Genome-wide identification of F-box proteins in Macrophomina phaseolina and comparison with other fungus

Md Abu Sadat,Md Wali Ullah,Kazi Khayrul Bashar,Quazi Md Mosaddeque Hossen,Md Zablul Tareq,Md Shahidul Islam

doi:10.1186/s43141-021-00143-0

Md Abu Sadat, Md Wali Ullah + Show 4 more

Open Access

https://doi.org/10.1186/s43141-021-00143-0

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Abstract

BackgroundIn fungi, like other eukaryotes, protein turnover is an important cellular process for the controlling of various cellular functions. The ubiquitin-proteasome pathway degrades some selected intracellular proteins and F-box proteins are one of the important components controlling protein degradation. F-box proteins are well studied in different model plants however, their functions in the fungi are not clear yet. This study aimed to identify the genes involved in protein degradation for disease development in the Macrophomina phaseolina fungus. ResultsIn this research, in silico studies were done to understand the distribution of F-box proteins in pathogenic fungi including Macrophomina phaseolina fungus. Genome-wide analysis indicates that M. phaseolina fungus contained thirty-one F-box proteins throughout its chromosomes. In addition, there are 17, 37, 16, and 21 F-box proteins have been identified from Puccinia graminis, Colletotrichum graminicola, Ustilago maydis, and Phytophthora infestans, respectively. Analyses revealed that selective fungal genomes contain several additional functional domains along with F-box domain. Sequence alignment showed the substitution of amino acid in several F-box proteins; however, gene duplication was not found among these proteins. Phylogenetic analysis revealed that F-box proteins having similar functional domain was highly diverse form each other showing the possibility of various function. Analysis also found that MPH_00568 and MPH_05531 were closely related to rice blast fungus F-box protein MGG_00768 and MGG_13065, respectively, may play an important role for blast disease development. ConclusionThis genome-wide analysis of F-box proteins will be useful for characterization of candidate F-box proteins to understand the molecular mechanisms leading to disease development of M. phaseolina in the host plants.

Highlights

In fungi, like other eukaryotes, protein turnover is an important cellular process for the controlling of various cellular functions
Based on the importance of F-box protein in eukaryotes, we have systematically performed the bioinformatic analysis to identify the gene structure, sequence alignment, phylogenetic relationship, exon–intron structures, domain of Fbox protein in the stem rot fungus M. phaseolina. These results provide an essential understanding of F-box protein in M. phaseolina and constitute a strong foundation for further investigation in regulation of fungal virulence, which may lead to novel approaches in developing new antifungal agents
The genome-wide search found great variations of fungal F-box proteins along with plants where thirty one F-box domain-containing protein was found in jute stem rot fungus M. phaseolina genome (Table 1 and Table S1)

Summary

Introduction

Like other eukaryotes, protein turnover is an important cellular process for the controlling of various cellular functions. F-box proteins are well studied in different model plants their functions in the fungi are not clear yet. Protein turnover is the balance between protein synthesis and protein degradation. This process is an important regulator of functioning of the different cellular processes including cell cycle, metabolic control, physical development, and various signal transduction pathways [1, 2]. Protein turnover processes are the same in different cells, highly different in the aspect of turnover control and regulation [3]. Protein levels are an important regulator of eukaryotic cell development [9]. Protein synthesis is concluded either by biosynthesis or chemical synthesis procedure

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