genome and the limited exploration of quantitative trait loci (QTL) for important energy traits, we used comparative genomics with the related diploid crop sorghum (Sorghum bicolor) to mine for regions associated with bioenergy production. Twenty-one meta-QTL (mQTL) were identified after surveying 286 QTL from 24 different studies using the Sorghum QTL Atlas. Comparative genomics revealed that at least 35% of genes located within QTL can be found in highly conserved sorghum/sugarcane collinear chromosome blocks. Additionally, a targeted candidate search identified 200 genes known for their involvement in sugar and cell wall metabolism. For a subset of these sorghum genes, we evaluated sugarcane gene copy number, sequence identity, and homoeolog expression in target tissues. This work is an initial step towards targeting and resequencing sugarcane orthologous genomic regions to discover single nucleotide polymorphisms (SNPs) as a resource for genomics-assisted breeding. EEA Famaillá Fil: Federico, María Laura. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Federico, María Laura. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Famaillá; Argentina. Fil: Federico, María Laura. Universidad de San Pablo-Tucumán. IDITEC; Argentina Fil: Diniz, Augusto L. Universidade de São Paulo. Departamento de Bioquímica. Instituto de Química; Brasil Fil: Souza, Glaucia M. Universidade de São Paulo. Departamento de Bioquímica. Instituto de Química; Brasil Fil: Snowdon, Rod. Justus Liebig University. Department of Plant Breeding; Alemania Fil: Erazzú, Luis E. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Famaillá; Argentina. 2022-04-06T12:41:59Z 2022-04-06T12:41:59Z 2022-04 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/11570 https://onlinelibrary.wiley.com/doi/abs/10.1111/pbr.13013 0179-9541 1439-0523 https://doi.org/10.1111/pbr.13013 eng info:eu-repo/semantics/restrictedAccess application/pdf Wiley Plant Breeding (First published: 01 April 2022) |
| spellingShingle | Sorghum bicolor Sorgos Caña de Azúcar Genética Bioenergía Genómica Saccharum Sorghum Grain Sugar Cane Genetics Bioenergy Genomics Federico, María Laura Diniz, Augusto L. Souza, Glaucia M. Snowdon, Rod Erazzu, Luis Ernesto Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title | Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title_full | Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title_fullStr | Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title_full_unstemmed | Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title_short | Translational genomics from sorghum (Sorghum bicolor) to sugarcane (Saccharum spp.) for bioenergy breeding |
| title_sort | translational genomics from sorghum sorghum bicolor to sugarcane saccharum spp for bioenergy breeding |
| topic | Sorghum bicolor Sorgos Caña de Azúcar Genética Bioenergía Genómica Saccharum Sorghum Grain Sugar Cane Genetics Bioenergy Genomics |
| url | http://hdl.handle.net/20.500.12123/11570 https://onlinelibrary.wiley.com/doi/abs/10.1111/pbr.13013 https://doi.org/10.1111/pbr.13013 |
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