Bioinformatics Analysis of the LSD Gene Family of J aponica Rice
[Objective]The structure and function of the LSD gene family in japonica rice were explored to lay a foundation for studying the effects of LSD gene family on the growth and development of japonica rice.[Method]The bioinformatics method was used to analyze the members of the LSD gene family in japonica rice,the physicochemical properties of proteins,chromosome positions,phylogenetic relationships,conserved motifs and structural domains.[Result]Six LSD genes were identified from the japonica rice and were named as OsLSD1—OsLSD6.The number of amino acids in OsLSD protein ranged from 131 to 1463,with molecular weights ranging from 13 723.41 to 151 718.18 Da,and most of them were alkaline proteins.Six gene family members were distributed on 5 out of 12 chromosomes in japonica rice,as OsLSD1,OsLSD2,OsLSD3,OsLSD4/OsLSD5 and OsLSD6 was respectively distributed on chr1,chr3,chr7,chr8 and chr12.According to phylogenetic analysis,the LSD gene family in japonica rice could be divided into three subfamilies,among which OsLSD2,OsLSD4 and OsLSD6 belonged to the same subfamily,and OsLSD5 belonged to the same branch of the same subfamily.OsLSD1 and OsLSD3 belonged to the same subfamily,and from were both from the same subfamily with AtLSD1,AtLSD2,AtLSD3 and AtLSD12.The LSD gene structure and arrangement order within the same subfamily were similar.Motif analysis revealed that the 6 LSD genes in japonica rice contained 10 conserved motifs,among which Motif 1 was a common conserved motif,suggesting its association with conserved domains.This gene was mainly expressed in the tender leaves,inflorescences,and seeds of japonica rice.[Conclusion]It is inferred that LSD gene family plays an important regulation role in the growth and development process ofjaponicarice.
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