Genome-wide identification and expression analysis of sulfate transporter (SULTR) genes in potato (Solanum tuberosum L.)

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dc.contributor.authorVatansever, Recep
dc.contributor.authorKoç, İbrahim
dc.contributor.authorÖzyiğit, İbrahim İlker
dc.contributor.authorŞen, Uğur
dc.contributor.authorUras, Mehmet Emin
dc.contributor.authorAnjum, Naser A.
dc.contributor.authorFiliz, Ertuğrul
dc.date.accessioned2020-05-01T12:10:13Z
dc.date.available2020-05-01T12:10:13Z
dc.date.issued2016
dc.departmentDÜ, Çilimli Meslek Yüksekokulu, Bitkisel ve Hayvansal Üretim Bölümüen_US
dc.descriptionFiliz, Ertugrul/0000-0001-9636-6389; Anjum, Naser A./0000-0001-9953-0703; Ozyigit, Ibrahim Ilker/0000-0002-0825-5951; Pereira, Eduarda/0000-0002-6046-5243en_US
dc.descriptionWOS: 000386355600001en_US
dc.descriptionPubMed: 27473680en_US
dc.description.abstractSolanum tuberosum genome analysis revealed 12 StSULTR genes encoding 18 transcripts. Among genes annotated at group level ( StSULTR I-IV), group III members formed the largest SULTRs-cluster and were potentially involved in biotic/abiotic stress responses via various regulatory factors, and stress and signaling proteins. Employing bioinformatics tools, this study performed genome-wide identification and expression analysis of SULTR (StSULTR) genes in potato (Solanum tuberosum L.). Very strict homology search and subsequent domain verification with Hidden Markov Model revealed 12 StSULTR genes encoding 18 transcripts. StSULTR genes were mapped on seven S. tuberosum chromosomes. Annotation of StSULTR genes was also done as StSULTR I-IV at group level based mainly on the phylogenetic distribution with Arabidopsis SULTRs. Several tandem and segmental duplications were identified between StSULTR genes. Among these duplications, Ka/Ks ratios indicated neutral nature of mutations that might not be causing any selection. Two segmental and one-tandem duplications were calculated to occur around 147.69, 180.80 and 191.00 million years ago (MYA), approximately corresponding to the time of monocot/dicot divergence. Two other segmental duplications were found to occur around 61.23 and 67.83 MYA, which is very close to the origination of monocotyledons. Most cis-regulatory elements in StSULTRs were found associated with major hormones (such as abscisic acid and methyl jasmonate), and defense and stress responsiveness. The cis-element distribution in duplicated gene pairs indicated the contribution of duplication events in conferring the neofunctionalization/s in StSULTR genes. Notably, RNAseq data analyses unveiled expression profiles of StSULTR genes under different stress conditions. In particular, expression profiles of StSULTR III members suggested their involvement in plant stress responses. Additionally, gene co-expression networks of these group members included various regulatory factors, stress and signaling proteins, and housekeeping and some other proteins with unknown functions.en_US
dc.description.sponsorshipFCT (Government of Portugal)Portuguese Foundation for Science and Technology; Aveiro University Research Institute/CESAM [UID/AMB/50017/2013]; COMPETE [FCOMP-01-0124-FEDER-02800, FCT PTDC/AGR-PRO/4091/2012]en_US
dc.description.sponsorshipNAA (SFRH/BPD/84671/2012) and EP gratefully acknowledge the partial financial supports received from FCT (Government of Portugal) through contract, the Aveiro University Research Institute/CESAM (UID/AMB/50017/2013), and "COMPETE'' through Project No. FCOMP-01-0124-FEDER-02800 (FCT PTDC/AGR-PRO/4091/2012).en_US
dc.identifier.doi10.1007/s00425-016-2575-6en_US
dc.identifier.endpage1183en_US
dc.identifier.issn0032-0935
dc.identifier.issn1432-2048
dc.identifier.issue6en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage1167en_US
dc.identifier.urihttps://doi.org/10.1007/s00425-016-2575-6
dc.identifier.urihttps://hdl.handle.net/20.500.12684/6088
dc.identifier.volume244en_US
dc.identifier.wosWOS:000386355600001en_US
dc.identifier.wosqualityQ1en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakPubMeden_US
dc.indekslendigikaynakScopusen_US
dc.language.isoenen_US
dc.publisherSpringeren_US
dc.relation.ispartofPlantaen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectSolanaceaeen_US
dc.subjectIn silicoen_US
dc.subjectRNA-Seqen_US
dc.subjectStress factoren_US
dc.subjectPhytohormonesen_US
dc.subjectSolanum tuberosumen_US
dc.titleGenome-wide identification and expression analysis of sulfate transporter (SULTR) genes in potato (Solanum tuberosum L.)en_US
dc.typeArticleen_US

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