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Home-Journal Online-2017 Suppl

Bioinformatics analysis of the lignin-related protein——PgCAD protein in pomegranate

Online:2020/3/25 9:39:30 Browsing times:
Author: WANG Wenran, ZHANG Wenying, GUAN Le, TANG Wei, FANG Jinggui, WANG Chen
Keywords: Pomegranate; Lignin; PgCAD protein; Bioinformatics analysis
DOI: 10.13925/j.cnki.gsxb.2017.S.12
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Abstract: ObjectiveStudy on the mechanism of Punica granatuma soft-seed by analyzing its lignin-related protein—PgCAD protein.MethodsIn this articleby utilizing the bioinformatics methodwe analyzed the phylogenetic of 18 CAD protein that is related to growth of Punica granatuma firstlyand thenpredicted and analyzed PgCAD proteinEgCAD protein and AtCAD protein amino acid compositionphysical and chemical characteristicsas well as secondary and teriary structuresmeanwhilewe still assayedtheir domains and motifs.ResultsThese 18 amino acid sequences could be clustered into three groupsthe closest relationship with Punica granatuma is Eucalyptus grandisand the furthest relationship with isArabidopsis thaliana. The research still found that the number of amino acid between these amino acid sequences presented some differencesmeanwhile both PgCAD protein and EgCAD protein are hydrophilicproteinAtCAD protein being opposite of them. In additionthe results of secondary structure predictedthat the main composition of PgCAD protein and EgCAD protein was α- helix and random curlbutAtCAD proteins is α-helixrandom curl and extended strand. FurthermoreThe tertiary structure ofPgCAD protein and EgCAD protein were quite similarwhich is totally differernt from AtCAD protein. FurtherPgCAD protein and EgCAD protein has the same domain-NADB domainwhich is differernt fromAtCAD proteins. The type and distribution of motifs discovered of PgCAD protein is similar to its proximal specieswhich AtCAD protein presented some differences from others.ConclusionThese resultsdemonstrate that the CAD protein is conserved in the structure of Punica granatuma and Eucalyptus grandisbut differs greatly from that of Arabidopsis thaliana. Interpret PgCAD protein regulation of lignin synthesis how to effect Punica granatuma soft-seed developmentto further understand the biological function of PgCAD protein in the process of Punica granatuma lignin synthesis and lay the foundation .