title: Genome wide identification of microRNAs involved in fatty acid and lipid metabolism of Brassica napus by small RNA and degradome sequencing.
abstract: Rapeseed (Brassica napus) is an important cash crop considered as the third largest oil crop worldwide. Rapeseed oil contains various saturation or unsaturation fatty acids, these fatty acids, whose could incorporation with TAG form into lipids stored in seeds play various roles in the metabolic activity. The different fatty acids in B. napus seeds determine oil quality, define if the oil is edible or must be used as industrial material. miRNAs are kind of non-coding sRNAs that could regulate gene expressions through post-transcriptional modification to their target transcripts playing important roles in plant metabolic activities. We employed high-throughput sequencing to identify the miRNAs and their target transcripts involved in fatty acids and lipids metabolism in different development of B. napus seeds. As a result, we identified 826 miRNA sequences, including 523 conserved and 303 newly miRNAs. From the degradome sequencing, we found 589 mRNA could be targeted by 236 miRNAs, it includes 49 novel miRNAs and 187 conserved miRNAs. The miRNA-target couple suggests that bna-5p-163957_18, bna-5p-396192_7, miR9563a-p3, miR9563b-p5, miR838-p3, miR156e-p3, miR159c and miR1134 could target PDP, LACS9, MFPA, ADSL1, ACO32, C0401, GDL73, PlCD6, OLEO3 and WSD1. These target transcripts are involving in acetyl-CoA generate and carbon chain desaturase, regulating the levels of very long chain fatty acids, β-oxidation and lipids transport and metabolism process. At the same, we employed the q-PCR to valid the expression of miRNAs and their target transcripts that involve in fatty acid and lipid metabolism, the result suggested that the miRNA and their transcript expression are negative correlation, which in accord with the expression of miRNA and its target transcript. The study findings suggest that the identified miRNA may play important role in the fatty acids and lipids metabolism in seeds of B. napus.
authors.affiliation: Gansu Agricultural University Agronomy College, Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu, Lanzhou 730070, China; Henan Institute of Science and Technology, Henan Province Collaborative Innovation Center of Modern Biological Breeding, Henan, Xinxiang 453003, China.
authors.forename: Zhiwei
authors.initials: Z
authors.lastname: Wang
authors.affiliation: Gansu Agricultural University Agronomy College, Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu, Lanzhou 730070, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Qiao
authors.affiliation: Gansu Agricultural University Agronomy College, Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu, Lanzhou 730070, China.
authors.forename: Jingjing
authors.initials: J
authors.lastname: Zhang
authors.affiliation: Gansu Agricultural University Agronomy College, Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu, Lanzhou 730070, China.
authors.forename: Wenhui
authors.initials: W
authors.lastname: Shi
authors.affiliation: Gansu Agricultural University Agronomy College, Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu, Lanzhou 730070, China. Electronic address: wangzhiwei519@126.com.
authors.forename: Jinwen
authors.initials: J
authors.lastname: Zhang
mesh_terms: D029688:Brassica napus / Q000235:genetics* / Q000378:metabolism; D005227:Fatty Acids / Q000235:genetics / Q000378:metabolism*; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant; D035683:MicroRNAs / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism
chemical_list: D005227:Fatty Acids; D035683:MicroRNAs; D010940:Plant Proteins
keywords: Brassica napus; Degradome; Fatty acid; High-throughput sequencing; Transcript; miRNA