Browsing by Author "Yolcu, Seher"

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Citation - WoS: 4
Citation - Scopus: 4
Deciphering melatonin biosynthesis pathway in Chenopodium quinoa: genome-wide analysis and expression levels of the genes under salt and drought
(SPRINGER, 2025) Seher Yolcu; Ece Fidan; Muhammed Fatih Kaya; Emre Aksoy; Ismail Turkan; Kaya, Muhammed Fatih; Turkan, Ismail; Fidan, Ece; Aksoy, Emre; Yolcu, Seher
Main conclusionIn this study we identified a total of ten melatonin biosynthesis genes (3 TDCs 2 TSHs 3 SNATs and 2 ASMTs) in Chenopodium quinoa through bioinformatics methods and analyzed physiological traits and gene expression levels in drought- and salt-treated plants with or without melatonin. Gene expression levels showed variations depending on tissues genotypes and abiotic stress.AbstractMelatonin is involved in distinct biological processes such as growth development and stress response in plants. The tryptophan decarboxylase (TDC) tryptamine 5-hydroxylase (T5H) serotonin N-acetyltransferase (SNAT) and N-acetylserotonin O-methyltransferase (ASMT) enzymes are involved in melatonin biosynthesis. Exogenous melatonin reduces the adverse effects of salt stress in different plants but the roles of melatonin biosynthesis pathway in quinoa (Chenopodium quinoa) remain elusive. This study aims to identify and characterize the melatonin biosynthetic genes encoding TDCs T5Hs SNATs and ASMTs in C. quinoa genome through bioinformatics methods and determine their transcript abundances under salt and drought stress. In total ten genes were identified in C. quinoa genome including 3 TDCs 2 TSHs 3 SNATs and 2 ASMTs. TDCs have a pyridoxal-dependent decarboxylase domain T5Hs possess a cytochrome P450 SNAT proteins contain the Acetyltransf_1 domain and ASMTs include the O-methyltransferase domain. We also examined some physiological characteristics such as growth and water relations along with electrolyte leakage. For that purpose two quinoa genotypes (Salcedo and Ames 1377) were subjected to salt and drought stress with or without melatonin. Exogenous melatonin remarkably reduced the negative effects of salt and drought on shoot length RWC and electrolyte leakage in the sensitive Salcedo genotype. However it showed limited impact on the stress-tolerant Ames 1377 genotype. Expression patterns showed variations depending on tissues genotypes and the type of abiotic stress. Promoter analysis indicated that the cis-elements in TDC T5H and SNAT promoters were mostly associated with stress-response while those in ASMT promoters were related to light response.
Citation - WoS: 1
Citation - Scopus: 1
Phylogenetic analysis of the nrDNA ITS and cpDNA rbcL sequences of some endemic Dianthus (Caryophyllaceae) species from Türkiye
(SPRINGER, 2025) Emre Sevindik; Oezal Guner; Seher Yolcu; Isa Baskoese; Mehmet Yavuz Paksoy; Ali Khadivi; Yazgan Tunc; Mehmet Yaman; Yolcu, Seher; Guner, Oezal; Başköse, İsa; Paksoy, Mehmet Yavuz; Yaman, Mehmet; Baskoese, Isa; Khadivi, Ali; Sevindik, Emre
In this study the phylogenetic relationship of four species of Dianthus genus which are endemic and distributed in T & uuml,rkiye including D. zederbaueri Vierch D. varankii Hamzao & gbreve,lu & Ko & ccedil, D. halisdemirii Hamzao & gbreve,lu & Ko & ccedil, and D. goekayi Kaynak was determined using nuclear DNA (nrDNA) internal transcribed spacer (ITS) and chloroplast DNA (cpDNA) rbcL regions. After sampling from the plant DNA was extracted and the ITS (ITS4-ITS5A) and rbcL (rbcLaF-rbcLaR) primers were used to perform PCR amplification. Sequencer 5.4.6. was used to edit the sequences. MEGA 11 software was used to determine the nucleotide ratios genetic distance matrix and pi = nucleotide diversity. Some species of Dianthus available in the National Center for Biotechnology Information (NCBI) were used to construct maximum likelihood (ML) phylogenetic trees. As a result based on the ITS analysis pi = nucleotide diversity was determined as: 0.001543 and the result of the rbcL analysis pi = nucleotide diversity was determined as: 0.000000. In the ITS results D. halisdemirii D. superbus and D. varankii appeared together while D. zederbaueri and D. aculeatus appeared together. The rbcL results showed that D. zederbaueri and D. varankii were closely related but the relationship between D. halisdemirii and D. goekayi could not be determined. Furthermore in the phylogenetic tree constructed by taking the ITS and rbcL sequences of Dianthus Gypsophila Silene Arenaria Saponaria Cerastium Stellaria Petrorhagia Minuartia Agrostemma and Polycarpon species from NCBI using ITS and rbcL sequences our endemic Dianthus species appeared in the same group with Petrorhagia Gypsophila and Saponaria species. To conclude our ITS and rbcL results were consistent in determining the phylogenetic relationships of our Dianthus species with other species.