Bioinformatics of Glutathione Reductase Gene of Platy Fish, Xiphophorus maculatus Günther, 1866

Abstract

In this study, the genomic organization of glutathione reductase (gsr) gene was determined in platyfish, Xiphophorus maculatus which is an important model organism. For this purpose, we studied bioinformatics of glutathione reductase gene (gsr) (gene structure andidentification of gene, detecting of amino acid sequences encoded by other vertebrates, conserved gene synteny and phylogenetic relationships with other vertebrates) in platyfish, X. maculatus. However, bioinformatic studies of the gsr enzyme gene have not been performed in platyfish which is an important model organism. For all these purposes, in this study, the statistics obtained by using Ensembl genomic database, NCBI database, BioEdit software and MEGA6 program are presented. Stress responses in fish can reveal multifaceted levels involving the effects of different gene groups and products. Understanding the genetic characteristics of a model organism that reacts to stress is crucial for molecular studies. For this purpose, the characterization and identification of gsr, one of the antioxidant enzyme genes in platyfish, X. macullastus which is an important model organism, was made using bioinformatics tools and some data to be used in the future studies on the molecular stress response were presented to the scientific world. 

Keywords

• Platyfish
• Genomic organisation
• gsr
• Model organism

Plati Balığı, Xiphophorus maculatus Günther, 1866’nda Glutatyon Redüktaz Geninin Biyoenformatiği

Öz

Bu çalışmada, plati balığı, Xiphophorus maculatus’ta antioksidan enzim genlerinden, glutatyon redüktaz (gsr)’ın genomik organizasyonu belirlenmiştir. Bu amaçla genin tanımlanması yapılmış, ekzon- intron organizasyonu, TATA kutusu, poli A kuyruğu ve genin üretmiş olduğu amino asitler belirlenerek gen yapısı bir tablo şeklinde sunulmuş, gsr gen kromozom bölgeleri tespit edilmiştir.Ayrıca bu bölgede bulunan genlerin, diğer bazı model organizmalarda ve insanda bulunduğu gen bölgeleri belirlenerek korunmuş gen sentezi oluşturulmuş, diğer omurgalılar tarafından kodlanan amino asit dizileri belirlenmiş ve bu organizmalarla olan filogenetik ilişkitespit edilerek, gen yapılarının benzerlik-özdeşlik oranlarının % olarak değeri belirlenmiştir. Çalışmada NCBI veritabanı, Ensembl genomik veritabanı, MEGA 6 programı ve BioEdit yazılımı kullanılarak elde edilen istatistikler değerlendirilmiştir. Balıkların stress faktörlerine göstermiş oldukları tepkiler, farklı gen ürünlerinin etkilerini içeren çok yönlü seviyelerin ortaya çıkmasına neden olabilir. Dolayısıyla moleküler çalışmalarla ölçülebilecek bir balık stress tepkisive bu balığın genetik özelliklerinin araştırılması ve anlaşılması moleküler çalışmalar açısından büyük önem taşıdığı için, biyoenformatik araçlar kullanarak önemli bir model organizma olan plati balığı, X. maculatus’ta, gsr’nin karakterizasyonu ve tanımlanması yapılmış ve balıklarda moleküler stres tepkisi üzerine yapılacak olan çalışmalarda kullanılacak birtakım veriler bu çalışma ile bilim dünyasına sunulmuştur.

Anahtar Kelimeler

• Plati balığı
• Genomik organizasyon
• gsr
• Model organizma

Kaynakça

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