Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population.
Autor(a) principal: | |
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Data de Publicação: | 2020 |
Outros Autores: | , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
Texto Completo: | http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125512 https://doi.org/10.1007/s00122-020-03697-8 |
Resumo: | Tropical soils where low phosphorus (P) and aluminum (Al) toxicity limit sorghum [Sorghum bicolor (L.) Moench] production are widespread in the developing world. We report on BRP13R, a multiparental random mating population (MPRMP), which is commonly used in sorghum recurrent selection targeting tropical soil adaptation. Recombination dissipated much of BRP13R?s likely original population structure and average linkage disequilibrium (LD) persisted up to 2.5 Mb, establishing BRP13R as a middle ground between biparental populations and sorghum association panels. Genome-wide association mapping (GWAS) identifed conserved QTL from previous studies, such as for root morphology and grain yield under low-P, and indicated the importance of dominance in the genetic architecture of grain yield. By overlapping consensus QTL regions, we mapped two candidate P efciency genes to a ~5 Mb region on chromosomes 6 (ALMT) and 9 (PHO2). Remarkably, we fnd that only 200 progeny genotyped with~45,000 markers in BRP13R can lead to GWAS-based positional cloning of naturally rare, subpopulation-specifc alleles, such as for SbMATE-conditioned Al tolerance. Genomic selection was found to be useful in such MP-RMP, particularly if markers in LD with major genes are ftted as fxed efects into GBLUP models accommodating dominance. Shifts in allele frequencies in progeny contrasting for grain yield indicated that intermediate to minor-efect genes on P efciency, such as SbPSTOL1 genes, can be employed in pre-breeding via allele mining in the base population. Therefore, MP-RMPs such as BRP13R emerge as multipurpose resources for efcient gene discovery and deployment for breeding sorghum cultivars adapted to tropical soils. |
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Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population.Seleção genômicaSorgoGenética VegetalGeneMelhoramento Genético VegetalTropical soils where low phosphorus (P) and aluminum (Al) toxicity limit sorghum [Sorghum bicolor (L.) Moench] production are widespread in the developing world. We report on BRP13R, a multiparental random mating population (MPRMP), which is commonly used in sorghum recurrent selection targeting tropical soil adaptation. Recombination dissipated much of BRP13R?s likely original population structure and average linkage disequilibrium (LD) persisted up to 2.5 Mb, establishing BRP13R as a middle ground between biparental populations and sorghum association panels. Genome-wide association mapping (GWAS) identifed conserved QTL from previous studies, such as for root morphology and grain yield under low-P, and indicated the importance of dominance in the genetic architecture of grain yield. By overlapping consensus QTL regions, we mapped two candidate P efciency genes to a ~5 Mb region on chromosomes 6 (ALMT) and 9 (PHO2). Remarkably, we fnd that only 200 progeny genotyped with~45,000 markers in BRP13R can lead to GWAS-based positional cloning of naturally rare, subpopulation-specifc alleles, such as for SbMATE-conditioned Al tolerance. Genomic selection was found to be useful in such MP-RMP, particularly if markers in LD with major genes are ftted as fxed efects into GBLUP models accommodating dominance. Shifts in allele frequencies in progeny contrasting for grain yield indicated that intermediate to minor-efect genes on P efciency, such as SbPSTOL1 genes, can be employed in pre-breeding via allele mining in the base population. Therefore, MP-RMPs such as BRP13R emerge as multipurpose resources for efcient gene discovery and deployment for breeding sorghum cultivars adapted to tropical soils.Karine C. Bernardino, Universidade Federal de Viçosa; CICERO BESERRA DE MENEZES, CNPMS; SYLVIA MORAIS DE SOUSA TINOCO, CNPMS; CLAUDIA TEIXEIRA GUIMARAES, CNPMS; Pedro C. S. Carneiro, Universidade Federal de Viçosa; ROBERT EUGENE SCHAFFERT, CNPMS; Leon V. Kochian, University of Saskatchewan; Barbara Hufnagel, University of Montpellier; MARIA MARTA PASTINA, CNPMS; JURANDIR VIEIRA DE MAGALHAES, CNPMS.BERNARDINO, K. C.MENEZES, C. B. deSOUSA, S. M. deGUIMARÃES, C. T.CARNEIRO, P. C. S.SCHAFFERT, R. E.KOCHIAN, L. V.HUFNAGEL, B.PASTINA, M. M.MAGALHAES, J. V. de2021-05-09T02:07:48Z2021-05-09T02:07:48Z2020-10-152021info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleTheoretical and Applied Genetics, v. 134, p. 295-312, 2021.http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125512https://doi.org/10.1007/s00122-020-03697-8enginfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice)instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa)instacron:EMBRAPA2021-05-09T02:07:59Zoai:www.alice.cnptia.embrapa.br:doc/1125512Repositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestopendoar:21542021-05-09T02:07:59falseRepositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestcg-riaa@embrapa.bropendoar:21542021-05-09T02:07:59Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa)false |
