Show simple item record

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

dc.contributor.authorWesemael, J. van
dc.contributor.authorHueber, Y.
dc.contributor.authorKissel, E.
dc.contributor.authorCampos, N.
dc.contributor.authorSwennen, R.L.
dc.contributor.authorCarpentier, S.
dc.date.accessioned2019-12-04T11:14:16Z
dc.date.available2019-12-04T11:14:16Z
dc.date.issued2018
dc.identifier.citationvan 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.
dc.identifier.issn2045-2322
dc.identifier.urihttps://hdl.handle.net/20.500.12478/2711
dc.descriptionOpen Access Journal; Published online: 22 Jan 2018
dc.description.abstractThe 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.
dc.description.sponsorshipDirectorate-General for Development Cooperation and Humanitarian Aid, Belgium
dc.description.sponsorshipUnited States Agency for International Development
dc.format.extent1353-1363
dc.language.isoen
dc.subjectBananas
dc.subjectPlantains
dc.subjectCultivars
dc.subjectNicotinamide
dc.subjectMusa
dc.subjectGenotypes
dc.subjectAllopolyploid
dc.subjectAutopolyploid
dc.subjectTranscriptomics
dc.subjectProteomics
dc.titleHomeolog expression analysis in an allotriploid non-model crop via integration of transcriptomics and proteomics
dc.typeJournal Article
dc.description.versionPeer Review
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.affiliationKatholieke Universiteit Leuven
cg.contributor.affiliationBioversity International
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.contributor.affiliationFacility for Systems Biology based Mass Spectrometry, Belgium
cg.coverage.regionAcp
cg.coverage.regionEurope
cg.coverage.countryBelgium
cg.creator.identifierRony Swennen: 0000-0002-5258-9043
cg.researchthemeBIOTECH & PLANT BREEDING
cg.isijournalISI Journal
cg.authorship.typesCGIAR and advanced research institute
cg.iitasubjectBanana
cg.iitasubjectGenetic Improvement
cg.iitasubjectPlant Breeding
cg.iitasubjectPlant Genetic Resources
cg.iitasubjectPlant Production
cg.iitasubjectPlantain
cg.journalScientific Reports
cg.howpublishedFormally Published
cg.accessibilitystatusOpen Access
local.dspaceid93650
cg.targetaudienceScientists
cg.identifier.doihttp://dx.doi.org/10.1038/s41598-018-19684-5


Files in this item

Thumbnail
Name:
U18ArtWesemaelHomeologInthomNo ...
Size:
1.980Mb
Format:
PDF
View/Open

This item appears in the following Collection(s)

Show simple item record