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

Abstract

Background In 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. Results In 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. Conclusion This 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.

In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)

“…Besides, it was revealed that the rice HSFs gene is not intron-less, contrary to the general finding that roughly 20% of rice genes are intron-less [ 19 , 41 ]. Intron-less genes have been found in several rice transcription factors such as MADS box [ 42 ], C2H2 zinc finger [ 43 ], bZIP [ 44 ], SAUR [ 45 ] and F-box [ 46 ] gene families. Alternative splicing may occur and vary according to environmental stresses and at certain developmental stages.…”

The F-box protein encoding genes of the leaf-rust fungi Puccinia triticina: Genome-wide identification, characterization and expression dynamics during pathogenesis

“…One F-box gene was intronless. Fbox protein of Macrophomina phaseolina contained > 50% of the total genes to be intron-less that might have originated due to gene duplication or reverse transcription and integration (Kaessmann et al, 2009;Powell et al, 2008;Sadat et al, 2021). In Chickpea, the intron-exon structure of subfamilies had a strong structural relationship between the F-box proteins (Gupta et al, 2015).…”

Small RNA Analyses of a Ceratobasidium Isolate Infected with Three Endornaviruses

“…F-box proteins are found in quite a few pathogenic fungi. In the hemibiotrophic fungus Magnaporthe oryzae, the F-box protein is crucial for conidiogenesis, fungal growth and development, and for virulence [ 49 ]. Suppression of these proteins could result in suppression of the growth, development, and pathogenicity of the fungal host.…”