Sorgum [Sorghum bicolor (L.) Moench] Genomunda BES1 Transkripsiyon Faktör Ailesinin Genom Çaplı Analizi

KASAPOĞLU, Ayşe Gül; İlhan, Emre; Kizilkaya, D.; Türkoğlu, Aras; Haliloğlu, Kamil

doi:10.19159/tutad.671605

Cited by 9 publications

(1 citation statement)

References 47 publications

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“…Whole genome folding or polyploidy is a common phenomenon in nature. The duplicated genes due to polyploidy provide important raw genetic material for adaptive evolution (Kasapoglu et al, 2020). The Ka/Ks ratio of segmentally duplicated gene pairs (PvNPR1-PvNPR3) was calculated as 0.0478 (Table 2).…”

Section: Npr-like Gene Family Members Identification In the Genome Of...mentioning

confidence: 99%

Genome Wide Analysis and Characterization of NPR-likeGene Family of Phaseolus vulgaris L.

et al. 2022

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Nonexpressor of pathogenesis-related genes 1 (NPR1) could be found in the regulationof pathways of salicylic acid (SA) signal transduction and systemic acquired resistance (SAR) in plants. It has been found that the members of NPR-like gene family are interconnectingwith biotic and abiotic stresses in several plants, but it has not yet been performed in common bean. In this study, in silicoanalyzes of Phaseolus vulgaris L. NPR-likegene family members were performed at the genome level. As a result of these in silico analyzes, four NPR1genes were identified and it was found that these genes have been located on four different P. vulgarischromosomes. The length of PvNPR-like proteins ranges from 475-590 amino acid residues. The theoretical isoelectric point (pI) range were found between 5.75-6.36 and all show acidic properties. As a result of phylogenetic analyzes performed between NPR-like genes of P. vulgaris, Glycine max(L.) Merr and Arabidopsis thaliana(L.) Heynh. plants, NPR-likegenes were found to be divided into three different groups (A, B and C). It has been determined that PvNPR-likegenes contain cis-actingelements that function in many biological processes, including stress and hormone responses. Differences in gene expression levels under salt and drought stress indicated that PvNPR-likegenes respond differently under stress conditions. The outcomes of this studywill supply the needed basics for understanding the function and evolutionary history of PvNPR-like genes.

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Section: Npr-like Gene Family Members Identification In the Genome Of...mentioning

confidence: 99%

Genome Wide Analysis and Characterization of NPR-likeGene Family of Phaseolus vulgaris L.

et al. 2022

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Genome-wide characterization of the GPAT gene family in bean (Phaseolus vulgaris L.) and expression analysis under abiotic stress and melatonin

Kasapoğlu,

Muslu,

Aygören

et al. 2024

Genet Resour Crop Evol

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GPAT (sn-Glycerol-3-phosphate-1-O-acyltransferase) is a key enzyme in the biosynthesis of membrane lipids. Two kinds of GPATs are involved in the production of glycerolipids. While sn-1-GPATs are responsible for creating lysophosphatidic acid, sn-2-GPATs generate monoacylglycerol. GPAT genes of beans (Phaseolus vulgaris) have never been investigated before. This study aimed to assess the expression profiles of GPAT genes in common bean leaves under drought and salt stress and apply bioinformatics tools to the genome-wide analysis of GPAT gene family members. In the P. vulgaris genome, PvGPAT genes with molecular weights ranging from 50.2 to 60.4 kDa, amino acid counts ranging from 376 to 539, theoretical isoelectric points ranging from 8.41 to 9.46, and instability indices ranging from 31.84 to 51.38 were found. Based on the gene structure analysis, the expected number of exons and introns was between 2 and 12. The GPAT proteins from Arabidopsis thaliana, Glycine max, Vitis vinifera, Cicer arietinum, Lens culinaris, and P. vulgaris were analyzed phylogenetically. GPAT proteins of G. max and A. thaliana are evolutionarily related to those of beans. The PvGPAT4/PvGPAT10 and PvGPAT7/PvGPAT12 gene pairs were detected to be segmentally duplicated. In this work, qRT-PCR was performed on six PvGPAT genes, and the effects of salt, drought, and melatonin treatments on bean GPAT genes were studied. The role of melatonin in the response to salt and drought stress was investigated at the gene expression level. The findings of the present study will shed light on GPAT gene family members in beans and provide insight for future functional research.

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Identification and characterization of Phaseolus vulgaris CHS genes in response to salt and drought stress

Isıyel,

İlhan,

Kasapoğlu

et al. 2024

Genet Resour Crop Evol

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Common beans hold significant importance in sustainable agriculture and their critical role in human nutrition cannot be overstated. Factors such as climate change underscore the necessity for expanding genetic diversity and delineating the attributes of local bean cultivars. Among the various abiotic stressors, drought emerges as a formidable constraint limiting bean cultivation. While diverse set of strategies are employed to mitigate the impacts of drought stress, the ultimate and enduring solution lies in the development of drought-resistant bean cultivars, and it can be stated that the same situation is valid for salinity stress. Flavonoid biosynthesis is very important for plant growth and development and flavonoids are known to be involved in many pathways including stress response. This study aimed to comprehensively identify and characterize the CHS gene family within different bean cultivars exposed to drought and salt stress, utilizing genome-wide analysis, and assessing gene expression levels. Employing a spectrum of in silico methodologies, 14 CHS genes were identified in the common bean genome. These genes exhibited molecular weights ranging from 37.38 to 43.34 kDa and consisted of 341–393 amino acid residues. Remarkably, all Pvul-CHS genes shared a common structure comprising two exons. Phylogenetic analyses conducted across Phaseolus vulgaris, Arabidopsis thaliana, and Glycine max revealed that the Pvul-CHS gene family could be classified into three primary clusters. The expression profiles of Pvul-CHS genes unveiled their varied tissue-specific expressions and their pivotal roles in responding to diverse abiotic stresses. Furthermore, we conducted in silico assessments of the chromosomal positions of CHS gene family members in beans, their orthologous associations with related genomes, and cis-acting element analyses. The outcomes of this study hold the potential to significantly contribute to the breeding of beans endowed with enhanced resilience against salt and drought conditions.

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Sorgum [Sorghum bicolor (L.) Moench] Genomunda BES1 Transkripsiyon Faktör Ailesinin Genom Çaplı Analizi

Cited by 9 publications

References 47 publications

Genome Wide Analysis and Characterization of NPR-likeGene Family of Phaseolus vulgaris L.

Genome Wide Analysis and Characterization of NPR-likeGene Family of Phaseolus vulgaris L.

Genome-wide characterization of the GPAT gene family in bean (Phaseolus vulgaris L.) and expression analysis under abiotic stress and melatonin

Identification and characterization of Phaseolus vulgaris CHS genes in response to salt and drought stress

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