Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics
The fate of doubled genes, from allopolyploid or autopolyploid origin, is controlled at multiple levels, resulting in the modern day cultivars. We studied the root growth of 3 different triploid banana cultivars under control and osmotic stress conditions. The root growth of the allopolyploid ABB cu...
| Autores principales: | , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2018
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/92389 |
| _version_ | 1855522964919812096 |
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| author | Wesemael, Jelle van Hueber, Y. Kissel, E. Campos, N. Swennen, Rony L. Carpentier, Sebastien C. |
| author_browse | Campos, N. Carpentier, Sebastien C. Hueber, Y. Kissel, E. Swennen, Rony L. Wesemael, Jelle van |
| author_facet | Wesemael, Jelle van Hueber, Y. Kissel, E. Campos, N. Swennen, Rony L. Carpentier, Sebastien C. |
| author_sort | Wesemael, Jelle van |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The fate of doubled genes, from allopolyploid or autopolyploid origin, is controlled at multiple levels, resulting in the modern day cultivars. We studied the root growth of 3 different triploid banana cultivars under control and osmotic stress conditions. The root growth of the allopolyploid ABB cultivar was 42% higher under control and 61% higher under osmotic stress. By integrating transcriptomics and proteomics, we studied the gene expression of all 3 cultivars, resulting in 2,749 identified root proteins. 383 gene loci displayed genotype specific differential expression whereof 252 showed at least one Single Amino Acid Polymorphism (SAAP). In the ABB cultivar, allele expressions supposedly follow a 1/3 and 2/3 pattern for respectively the A and the B allele. Using transcriptome read alignment to assess the homeoallelic contribution we found that 63% of the allele specific genes deviated from this expectation. 32 gene loci even did not express the A allele. The identified ABB allele- specific proteins correlate well with the observed growth phenotype as they are enriched in energy related functions such as ATP metabolic processes, nicotinamide nucleotide metabolic processes, and glycolysis. |
| format | Journal Article |
| id | CGSpace92389 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace923892025-11-12T05:41:08Z Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics Wesemael, Jelle van Hueber, Y. Kissel, E. Campos, N. Swennen, Rony L. Carpentier, Sebastien C. bananas plantains cultivars nicotinamide musa genotypes allopolyploid autopolyploid transcriptomics proteomics The fate of doubled genes, from allopolyploid or autopolyploid origin, is controlled at multiple levels, resulting in the modern day cultivars. We studied the root growth of 3 different triploid banana cultivars under control and osmotic stress conditions. The root growth of the allopolyploid ABB cultivar was 42% higher under control and 61% higher under osmotic stress. By integrating transcriptomics and proteomics, we studied the gene expression of all 3 cultivars, resulting in 2,749 identified root proteins. 383 gene loci displayed genotype specific differential expression whereof 252 showed at least one Single Amino Acid Polymorphism (SAAP). In the ABB cultivar, allele expressions supposedly follow a 1/3 and 2/3 pattern for respectively the A and the B allele. Using transcriptome read alignment to assess the homeoallelic contribution we found that 63% of the allele specific genes deviated from this expectation. 32 gene loci even did not express the A allele. The identified ABB allele- specific proteins correlate well with the observed growth phenotype as they are enriched in energy related functions such as ATP metabolic processes, nicotinamide nucleotide metabolic processes, and glycolysis. 2018 2018-04-26T09:03:09Z 2018-04-26T09:03:09Z Journal Article https://hdl.handle.net/10568/92389 en Open Access application/pdf Springer van Wesemael, J., Hueber, Y., Kissel, E., Campos, N., Swennen, R. & Carpentier, S. (2018). Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics. Scientific Reports, 8, 1353-1363. |
| spellingShingle | bananas plantains cultivars nicotinamide musa genotypes allopolyploid autopolyploid transcriptomics proteomics Wesemael, Jelle van Hueber, Y. Kissel, E. Campos, N. Swennen, Rony L. Carpentier, Sebastien C. Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title | Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title_full | Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title_fullStr | Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title_full_unstemmed | Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title_short | Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics |
| title_sort | homeolog expression analysis in an allotriploid non model crop via integration of transcriptomics and proteomics |
| topic | bananas plantains cultivars nicotinamide musa genotypes allopolyploid autopolyploid transcriptomics proteomics |
| url | https://hdl.handle.net/10568/92389 |
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