Interpopulation differences of retroduplication variations (RDVs) in rice retrogenes and their phenotypic correlations
| Autor: | Jun Zhang, Hongbo Li, Xingyu Chen, Haiyue Zeng, Zhaoyuan Wei, Yi Wang |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
RDV
Retroduplication variation Population Biophysics MF Molecular function Biology Biochemistry Genome 03 medical and health sciences Retrocopy 0302 clinical medicine Structural Biology CC Cellular component Genetics Domestication education GO Gene ontology BP Biological process Gene Retroposition 030304 developmental biology ComputingMethodologies_COMPUTERGRAPHICS RDV Molecular breeding 0303 health sciences education.field_of_study FPKM Fragments per kilobase per million mapped reads food and beverages Phenotypic trait Phenotype MST monosaccharide transporter Computer Science Applications 030220 oncology & carcinogenesis Retrogene ORF Open reading frame Indel Insertion-deletion Rice TP248.13-248.65 Function (biology) Biotechnology Research Article |
| Zdroj: | Computational and Structural Biotechnology Journal Computational and Structural Biotechnology Journal, Vol 19, Iss, Pp 600-611 (2021) |
| ISSN: | 2001-0370 |
| Popis: | Graphical abstract Retroduplication variation (RDV), a type of retrocopy polymorphism, is considered to have essential biological significance, but its effect on gene function and species phenotype is still poorly understood. To this end, we analyzed the retrocopies and RDVs in 3,010 rice genomes. We calculated the RDV frequencies in the genome of each rice population; detected the mutated, ancestral and expressed retrogenes in rice genomes; and analyzed their RDV influence on rice phenotypic traits. Collectively, 73 RDVs were identified, and 14 RDVs in ancestral retrogenes can significantly affect rice phenotypes. Our research reveals that RDV plays an important role in rice migration, domestication and evolution. We think that RDV is a good molecular breeding marker candidate. To our knowledge, this is the first study on the relationship between retrogene function, expression, RDV and species phenotype. |
| Databáze: | OpenAIRE |
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