Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains
NAC proteins are plant transcription factors involved in biotic and abiotic stress responses, with conserved sub-domain motifs. To our knowledge, no diversity studies have been carried out at the nucleotide level of candidate NAC genes of crops. Here, we investigated allele diversity and putative pr...
| Autores principales: | , , , , |
|---|---|
| Formato: | info:ar-repo/semantics/artículo |
| Lenguaje: | Inglés |
| Publicado: |
Springer Nature
2023
|
| Materias: | |
| Acceso en línea: | http://hdl.handle.net/20.500.12123/15874 https://link.springer.com/journal/11032/volumes-and-issues/37-2 https://doi.org/10.1007/s11032-016-0602-8 |
| _version_ | 1855037389255213056 |
|---|---|
| author | Estermann, M.A. Ugarte, A. Pretini, Nicole Vega, Claudia Rosa Cecilia Olmos, Sofía Eugenia |
| author_browse | Estermann, M.A. Olmos, Sofía Eugenia Pretini, Nicole Ugarte, A. Vega, Claudia Rosa Cecilia |
| author_facet | Estermann, M.A. Ugarte, A. Pretini, Nicole Vega, Claudia Rosa Cecilia Olmos, Sofía Eugenia |
| author_sort | Estermann, M.A. |
| collection | INTA Digital |
| description | NAC proteins are plant transcription factors involved in biotic and abiotic stress responses, with conserved sub-domain motifs. To our knowledge, no diversity studies have been carried out at the nucleotide level of candidate NAC genes of crops. Here, we investigated allele diversity and putative protein-coding sequences in two paralogous maize NAC genes, GRMZM2G179885 and GRMZM2G347043. The GRMZM2G179885 gene is the closest ortholog of WNAC-B1, responsible for enhancing nitrogen remobilization and senescence in wheat. The GRMZM2G347043 gene is the homolog to the characterized ZmSNAC1 allele, which promotes the dehydration tolerance response in Arabidopsis. Nucleotide diversity for both genes was determined in a core set of the Argentine public maize collection of temperate inbred lines structured in four diverse subpopulations. The frequency of nucleotide changes at both exons and introns of GRMZM2G179885 and GRMZM2G347043 was lower (1/137 bp-1/83 bp and 1/472 bp-1/51 bp, respectively) than that of other maize genes. Tajima’s D values were non-significant, indicating the absence of selection at these genes. The five sub-domains of NAC proteins were predicted at both genes, thus implying: (i) high conservation of these two genes at the genomic level, and (ii) scarce divergence between GRMZM2G179885 and GRMZM2G347043 protein-coding sequences, which confirms their relationships as ancestral paralogs. Although the functional activity of both genes in maize metabolism is still unclear, our findings contribute to demonstrating that their NAC proteins are common alleles and would serve as a source for abiotic stress improvement in the Argentine public maize inbred line collection. |
| format | info:ar-repo/semantics/artículo |
| id | INTA15874 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2023 |
| publishDateRange | 2023 |
| publishDateSort | 2023 |
| publisher | Springer Nature |
| publisherStr | Springer Nature |
| record_format | dspace |
| spelling | INTA158742023-11-08T14:18:39Z Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains Estermann, M.A. Ugarte, A. Pretini, Nicole Vega, Claudia Rosa Cecilia Olmos, Sofía Eugenia Maíz Alelos Diversidad de Especies Estrés Abiótico Maize Alleles Species Diversity Abiotic Stress Orthologous Paralogous Domain Conservation Population Diversity Synteny NAC proteins are plant transcription factors involved in biotic and abiotic stress responses, with conserved sub-domain motifs. To our knowledge, no diversity studies have been carried out at the nucleotide level of candidate NAC genes of crops. Here, we investigated allele diversity and putative protein-coding sequences in two paralogous maize NAC genes, GRMZM2G179885 and GRMZM2G347043. The GRMZM2G179885 gene is the closest ortholog of WNAC-B1, responsible for enhancing nitrogen remobilization and senescence in wheat. The GRMZM2G347043 gene is the homolog to the characterized ZmSNAC1 allele, which promotes the dehydration tolerance response in Arabidopsis. Nucleotide diversity for both genes was determined in a core set of the Argentine public maize collection of temperate inbred lines structured in four diverse subpopulations. The frequency of nucleotide changes at both exons and introns of GRMZM2G179885 and GRMZM2G347043 was lower (1/137 bp-1/83 bp and 1/472 bp-1/51 bp, respectively) than that of other maize genes. Tajima’s D values were non-significant, indicating the absence of selection at these genes. The five sub-domains of NAC proteins were predicted at both genes, thus implying: (i) high conservation of these two genes at the genomic level, and (ii) scarce divergence between GRMZM2G179885 and GRMZM2G347043 protein-coding sequences, which confirms their relationships as ancestral paralogs. Although the functional activity of both genes in maize metabolism is still unclear, our findings contribute to demonstrating that their NAC proteins are common alleles and would serve as a source for abiotic stress improvement in the Argentine public maize inbred line collection. EEA Pergamino Fil: Estermann, M.A. Universidad Nacional del Noroeste de Buenos Aires; Argentina Fil: Ugarte, A. Universidad Nacional del Noroeste de Buenos Aires; Argentina Fil: Pretini, N. Universidad Nacional del Noroeste de Buenos Aires; Argentina Fil: Vega, C. R. C. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Manfredi; Argentina Fil: Olmos, Sofía Eugenia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Pergamino. Laboratorio de Biotecnología; Argentina 2023-11-08T14:00:50Z 2023-11-08T14:00:50Z 2017-01 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/15874 https://link.springer.com/journal/11032/volumes-and-issues/37-2 1380-3743 1572-9788 (online) https://doi.org/10.1007/s11032-016-0602-8 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf Springer Nature Molecular Breeding New Strategies in Plant Improvement 37 (2) : 12. (February 2017) |
| spellingShingle | Maíz Alelos Diversidad de Especies Estrés Abiótico Maize Alleles Species Diversity Abiotic Stress Orthologous Paralogous Domain Conservation Population Diversity Synteny Estermann, M.A. Ugarte, A. Pretini, Nicole Vega, Claudia Rosa Cecilia Olmos, Sofía Eugenia Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title | Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title_full | Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title_fullStr | Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title_full_unstemmed | Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title_short | Allele mining in the Argentine public maize inbred line collection of two paralogous genes encoding NAC domains |
| title_sort | allele mining in the argentine public maize inbred line collection of two paralogous genes encoding nac domains |
| topic | Maíz Alelos Diversidad de Especies Estrés Abiótico Maize Alleles Species Diversity Abiotic Stress Orthologous Paralogous Domain Conservation Population Diversity Synteny |
| url | http://hdl.handle.net/20.500.12123/15874 https://link.springer.com/journal/11032/volumes-and-issues/37-2 https://doi.org/10.1007/s11032-016-0602-8 |
| work_keys_str_mv | AT estermannma alleleminingintheargentinepublicmaizeinbredlinecollectionoftwoparalogousgenesencodingnacdomains AT ugartea alleleminingintheargentinepublicmaizeinbredlinecollectionoftwoparalogousgenesencodingnacdomains AT pretininicole alleleminingintheargentinepublicmaizeinbredlinecollectionoftwoparalogousgenesencodingnacdomains AT vegaclaudiarosacecilia alleleminingintheargentinepublicmaizeinbredlinecollectionoftwoparalogousgenesencodingnacdomains AT olmossofiaeugenia alleleminingintheargentinepublicmaizeinbredlinecollectionoftwoparalogousgenesencodingnacdomains |