[Lv, Junheng; Kang, Linyu; Liu, Zhoubin; Zou, Xuexiao; Liu, Yuhua] Longping Branch, Graduate School of Hunan university, Changsha 410125, China;[Lv, Junheng; Dai, Xiongze; Yang, Bozhi; Zhou, Shudong; Kang, Linyu; Chen, Wenchao; Liu, Zhoubin; Li, Xuefeng; Ou, Lijun; Liu, Yuhua; Wei, Ge; Yang, Sha] Hunan Vegetable Research Institute, Changsha 410125, China;[Zhang, Zhuqing] Hunan Vegetable Research Institute, Changsha 410125, China. Electronic address: firstname.lastname@example.org;[Zhang, Yuping] College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China;[Ma, Yanqing] Hunan Vegetable Research Institute, Changsha 410125, China. Electronic address: email@example.com
[Ma, Yanqing; Zhang, Zhuqing] Hunan Vegetable Res Inst, Changsha 410125, Hunan, Peoples R China.;[Zou, Xuexiao] Hunan Univ, Grad Sch, Longping Branch, Hunan Vegetable Res Inst, Changsha 410125, Hunan, Peoples R China.
DAA;days after anthesis;RISC;RNA-induced silencing complex;KOG;Clusters of Orthologous Groups of proteins;KEGG;Kyoto Encyclopedia of Genes and Genomes;GO;Gene Ontology;AGO;Argonaute;Capsicum annuum;miRNA;Fruit development;Fruit quality;Deep sequencing
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. (C) 2017 Elsevier B.V. All rights reserved.
[Ma, Yanqing; Zou, Xuexiao] Hunan Vegetable Res Inst, Changsha 410125, Hunan, Peoples R China.;[Zou, Xuexiao] Hunan Univ, Grad Sch, Longping Branch, Changsha 410125, Hunan, Peoples R China.
Long non-coding RNAs (lncRNAs);Fruit development;Fruit quality;RNA-seq;Capsicum annuum L.
Long non-coding RNAs (lncRNAs) have been shown to play critical regulatory roles in diverse biological processes in plants. However, the presence of lncRNAs and their potential functions in hot pepper are still unknown. Using strand-specific RNA-sequencing, a total of 2505 putative lncRNAs were identified in the fruits of hot pepper. The lncRNAs were transcribed from all pepper chromosomes and 95.37% of them originated from intergenic regions. And 1066 lncRNAs were differentially expressed among the four samples during pepper fruit development. Many potential protein-coding (PC) genes targeted by lncRNAs with cis or trans-acting were also identified. Six of them and their target genes were further validated by quantitative RT-PCR. Some of these target genes were involved in plant hormone signal transduction, cell wall formation and carotenoid biosynthesis, indicating the roles of lncRNAs in the regulation of fruit development and quality. This study identified a large number of lncRNAs in hot pepper, thereby providing some insights into the fruit development of hot pepper.