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Open AccessArticle

Joint RNA-Seq and miRNA Profiling Analyses to Reveal Molecular Mechanisms in Regulating Thickness of Pod Canopy in Brassica napus

by 1,2, 1,2, 1,2, 1,2, 1,2,3,4, 1,2,3,4,5,* and 1,2,3,4,*
1
College of Agronomy and Biotechnology, Southwest University, Chongqing 400715, China
2
Academy of Agricultural Sciences, Southwest University, Chongqing 400715, China
3
Engineering Research Center of South Upland Agriculture, Ministry of Education, Chongqing 400715, China
4
State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Chongqing 400715, China
5
College of Life Sciences, Yangtze University, Jingzhou 434025, China
*
Authors to whom correspondence should be addressed.
Genes 2019, 10(8), 591; https://doi.org/10.3390/genes10080591
Received: 7 July 2019 / Accepted: 31 July 2019 / Published: 5 August 2019
(This article belongs to the Section Plant Genetics and Genomics)
Oilseed rape (Brassica napus) is the second largest oilseed crop worldwide. As an architecture component of B. napus, thickness of pod canopy (TPC) plays an important role in yield formation, especially under high-density cultivation conditions. However, the mechanisms underlying the regulation of TPC remain unclear. RNA and microRNA (miRNA) profiling of two groups of B. napus lines with significantly different TPC at the bolting with a tiny bud stage revealed differential expressions of numerous genes involved in nitrogen-related pathways. Expression of several nitrogen-related response genes, including ASP5, ASP2, ASN3, ATCYSC1, PAL2, APT2, CRTISO, and COX15, was dramatically changed in the thick TPC lines compared to those in the thin TPC lines. Differentially expressed miRNAs also included many involved in nitrogen-related pathways. Expression of most target genes was negatively associated with corresponding miRNAs, such as miR159, miR6029, and miR827. In addition, 12 (including miR319, miR845, and miR158) differentially expressed miRNAs between two plant tissues sampled (stem apex and flower bud) were identified, implying that they might have roles in determining overall plant architecture. These results suggest that nitrogen signaling may play a pivotal role in regulating TPC in B. napus. View Full-Text
Keywords: microRNA (miRNA); thickness of pod canopy; Brassica napus; nitrogen-related pathway microRNA (miRNA); thickness of pod canopy; Brassica napus; nitrogen-related pathway
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Chen, Z.; Huo, Q.; Yang, H.; Jian, H.; Qu, C.; Lu, K.; Li, J. Joint RNA-Seq and miRNA Profiling Analyses to Reveal Molecular Mechanisms in Regulating Thickness of Pod Canopy in Brassica napus. Genes 2019, 10, 591.

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