همایش ملی بیوانفورماتیک ایران

صفحه اصلی / 4th international edition and 13th Iranian Conference on Bioinformatics

Phylogenetic and In Silico Analysis of SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Gene Family in Crops

نویسندگان :

Amin Nasirpour¹ Abbasali Emamjomeh² Nasibe Chenarani³

1- Laboratory of Computational Biotechnology and Bioinformatics (CBB), Department of Bioinformatics, Faculty of Basic Sciences, University of Zabol, Zabol, Iran 2- Department of Plant Breeding and Biotechnology (PBB), Faculty of Agriculture, University of Zabol, Zabol, Iran 3- Post-doctoral researcher، Agricultural Biotechnology Research Institute of IRAN (ABRII), Karaj

کلمات کلیدی :

Phylogenetic Analysis،In Silico Characterization،Transcription Factors،Computational Pipeline

چکیده :

The SQUAMOSA-PROMOTER BINDING PROTEIN-LIKE (SPL) genes represent a crucial transcription factor family in plants. We have developed a systematic bioinformatics pipeline for identification and characterization of SPL gene family in crop plants, using safflower (Carthamus tinctorius L.) as a case study. Our computational workflow combined sequence similarity searches and domain prediction algorithms to identify 44 SBP domain-containing sequences. In silico characterization using machine learning-based approaches revealed diverse protein architectures with sequences ranging from 60 to 7994 amino acids. Motif analysis using MEME identified conserved patterns ranging from 6 to 49 amino acids, while subcellular localization predictions demonstrated nuclear targeting for 60.7% of proteins. Evolutionary relationships were investigated through Maximum Likelihood phylogenetic reconstruction, revealing distinct patterns when compared with model plants like Arabidopsis and rice. Gene Ontology analysis highlighted significant overrepresentation of DNA binding (57.1%) and glycosyltransferase activity (35.7%). This integrative computational framework demonstrates the power of bioinformatics in understanding gene family evolution and can be applied to various crops.

لیست مقالات

لیست مقالات بایگانی شده

Development of Novel Cellulose Crystal-Hyaluronic Acid Anti-Cancer Carriers for Targeting

Yeganeh Abbasian Bajgiran - Maryam Azimzadeh Irani

Diabetes nephropathy indicators for early diagnosis

Sedigheh Momenzadeh - Masumeh Jalalvand - Reza Nedaeinia

Accelerating Diffusion-Based Graph Generative Models for De Novo Drug Design via Hessian Trace Approximation

Negin Bagherpour - AmirHossein Heidari - Alireza Fotouhi Siahpirani

Site-Directed Mutagenesis to Optimize Anti- TIM-3 Antibody Affinity through In-Silico Modeling

Zahra Sohrabi nasr - Mehri Khatami - Mohammad mahdi Heidari

Predicting Anticancer Drug Repurposing Candidates using Knowledge Graphs

Marzieh Khodadadi AghGhaleh - Rooholah Abedian - Reza Zarghami - Sajjad Gharaghani

Identification of key genes associated with glioblastoma multiforme using microarray data

Motahareh Shanyan - Sohrab Boozarpour - Zahra Pezeshkian - Hossain Sabori - Mahmoud Salehi

Distribution and Allelic Diversity of Outer Membrane Proteins in Helicobacter pylori: Implications for Vaccine Development and Therapeutic Approach

Mohammadreza Najafi Disfani - Mahyar Abdi - Sarvin Rezvani Bafroyeh - SeyedehRomina Lavasani - Parastoo Saniee

New inhibitors of the Toxoplasmosis by in-silico drug repurposing

Milad Jaberi - Masoud Aliyar - Mosleh Kadkhodamohammadi - Parva Karimimousivandi

Innovative Multi-Epitope Vaccine for Breast Cancer Management: Utilizing MAGE-A, MAM-A, and Gal-3 through an In Silico Reverse Vaccinology Approach

Faranak Aali - Abbas Doosti - Mostafa Shakhsi-Niaei

Investigating hsa-miR-146b and Its Targets TRAF6 and IRAK1 In Gastric Cancer Using Bioinformatic Tools

Ali Nosrat - Vahid Asghariazar - Elham Safarzadeh

بیشتر