title: Transcriptome analysis of grain-filling caryopses reveals the potential formation mechanism of the rice sugary mutant.
abstract: A sugary mutant with low total starch and high sugar contents was compared with its wild type Sindongjin for grain-filling caryopses. In the present study, developing seeds of Sindongjin and sugary mutant from the 11th day after flowering (DAF) were subjected to RNA sequencing (RNA-Seq). A total of 30,385 and 32,243 genes were identified in Sindongjin and sugary mutant. Transcriptomic change analysis showed that 7713 differentially expressed genes (DEGs) (log₂ fold change ≥1, false discovery rate (FDR)≤0.001) were identified based on our RNA-Seq data, with 7239 genes up-regulated and 474 down-regulated in the sugary mutant. A large number of DEGs were found related to metabolic, biosynthesis of secondary metabolites, plant-pathogen interaction, plant hormone signal transduction and starch/sugar metabolism. Detailed pathway dissection and quantitative real time PCR (qRT-PCR) demonstrated that most genes involved in sucrose to starch synthesis are up-regulated, whereas the expression of the ADP-glucose pyrophosphorylase small subunit (OsAGPS2b) catalyzing the first committed step of starch biosynthesis was specifically inhibited during the grain-filling stage in sugary mutant. Further analysis suggested that the OsAGPS2b is a considerable candidate gene responsible for phenotype of sugary mutant.
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea.
authors.forename: Feng-peng
authors.initials: FP
authors.lastname: Li
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea.
authors.forename: Min-Young
authors.initials: MY
authors.lastname: Yoon
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea.
authors.forename: Gang
authors.initials: G
authors.lastname: Li
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea.
authors.forename: Won-Hee
authors.initials: WH
authors.lastname: Ra
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea.
authors.forename: Jae-Wan
authors.initials: JW
authors.lastname: Park
authors.affiliation: Advanced Radiation Technology Institute, Atomic Energy Research Institute, Jeongeup 580-185, Republic of Korea.
authors.forename: Soon-Jae
authors.initials: SJ
authors.lastname: Kwon
authors.affiliation: Department of Plant Bioscience, College of Natural Resources and Life Science, Pusan National University, Milyang 627-706, Republic of Korea.
authors.forename: Soon-Wook
authors.initials: SW
authors.lastname: Kwon
authors.affiliation: National Academy of Agricultural Science, Rural Development Administration, Suwon 441-107, Republic of Korea.
authors.forename: Il-Pyung
authors.initials: IP
authors.lastname: Ahn
authors.affiliation: Department of Plant Resources, College of Industrial Sciences, Kongju National University, Yesan 340-702, Republic of Korea. Electronic address: yjpark@kongju.ac.kr.
authors.forename: Yong-Jin
authors.initials: YJ
authors.lastname: Park
mesh_terms: D020869:Gene Expression Profiling / Q000379:methods; D018506:Gene Expression Regulation, Plant; D051599:Glucose-1-Phosphate Adenylyltransferase / Q000096:biosynthesis / Q000235:genetics; D009154:Mutation; D012275:Oryza / Q000235:genetics / Q000378:metabolism*; D010940:Plant Proteins / Q000096:biosynthesis / Q000235:genetics; D060888:Real-Time Polymerase Chain Reaction / Q000379:methods; D013213:Starch / Q000235:genetics / Q000378:metabolism; D013395:Sucrose / Q000378:metabolism; D059467:Transcriptome
chemical_list: D010940:Plant Proteins; D013395:Sucrose; D013213:Starch; D051599:Glucose-1-Phosphate Adenylyltransferase
keywords: ADP-glucose pyrophosphorylase; Rice; Starch-synthesis related genes; Transcriptome; sugary mutant