Soybean DICER-LIKE2 Regulates Seed Coat Color via Production of Primary 22-Nucleotide Small Interfering RNAs from Long Inverted Repeats

文献类型： 外文期刊

第一作者： Jia, Jinbu

作者： Jia, Jinbu;Li, Zhuowen;Yu, Yiming;Long, Yanping;Feng, Li;Lu, Dongdong;Zhan, Junpeng;Zhai, Jixian;Jia, Jinbu;Li, Zhuowen;Yu, Yiming;Long, Yanping;Feng, Li;Lu, Dongdong;Zhan, Junpeng;Zhai, Jixian;Jia, Jinbu;Li, Zhuowen;Yu, Yiming;Long, Yanping;Feng, Li;Lu, Dongdong;Zhan, Junpeng;Zhai, Jixian;Ji, Ronghuan;Qin, Chao;Liu, Bin;Nakano, Mayumi;Zhan, Junpeng;Meyers, Blake C.;Xia, Rui;Meyers, Blake C.

作者机构：

期刊名称：PLANT CELL （ 影响因子：11.277； 五年影响因子：12.061 ）

ISSN： 1040-4651

年卷期： 2020 年 32 卷 12 期

页码：

收录情况： SCI

摘要： Soybean DCL2 favors long inverted repeat-derived double-stranded RNA as its substrate and generates primary 22-nucleotide siRNAs to regulate seed coat color and silence transposable elements. In plants, 22-nucleotide small RNAs trigger the production of secondary small interfering RNAs (siRNAs) and enhance silencing. DICER-LIKE2 (DCL2)-dependent 22-nucleotide siRNAs are rare in Arabidopsis (Arabidopsis thaliana) and are thought to function mainly during viral infection; by contrast, these siRNAs are abundant in many crops such as soybean (Glycine max) and maize (Zea mays). Here, we studied soybean 22-nucleotide siRNAs by applying CRISPR-Cas9 to simultaneously knock out the two copies of soybean DCL2, GmDCL2a and GmDCL2b, in the Tianlong1 cultivar. Small RNA sequencing revealed that most 22-nucleotide siRNAs are derived from long inverted repeats (LIRs) and disappeared in the Gmdcl2a/2b double mutant. De novo assembly of a Tianlong1 reference genome and transcriptome profiling identified an intronic LIR formed by the chalcone synthase (CHS) genes CHS1 and CHS3. This LIR is the source of primary 22-nucleotide siRNAs that target other CHS genes and trigger the production of secondary 21-nucleotide siRNAs. Disruption of this process in Gmdcl2a/2b mutants substantially increased CHS mRNA levels in the seed coat, thus changing the coat color from yellow to brown. Our results demonstrated that endogenous LIR-derived transcripts in soybean are predominantly processed by GmDCL2 into 22-nucleotide siRNAs and uncovered a role for DCL2 in regulating natural traits.

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