Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines.
Increasing low nitrogen (N) tolerance in maize is an important goal for food security and agricultural sustainability. In order to analyze the population structure of tropical maize lines and identify genomic regions associated with low-N tolerance, a set of 64 inbred lines were evaluated under low-...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2020-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0239900 |
| _version_ | 1818362125091864576 |
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| author | Gustavo César Sant'Ana Fernando Garcia Espolador Ítalo Stefanine Correia Granato Leandro Freitas Mendonça Roberto Fritsche-Neto Aluízio Borém |
| author_facet | Gustavo César Sant'Ana Fernando Garcia Espolador Ítalo Stefanine Correia Granato Leandro Freitas Mendonça Roberto Fritsche-Neto Aluízio Borém |
| author_sort | Gustavo César Sant'Ana |
| collection | DOAJ |
| description | Increasing low nitrogen (N) tolerance in maize is an important goal for food security and agricultural sustainability. In order to analyze the population structure of tropical maize lines and identify genomic regions associated with low-N tolerance, a set of 64 inbred lines were evaluated under low-N and optimal-N conditions. The low-N Agronomic Efficiency index (LNAE) of each line was calculated. The maize lines were genotyped using 417,112 SNPs markers. The grouping based on the LNAE values classified the lines into two phenotypic groups, the first comprised by genotypes with high LNAE (named H_LNAE group), while the second one comprised genotypes with low LNAE (named L_LNAE group). The H_LNAE and L_LNAE groups had LNAE mean values of 3,304 and 1,644, respectively. The population structure analysis revealed a weak relationship between genetic and phenotypic diversity. Pairs of lines were identified, having at the same time high LNAE and high genetic distance from each other. A set of 29 SNPs markers exhibited a significant difference in allelic frequencies (Fst > 0.2) between H_LNAE and L_LNAE groups. The Pearson's correlation between LNAE and the favorable alleles in this set of SNPs was 0.69. These SNPs could be useful for marker-assisted selection for low-N tolerance in maize breeding programs. The results of this study could help maize breeders identify accessions to be used in the development of low-N tolerant cultivars. |
| first_indexed | 2024-12-13T21:27:36Z |
| format | Article |
| id | doaj.art-40c8a47f138240fda2848b643f14da6e |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-13T21:27:36Z |
| publishDate | 2020-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-40c8a47f138240fda2848b643f14da6e2022-12-21T23:30:54ZengPublic Library of Science (PLoS)PLoS ONE1932-62032020-01-01159e023990010.1371/journal.pone.0239900Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines.Gustavo César Sant'AnaFernando Garcia EspoladorÍtalo Stefanine Correia GranatoLeandro Freitas MendonçaRoberto Fritsche-NetoAluízio BorémIncreasing low nitrogen (N) tolerance in maize is an important goal for food security and agricultural sustainability. In order to analyze the population structure of tropical maize lines and identify genomic regions associated with low-N tolerance, a set of 64 inbred lines were evaluated under low-N and optimal-N conditions. The low-N Agronomic Efficiency index (LNAE) of each line was calculated. The maize lines were genotyped using 417,112 SNPs markers. The grouping based on the LNAE values classified the lines into two phenotypic groups, the first comprised by genotypes with high LNAE (named H_LNAE group), while the second one comprised genotypes with low LNAE (named L_LNAE group). The H_LNAE and L_LNAE groups had LNAE mean values of 3,304 and 1,644, respectively. The population structure analysis revealed a weak relationship between genetic and phenotypic diversity. Pairs of lines were identified, having at the same time high LNAE and high genetic distance from each other. A set of 29 SNPs markers exhibited a significant difference in allelic frequencies (Fst > 0.2) between H_LNAE and L_LNAE groups. The Pearson's correlation between LNAE and the favorable alleles in this set of SNPs was 0.69. These SNPs could be useful for marker-assisted selection for low-N tolerance in maize breeding programs. The results of this study could help maize breeders identify accessions to be used in the development of low-N tolerant cultivars.https://doi.org/10.1371/journal.pone.0239900 |
| spellingShingle | Gustavo César Sant'Ana Fernando Garcia Espolador Ítalo Stefanine Correia Granato Leandro Freitas Mendonça Roberto Fritsche-Neto Aluízio Borém Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. PLoS ONE |
| title | Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. |
| title_full | Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. |
| title_fullStr | Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. |
| title_full_unstemmed | Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. |
| title_short | Population structure analysis and identification of genomic regions under selection associated with low-nitrogen tolerance in tropical maize lines. |
| title_sort | population structure analysis and identification of genomic regions under selection associated with low nitrogen tolerance in tropical maize lines |
| url | https://doi.org/10.1371/journal.pone.0239900 |
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