Fasulye bitkisinde phospholipase D gen ailesinin tuz ve kuraklık stresi altında genom çaplı karakterizasyonu

Yıl 2022, Sayı: 34, 585 - 593, 31.03.2022

Murat Isıyel Burak Muhammed Öner Esra Yaprak Sümeyra Uçar Ayşe Gül Kasapoğlu Ahmed Sidar Aygören Selman Muslu Recep Aydınyurt Emre İlhan Murat Aydın

https://doi.org/10.31590/ejosat.1083532

Öz

Fosfolipaz, bitkilerde fosfolipidlerin metabolizmasından ve sentezinden sorumlu bir enzim sınıfıdır. Bitkilerdeki en önemli fosfolipaz türü, fosfolipitleri hidrolize edebilen PLD (Phospholipase D)’dir. PLD birçok bitki türünde biyotik ve abiyotik stres koşulları altında çalışılmıştır. Ancak yapılan literatür taramalarında P. vulgaris genomunda herhangi bir genom çaplı karakterizasyon yapılmadığı görülmüştür. Yapılan analizler sonucunda P. vulgaris, G.max ve A. thaliana türlerine ait sırasıyla 17, 27 ve 12 adet aday PLD geni tespit edilmiştir. Yapılan bu çalışmada tanımlanan 17 PvPLD geni fasulyenin 2, 5, 7, 8, 9 ve 10 numaralı kromozomları üzerinde dağıldığı tespit edilmiştir. Belirlenen kromozomlar üzerinde en düşük bir, en yüksek 5 PvPLD geni olduğu bulunmuştur. PvPLD genlerine ait teorik izoelektrik noktaları (pI) 5,3-8,21 değerleri arasında değişmekte olduğu ve on yedi PvPLD geninin 14’ü asidik özellik ve 3 tanesi de bazik özellik göstermektedir. Moleküler ağırlıklar analiz edildiğinde ortaya çıkan en düşük ağırlık (17,5 kDa) PvPLD-15’te iken en yüksek (127,8 kDa) ağırlık PvPLD-12’de olduğu belirlenmiştir. PvPLD genlerinin muhtemel 5 farklı domaine ayrıldığı görülmüştür. Yapılan filogenetik analizler sonucunda P. vulgaris, G.max ve A. thaliana türlerine ait karşılaştırmada PLD gen ailesi üyelerinin 6 farklı gruba ayrıldığı tespit edildi. PvPLD genleri arasında yapılan tandem ve segmental duplikasyon analizleri sonucunda 5 adet segmental ve 3 adet tandem duplikasyon belirlenmiştir. Tuz ve kuraklık altındaki ifade seviyeleri incelendiğinde 4 farklı PvPLD geninde kontrole göre belirgin farklılıklar görülmüştür. Bu çalışmada yapılan in siliko analizler fasulyede PLD genlerinin işlevi hakkında önemli bilgiler sunulmakta ve yapılması planlanan çalışmalar için temel niteliği taşımaktadır.

Anahtar Kelimeler

PLD, Fosfolipaz, Biyoinformatik, Fasulye, Stres

Genome-wide characterization of the phospholipase D gene family under salt and drought stress in the bean plant.

Öz

Phospholipase is a group of enzymes in plants that are involved in the metabolism and production of phospholipids. Phospholipase D (PLD) is the most significant form of phospholipase in plants, as it can hydrolyze phospholipids. Many plant species have been studied for PLD under biotic and abiotic stress conditions. However, no genome-wide characterisation of the P. vulgaris genome was found in the literature reviews. The research found 17, 27, and 12 potential PLD genes in the P. vulgaris, G.max, and A. thaliana species, respectively. The 17 PvPLD genes identified in this study are distributed on chromosomes 2, 5, 7, 8, 9, and 10 of beans. On the determined chromosomes, one lowest and five highest PvPLD genes were discovered. PvPLD genes have theoretical isoelectric points (pI) ranging from 5.3 to 8.21, with 14 of the seventeen PvPLD genes having acidic values and three having basic values. The lowest molecular weight (17.5 kDa) was identified in PvPLD-15, while the highest (127.8 kDa) was recorded in PvPLD-12. PvPLD genes were found to be grouped into five potential domains. In the study of P. vulgaris, G.max, and A. thaliana species, phylogenetic analysis revealed that the PLD gene family members were separated into six distinct groups. Five segmental and three tandem duplications were discovered as a result of tandem and segmental duplication analyses between PvPLD genes. Significant changes in expression levels under salt and drought were found in four separate PvPLD genes when compared to the control. The in-silico analyses used in this study provide crucial information regarding the function of PLD genes in beans, which will be useful in future research.

Anahtar Kelimeler

PLD, Phospholipase, Bioinformatics, Beans, Stress

Kaynakça

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