The Fine Mapping Of Gene Of The Panicle Exsertion Defect And Aberrant Spikelet (pds) And Weighted Gene Coexpression Network Analysis (WGCNA) Of The Related Hub Genes

Rice(Oryza sativa L.)is one of staple food crop worldwide.Its yield and quality are affected by its tillering pattern,inflorescence development and spikelet development.Although researchers have studied the formation of inflorescence and spikelet,characterized lots of genes,which involved in the vegetative and reproductive development of rice,yet the study of the molecular mechanism of axillary tillering,inflorescence development,spikelet development,and panicle exsertion remain incompletely understood.In this study,we characterized a rice recombinant inbred line(RIL),which named panicle defect and aberrant spikelet(pds).It comes from a population which derived from a cross between two indica varieties,S142 and 430,which have normal phenotypes.We use this RIL investigating the reason and molecular mechanism of panicle defect and aberrant spikelet.1.We fine-mapped pds1 to an approximately 55-kb interval delimited by the markers,pds-4 and 8m3.51.Six RGAP-annotated candidate genes were included in this genomic region.q PCR analysis revealed that LOC＿Os0805950 might be the target of pds1 locus,and G1 gene(LOC＿Os07g04670)might be involved in the genetic mechanism underlying the pds phenotype.2.By in situ hybridization experiments and electron microscopic observations of inflorescence meristems in previous work,we speculated that the abnormality of panicle exsertion occur in later stage of inflorescence development.3.To further explore the molecular mechanism of pds,we compared the transcriptional profile of rice inflorescence meristems of 430 and pds at three different at three different stages: SAM(shoot apical meristem),In5(formation of higher-order branches)and In6(differentiation of glumes).We have found 1731,728,1574,966,537 and 315 genes of the differentially expressed genes(DEGs).Further,we also explored the functional properties of DEGs by gene ontology(GO)analysis,and the results showed that DEGs genes were associated with inflorescence development,gibberellin,auxin,which have effect of panicle defect and aberrant spikelet.4.To further explore the molecular mechanism of pds,we use WGCNA compared the transcriptional profiles.Through the function enrichment analysis,we found that different related modules were closely related to the biological function of the pds phenotype.It is proved that the method has high reliability.We finally found four modules with 21 hub genes,which is highly related to the pds phenotype and inflorescence development process,including Rice FLAVIN-BINDING,KELCH REPEAT,F-BOX 1 Os FKF1(Os11g0547000)and TCP transcription factor Os TB1(Os03g0706500).These genes can be used as the key genes for the next research related to the phenotypes of panicle defect and aberrant spikelet.