Genome-wide identification and expression analysis of SWI1 genes in Boechera species

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dc.authoridTaşkın, Kemal Melih / 0000-0002-3746-0508
dc.authoridÖzbilen, Aslıhan / 0000-0002-2034-4682
dc.authoridSezer, Fatih / 0000-0002-9436-0191
dc.contributor.authorSezer, Fatih
dc.contributor.authorYüzbaşıoğlu, Gözde
dc.contributor.authorÖzbilen, Aslıhan
dc.contributor.authorTaşkın, Kemal Melih
dc.date.accessioned2025-01-27T20:55:43Z
dc.date.available2025-01-27T20:55:43Z
dc.date.issued2016
dc.departmentÇanakkale Onsekiz Mart Üniversitesi
dc.description.abstractAs 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 650 bp for B. holboellii and 684 by 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. (C) 2016 Elsevier Ltd. All rights reserved.
dc.description.sponsorshipTUBITAK (The Scientific and Technological Research Council of Turkey) [1040558]; Canakkale Onsekiz Mart University [2009/99]
dc.description.sponsorshipThe authors thank TUBITAK (The Scientific and Technological Research Council of Turkey, Project no 1040558) and Canakkale Onsekiz Mart University (Project no 2009/99) for their financial support. The authors also thank Prof. Dr. Rod J. Scott (University of Bath, England), Dr. Bitty Roy (University of Oregon) and Prof. Dr. M. Eric Schranz (Wageningen University, Holland) for providing the seeds.
dc.identifier.doi10.1016/j.compbiolchem.2016.04.004
dc.identifier.endpage81
dc.identifier.issn1476-9271
dc.identifier.issn1476-928X
dc.identifier.pmid27107180
dc.identifier.scopus2-s2.0-84963979430
dc.identifier.scopusqualityQ1
dc.identifier.startpage75
dc.identifier.urihttps://doi.org/10.1016/j.compbiolchem.2016.04.004
dc.identifier.urihttps://hdl.handle.net/20.500.12428/26137
dc.identifier.volume62
dc.identifier.wosWOS:000378178400009
dc.identifier.wosqualityQ3
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.language.isoen
dc.publisherElsevier Sci Ltd
dc.relation.ispartofComputational Biology and Chemistry
dc.relation.publicationcategoryinfo:eu-repo/semantics/openAccess
dc.rightsinfo:eu-repo/semantics/closedAccess
dc.snmzKA_WoS_20250125
dc.subject2n gamete
dc.subjectApomeiosis
dc.subjectApomixis
dc.subjectDYAD
dc.subjectBoechera
dc.titleGenome-wide identification and expression analysis of SWI1 genes in Boechera species
dc.typeArticle

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