title: Transcriptome analysis of neo-tetraploid rice reveals specific differential gene expressions associated with fertility and heterosis.
abstract: Polyploid rice hybrids have a powerful biological and yield potential that may become a new way for rice breeding; however, low fertility is major hindrance in commercial utilization. Here, we developed a neo-tetraploid rice that could overcome the sterility of autotetraploid rice and produce high heterosis. Transcriptome analysis of F1hybrid developed by crossing neo-tetraploid with autotetraploid rice displayed 807, 663 and 866 differentially expressed genes that uniquely associated with F1and specific to (DEGFu-sp) anther, ovary and leaf, respectively. Of the DEGFu-sp, 1224 genes displayed nonadditive expression; 44 and 10 genes were annotated as TFs and methyltransferase or hydroxymethyltransferase, respectively. Gene ontology enrichment and co-expression analysis revealed specific differential gene expressions in the DEGFu-sp to leaf, anther and ovary, such as genes related to photosynthesis, metabolic process and transport, and co-expression network including fertility, resistance and epigenetic elements. Of the DEGFu-sp to anther, 42 meiosis stage-specific genes, eight meiosis-related genes, such as RAD51 and SMC2, were identified. We identified 38 miRNAs from DEGFu-sp to anther, and their targets were associated with pollen fertility and retrotransposon protein. Our study provides new germplasm for polyploid rice breeding, and revealed complex regulatory mechanisms that might be associated with heterosis and fertility.
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Haibin
authors.initials: H
authors.lastname: Guo
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Jean Nestor
authors.initials: JN
authors.lastname: Mendrikahy
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Lei
authors.initials: L
authors.lastname: Xie
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Junfeng
authors.initials: J
authors.lastname: Deng
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Zijun
authors.initials: Z
authors.lastname: Lu
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Jinwen
authors.initials: J
authors.lastname: Wu
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Xiang
authors.initials: X
authors.lastname: Li
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Muhammad Qasim
authors.initials: MQ
authors.lastname: Shahid
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510642, China.
authors.forename: Xiangdong
authors.initials: X
authors.lastname: Liu
mesh_terms: D002678:Chimera; D005298:Fertility; D020869:Gene Expression Profiling; D006823:Hybrid Vigor; D012275:Oryza / Q000235:genetics*; D000069600:Plant Breeding / Q000379:methods; D057891:Tetraploidy