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Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics

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Title Homeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics
 
Creator Wesemael, J. van
Hueber, Y.
Kissel, E.
Campos, N.
Swennen, Rony L.
Carpentier, Sebastien C.
 
Subject bananas
plantains
cultivars
nicotinamide
musa
genotypes
allopolyploid
autopolyploid
transcriptomics
proteomics
 
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.
 
Date 2018
2018-04-26T09:03:09Z
2018-04-26T09:03:09Z
 
Type Journal Article
 
Identifier 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.
2045-2322
https://hdl.handle.net/10568/92389
https://doi.org/10.1038/s41598-018-19684-5
BIOTECH & PLANT BREEDING
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format 1353-1363
application/pdf
 
Publisher Springer Science and Business Media LLC
 
Source Scientific Reports