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Genome-wide identification and expression analysis of SWI1 genes in Boechera species.
- Source :
-
Computational biology and chemistry [Comput Biol Chem] 2016 Jun; Vol. 62, pp. 75-81. Date of Electronic Publication: 2016 Apr 13. - Publication Year :
- 2016
-
Abstract
- As a mode of reproduction in plants, apomixis leads to the generation of clones via seeds. Apomictic plants form viable diploid female gametes without meiosis (apomeiosis) and produce embryos without fertilization (parthenogenesis). Apomeiosis, as a major component of apomixis, has recently been reported in some Arabidopsis thaliana mutants; dyad mutants of SWI1 showed developmental processes common to apomeiosis, such as producing functional diploid gametes. However, the orthologs of SWI1 genes in natural apomicts has not been previously reported. To identify the relationship between the SWI1 gene and the apomeiosis process, we isolated and sequenced SWI1 orthologs from Boechera species, including apomictic and sexual species. Boechera species are close relatives of A. thaliana and thus are advantageous model species for apomixis research. The SWI1 cDNAs were obtained by RT-PCR from apomictic and sexual Boechera young flower buds. We sequenced partial SWI1 transcripts that were 650bp for B. holboellii and 684bp for B. stricta. These SWI1-like sequences showed 86% similarity for B. holboellii and 92% for B. stricta to the A. thaliana SWI1 transcript. We also used available genome data and amplified genomic sequences for SWI1 orthologs in B. holboellii and B. stricta. The predicted proteins contain a phospholipase C domain and a nuclear localization signal. Sequence analysis did not show significant mutations related to apomixis, and phylogenetic analysis showed that SWI1-like sequences were common across plant families, regardless of the presence of a sexual or apomictic reproduction system. We also investigated the expression levels of SWI1 mRNA in the B. holboellii and B. stricta young unopened flower buds and found that relatively high levels of expression occurred in apomicts.<br /> (Copyright © 2016 Elsevier Ltd. All rights reserved.)
- Subjects :
- Brassicaceae classification
Flowers genetics
Gene Expression Profiling
Gene Expression Regulation, Plant
Genome-Wide Association Study
Phylogeny
Polymerase Chain Reaction
Protein Domains
Type C Phospholipases chemistry
Type C Phospholipases genetics
Brassicaceae genetics
Genes, Plant genetics
Genome
Subjects
Details
- Language :
- English
- ISSN :
- 1476-928X
- Volume :
- 62
- Database :
- MEDLINE
- Journal :
- Computational biology and chemistry
- Publication Type :
- Academic Journal
- Accession number :
- 27107180
- Full Text :
- https://doi.org/10.1016/j.compbiolchem.2016.04.004