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Acta Agronomica Sinica ›› 2026, Vol. 52 ›› Issue (10): 2851-2863.doi: 10.3724/SP.J.1006.2026.65011

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Establishment and application of TRV-induced gene silencing system in Brassica napus

Liu Rui-Fan(), Liu Shu-Jie, Hou Dou-Dou, Yi Bin, Dai Cheng, Ma Chao-Zhi()   

  1. National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, Hubei, China
  • Received:2026-02-24 Accepted:2026-07-15 Online:2026-10-12 Published:2026-07-20
  • Contact: Ma Chao-Zhi, E-mail: yuanbeauty@mail.hzau.edu.cn
  • Supported by:
    National Natural Science Foundation of China(32472138)

Abstract:

Virus-induced gene silencing (VIGS), a post-transcriptional gene silencing technique, is widely used for the functional characterization of plant genes. To determine whether TRV-mediated VIGS can specifically target genes in Brassica napus and significantly downregulate their expression, thereby improving the efficiency of gene function studies, four genes, including BnaJMJ13 and BnaSNAP33, were selected as target genes in this study. A 300-500 bp core cDNA fragment of each gene was amplified and cloned into the TRV2 vector. Two-day-old germinated seeds of B. napus were then subjected to vacuum infiltration, and leaves and flower buds were collected for RT-qPCR analysis. The results showed that TRV-VIGS significantly reduced the transcript levels of the target genes in both tissues. Phenotypic analysis at the flowering stage showed that plants with downregulated BnaJMJ13 expression flowered significantly earlier, suggesting that BnaJMJ13 functions as a negative regulator of flowering time in B. napus. Semi-in vivo pollination assays revealed that BnaSNAP33 may affect seed setting in B. napus by modulating pollen adhesion and hydration. To further verify the efficiency of TRV-induced gene silencing, loss-of-function mutants of BnaSNAP33 were generated in this study. Semi-in vivo pollination assays further confirmed that BnaSNAP33 regulates seed setting by affecting pollen adhesion and hydration. These results demonstrate the applicability of this silencing system in B. napus. The TRV-VIGS system established in this study is easy to operate, highly efficient, and time-saving, and will facilitate functional genomics research in B. napus.

Key words: Brassica napus, Tobacco rattle virus, gene silence, BnaJMJ13, BnaSNAP33

Table 1

List of genes targeted for TRV-mediated silencing"

基因名称Gene name 基因号Gene ID
BnaJMJ13 BnaA02G0300900WE
BnaA09G0198400WE
BnaC02G0396300WE
BnaC07G0250500WE
BnaC09G0229300WE
BnaSNAP33 BnaA03G0417000WE
BnaC02G0506400WE
BnaC07G0373400WE
BnaVAMP722 BnaA03G0174900WE
BnaA04G0202300WE
BnaA05G0111300WE
BnaC03G0124200WE
BnaC04G0139500WE
BnaC04G0509100WE
BnaCDF3 BnaA06G0170600WE
BnaC03G0533800WE

Table 2

Primers used in this study"