dc.title.none.fl_str_mv |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
title |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
spellingShingle |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. BERNARDINO, K. C. Seleção genômica Sorgo Genética Vegetal Gene Melhoramento Genético Vegetal |
title_short |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
title_full |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
title_fullStr |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
title_full_unstemmed |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
title_sort |
Association mapping and genomic selection for sorghum adaptation to tropical soils of Brazil in a sorghum multiparental random mating population. |
author |
BERNARDINO, K. C. |
author_facet |
BERNARDINO, K. C. MENEZES, C. B. de SOUSA, S. M. de GUIMARÃES, C. T. CARNEIRO, P. C. S. SCHAFFERT, R. E. KOCHIAN, L. V. HUFNAGEL, B. PASTINA, M. M. MAGALHAES, J. V. de |
author_role |
author |
author2 |
MENEZES, C. B. de SOUSA, S. M. de GUIMARÃES, C. T. CARNEIRO, P. C. S. SCHAFFERT, R. E. KOCHIAN, L. V. HUFNAGEL, B. PASTINA, M. M. MAGALHAES, J. V. de |
author2_role |
author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Karine C. Bernardino, Universidade Federal de Viçosa; CICERO BESERRA DE MENEZES, CNPMS; SYLVIA MORAIS DE SOUSA TINOCO, CNPMS; CLAUDIA TEIXEIRA GUIMARAES, CNPMS; Pedro C. S. Carneiro, Universidade Federal de Viçosa; ROBERT EUGENE SCHAFFERT, CNPMS; Leon V. Kochian, University of Saskatchewan; Barbara Hufnagel, University of Montpellier; MARIA MARTA PASTINA, CNPMS; JURANDIR VIEIRA DE MAGALHAES, CNPMS. |
dc.contributor.author.fl_str_mv |
BERNARDINO, K. C. MENEZES, C. B. de SOUSA, S. M. de GUIMARÃES, C. T. CARNEIRO, P. C. S. SCHAFFERT, R. E. KOCHIAN, L. V. HUFNAGEL, B. PASTINA, M. M. MAGALHAES, J. V. de |
dc.subject.por.fl_str_mv |
Seleção genômica Sorgo Genética Vegetal Gene Melhoramento Genético Vegetal |
topic |
Seleção genômica Sorgo Genética Vegetal Gene Melhoramento Genético Vegetal |
description |
Tropical soils where low phosphorus (P) and aluminum (Al) toxicity limit sorghum [Sorghum bicolor (L.) Moench] production are widespread in the developing world. We report on BRP13R, a multiparental random mating population (MPRMP), which is commonly used in sorghum recurrent selection targeting tropical soil adaptation. Recombination dissipated much of BRP13R?s likely original population structure and average linkage disequilibrium (LD) persisted up to 2.5 Mb, establishing BRP13R as a middle ground between biparental populations and sorghum association panels. Genome-wide association mapping (GWAS) identifed conserved QTL from previous studies, such as for root morphology and grain yield under low-P, and indicated the importance of dominance in the genetic architecture of grain yield. By overlapping consensus QTL regions, we mapped two candidate P efciency genes to a ~5 Mb region on chromosomes 6 (ALMT) and 9 (PHO2). Remarkably, we fnd that only 200 progeny genotyped with~45,000 markers in BRP13R can lead to GWAS-based positional cloning of naturally rare, subpopulation-specifc alleles, such as for SbMATE-conditioned Al tolerance. Genomic selection was found to be useful in such MP-RMP, particularly if markers in LD with major genes are ftted as fxed efects into GBLUP models accommodating dominance. Shifts in allele frequencies in progeny contrasting for grain yield indicated that intermediate to minor-efect genes on P efciency, such as SbPSTOL1 genes, can be employed in pre-breeding via allele mining in the base population. Therefore, MP-RMPs such as BRP13R emerge as multipurpose resources for efcient gene discovery and deployment for breeding sorghum cultivars adapted to tropical soils. |
publishDate |
2020 |
dc.date.none.fl_str_mv |
2020-10-15 2021-05-09T02:07:48Z 2021-05-09T02:07:48Z 2021 |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
Theoretical and Applied Genetics, v. 134, p. 295-312, 2021. http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125512 https://doi.org/10.1007/s00122-020-03697-8 |
identifier_str_mv |
Theoretical and Applied Genetics, v. 134, p. 295-312, 2021. |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125512 https://doi.org/10.1007/s00122-020-03697-8 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.source.none.fl_str_mv |
reponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa) instacron:EMBRAPA |
instname_str |
Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
instacron_str |
EMBRAPA |
institution |
EMBRAPA |
reponame_str |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
collection |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
repository.name.fl_str_mv |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
repository.mail.fl_str_mv |
cg-riaa@embrapa.br |
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1794503505423106048 |