Genome-Wide Characterization and In-silico Transcriptional Expression Analysis of PEBP Family in Solanum lycopersicum L.

Yıl 2022, , 300 - 310, 31.12.2022

Ali Kıyak

https://doi.org/10.29048/makufebed.1110458

Öz

Phosphatidylethanolamine-binding proteins (PEBPs) are an important gene family with highly conserved protein sequences represented in three taxonomic divisions. In plants, PEBP genes are an important actors in the regulation of flowering time, plant architecture and seed dormancy. Despite this, PEBP genes have not been genome-wide identified and systematically analyzed in tomato. In this study, the PEBP gene family in tomato, one of the economically important Solanum species, was comprehensively identified genome-wide and characterized by bioinformatics tools. Here, 12 PEBP genes were identified, which were classified into four clades based on their phylogenetic relationships and the presence of the structurally conserved domain/motif. In addition, the gene structure, conserved protein structure, promoter regions, and digital expression levels of these PEBP genes were determined. Digital expression profiling of SlPEBP transcripts revealed their expression in most developmental and anatomical tissues. These results will provide the further functional and evolutionary characterization of PEBP genes in tomato.

Anahtar Kelimeler

Expression profiling, genome-wide, PEBP, phylogenetic analysis, tomato

Solanum lycopersicum L.'de PEBP Ailesinin Genom Çapında Karakterizasyonu ve In-silico Transkripsiyonel İfade Analizi

Öz

Fosfatidiletanolamin bağlayıcı proteinler (PEBP'ler), üç taksonomik bölümde temsil edilen yüksek oranda korunmuş protein dizilerine sahip önemli bir gen ailesidir. Bitkilerde PEBP genleri, çiçeklenme zamanı, bitki mimarisi ve tohum dormansisinin düzenlenmesinin önemli bir aktörüdür. Buna rağmen, PEBP genleri bugüne kadar domateste genom çapında tanımlanmamış ve sistematik olarak analiz edilmemiştir. Bu çalışmada, ekonomik açıdan önemli Solanum türlerinden domatesteki PEBP gen ailesi, genom çapında kapsamlı bir şekilde tanımlanmış ve biyoinformatik yöntemler ile karakterize edilmiştir. Bu çalışmada, filogenetik ilişkilerine ve yapısal olarak korunan domain/motif varlığına göre dört klad halinde sınıflandırılan 12 PEBP geni tanımlanmıştır. Ayrıca bu PEBP genlerinin gen yapısı, korunmuş protein yapısı, promotör bölgeleri ve dijital ekspresyon seviyeleri belirlenmiştir. SlPEBP transkriptlerinin dijital ekspresyon profili, çoğu gelişim aşamasında ve anatomik dokularda ekspresyonlarını ortaya çıkarmıştır. Bu sonuçlar, domateste PEBP genlerinin daha ileri fonksiyonel ve evrimsel karakterizasyonunun anlaşılmasını sağlayacaktır.

Anahtar Kelimeler

Ekspresyon profili, genom çapında tanımlama, PEBP, filogenetik analiz, domates

Kaynakça

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