title: Identification and characterization of novel microRNAs for fruit development and quality in hot pepper (Capsicum annuum L.).
abstract: MicroRNAs (miRNAs) are non-coding small RNAs which play an important regulatory role in various biological processes. Previous studies have reported that miRNAs are involved in fruit development in model plants. However, the miRNAs related to fruit development and quality in hot pepper (Capsicum annuum L.) remains unknown. In this study, small RNA populations from different fruit ripening stages and different varieties were compared using next-generation sequencing technology. Totally, 59 known miRNAs and 310 novel miRNAs were identified from four libraries using miRDeep2 software. For these novel miRNAs, 656 targets were predicted and 402 of them were annotated. GO analysis and KEGG pathways suggested that some of the predicted miRNAs targeted genes involved in starch sucrose metabolism and amino sugar as well as nucleotide sugar metabolism. Quantitative RT-PCR validated the contrasting expression patterns between several miRNAs and their target genes. These results will provide an important foundation for future studies on the regulation of miRNAs involved in fruit development and quality.
authors.affiliation: Longping Branch, Graduate School of Hunan university, Changsha 410125, China; Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Zhoubin
authors.initials: Z
authors.lastname: Liu
authors.affiliation: College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China.
authors.forename: Yuping
authors.initials: Y
authors.lastname: Zhang
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Lijun
authors.initials: L
authors.lastname: Ou
authors.affiliation: Longping Branch, Graduate School of Hunan university, Changsha 410125, China; Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Linyu
authors.initials: L
authors.lastname: Kang
authors.affiliation: Longping Branch, Graduate School of Hunan university, Changsha 410125, China; Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Yuhua
authors.initials: Y
authors.lastname: Liu
authors.affiliation: Longping Branch, Graduate School of Hunan university, Changsha 410125, China; Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Junheng
authors.initials: J
authors.lastname: Lv
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Ge
authors.initials: G
authors.lastname: Wei
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Bozhi
authors.initials: B
authors.lastname: Yang
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Sha
authors.initials: S
authors.lastname: Yang
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Wenchao
authors.initials: W
authors.lastname: Chen
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Xiongze
authors.initials: X
authors.lastname: Dai
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Xuefeng
authors.initials: X
authors.lastname: Li
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China.
authors.forename: Shudong
authors.initials: S
authors.lastname: Zhou
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China. Electronic address: cszzq@126.com.
authors.forename: Zhuqing
authors.initials: Z
authors.lastname: Zhang
authors.affiliation: Hunan Vegetable Research Institute, Changsha 410125, China. Electronic address: yanqingmahn@163.com.
authors.forename: Yanqing
authors.initials: Y
authors.lastname: Ma
authors.affiliation: Longping Branch, Graduate School of Hunan university, Changsha 410125, China; Hunan Vegetable Research Institute, Changsha 410125, China. Electronic address: zouxuexiao428@163.com.
authors.forename: Xuexiao
authors.initials: X
authors.lastname: Zou
mesh_terms: D002212:Capsicum / Q000737:chemistry / Q000235:genetics* / Q000254:growth & development*; D003001:Cloning, Molecular; D005638:Fruit / Q000737:chemistry / Q000235:genetics* / Q000254:growth & development*; D020869:Gene Expression Profiling; D018507:Gene Expression Regulation, Developmental; D018506:Gene Expression Regulation, Plant; D059014:High-Throughput Nucleotide Sequencing; D035683:MicroRNAs / Q000032:analysis / Q000235:genetics*; D018749:RNA, Plant / Q000032:analysis / Q000235:genetics; D017423:Sequence Analysis, RNA; D059467:Transcriptome
chemical_list: D035683:MicroRNAs; D018749:RNA, Plant
keywords: Capsicum annuum; Deep sequencing; Fruit development; Fruit quality; miRNA