| Full text | |
| Author(s): |
Alves Margarido, Gabriel Rodrigues
[1, 2]
;
Correr, Fernando Henrique
[1, 2]
;
Furtado, Agnelo
[2]
;
Botha, Frederik C.
[2]
;
Henry, Robert James
[2]
Total Authors: 5
|
| Affiliation: | [1] Univ Sao Paulo, Luiz de Queiroz Coll Agr, Dept Genet, BR-13418900 Piracicaba - Brazil
[2] Univ Queensland, Queensland Alliance Agr & Food Innovat, Brisbane, Qld 4072 - Australia
Total Affiliations: 2
|
| Document type: | Journal article |
| Source: | Genome Research; v. 32, n. 2, p. 297-308, FEB 2022. |
| Web of Science Citations: | 0 |
| Abstract | |
Polyploidy is widespread in plants, allowing the different copies of genes to be expressed differently in a tissue-specific or developmentally specific way. This allele-specific expression (ASE) has been widely reported, but the proportion and nature of genes showing this characteristic have not been well defined. We now report an analysis of the frequency and patterns of ASE at the whole-genome level in the highly polyploid sugarcane genome. Very high depth whole-genome sequencing and RNA sequencing revealed strong correlations between allelic proportions in the genome and in expressed sequences. This level of sequencing allowed discrimination of each of the possible allele doses in this 12-ploid genome. Most genes were expressed in direct proportion to the frequency of the allele in the genome with examples of polymorphisms being found with every possible discrete level of dose from 1:11 for single-copy alleles to 12:0 for monomorphic sites. The rarer cases of ASE were more frequent in the expression of defense-response genes, as well as in some processes related to the biosynthesis of cell walls. ASE was more common in genes with variants that resulted in significant disruption of function. The low level of ASE may reflect the recent origin of polyploid hybrid sugarcane. Much of the ASE present can be attributed to strong selection for resistance to diseases in both nature and domestication. (AU) | |
| FAPESP's process: | 15/22993-7 - Transcriptomics for the identification of commercially important genes in sugarcane |
| Grantee: | Gabriel Rodrigues Alves Margarido |
| Support Opportunities: | Program for Research on Bioenergy (BIOEN) - Young Investigators Grants |