引物名称
Primer name
引物序列
Primer sequence (5'-3')
TRV2-BnaJMJ13-F CTGTGAGTAAGGTTACCGAATTCTGTCCTGTCTACAGACCAACAA
TRV2-BnaJMJ13-R GTGAGCTCGGTACCGGATCCCACCTTTTCAAATTTTAGAGCTGCAG
TRV2-BnaSNAP33-F CTGTGAGTAAGGTTACCGAATTCGACTTCTAACTCCAGATACCAGTA
TRV2-BnaSNAP33-R GTGAGCTCGGTACCGGATCCGGGTTTAGTCCCAGTTTCTCCCT
TRV2-BnaCDF3-F CTGTGAGTAAGGTTACCGAATTCATCACCAGAGAAGGTAACTACAGA
TRV2-BnaCDF3-R GTGAGCTCGGTACCGGATCCCCCGGATCGAGCCTTGC
TRV2-BnaVamp722-F CTGTGAGTAAGGTTACCGAATTCGTGCCTCCAGAAGCTTCCG
TRV2-BnaVamp722-R GTGAGCTCGGTACCGGATCCTGTGTTCCTTGTGTCCTGAAATCTTGC
QPCR-BnaJMJ13-F TGTACAAGGCTGTACAGAAACCTG
QPCR-BnaJMJ13-R TCAATTCTTCATGAGGAAGCAATGG
QPCR-BnaSNAP33-F CCTGTCATTACTAGAGATCACTCACC
QPCR-BnaSNAP33-R CTCCACTCTCTGATACGCATCA
QPCR-BnaCDF3-F GATGGAAAGTAGAGATCCAGCTATTAAGC
QPCR-BnaCDF3-R GGAGTGGCTTGCTCTGTAGTT
QPCR-BnaVAMP722-F ATCCTCGTGGAGTTCACCG
QPCR-BnaVAMP722-R CAACTGCAACAACACAATAAGTGAA
Bnactin7-F CTATCCTCCGTCTCGATCTCGC
Bnactin7-R CTTAGCCGTCTCCAGCTCTTGC
CR-SNAP33-DT1-BsF ATATATGGTCTCGATTGGTCTGTTCAGGAGCTTTGAGTT
CR-SNAP33-DT1-F0 TGGTCTGTTCAGGAGCTTTGAGTTTTAGAGCTAGAAATAGC
CR-SNAP33-DT2-R0 AACCTGTACAAGGTTGTCTCAACAATCTCTTAGTCGACTCTAC
CR-SNAP33-DT2-BsR ATTATTGGTCTCGAAACCTGTACAAGGTTGTCTCAACAA

Table 3

sgRNA sequences"

sgRNA名称
sgRNA name
序列
Sequence (5'-3')
sgRNA1 CAGTCTGTTCAGGAGCTTGAGG
sgRNA2 GTACAAGGTTGTCTCAAGGTGG

Fig. 1

Workflow of TRV-mediated gene silencing in Brassica napus A: a 300-500 bp core sequence of the target gene was cloned into the TRV2 vector, the recombinant pTRV2 vector, empty pTRV2 vector, and pTRV1 vector were separately transformed into Agrobacterium tumefaciens GV3101, cultured in LB liquid medium containing rifampicin (Rif), gentamicin (GMS), and kanamycin (Kana), collected by centrifugation, and resuspended. The pTRV1 and pTRV2 bacterial suspensions were then mixed at a 1:1 (v/v). B: thirty to fifty B. napus seeds were sterilized with 75% ethanol for 1-2 min, rinsed three times with sterile water, treated with 5 mmol L-1 GA3 for 1-2 h to promote germination, rinsed three additional times, and incubated on moist filter paper in the dark for 48 h to induce germination. C: germinated seeds were immersed in freshly prepared Agrobacterium infiltration solution, vacuum-infiltrated at 15 psi for 10 min, placed on 1/2 MS solid medium and incubated in the dark for 24 h, rinsed, and then sown in greenhouse soil under a 16 h light/8 h dark photoperiod until maturity."

Fig. 2

Amino acid sequence alignment of JMJ13 from Arabidopsis thaliana and Brassica napus Multiple amino acid sequence alignment of AtJMJ13 and its homologs in Brassica napus. Sequences were aligned using the ClustalW algorithm and visualized with ESPript 3.0. In the aligned sequences, identical residues are highlighted with a black background, similar residues are shaded in gray, and gaps introduced to optimize the alignment are indicated by dashes."

Fig. 3

Amino acid sequence alignment of SNAP33, VAMP722, and CDF3 from Arabidopsis thaliana and their homologs in Brassica napus Multiple amino acid sequence alignment of AtSNAP33, AtVAMP722, AtCDF3, and their homologs in Brassica napus. Sequences were aligned using the ClustalW algorithm and visualized with ESPript 3.0. In the aligned sequences, identical residues are highlighted with a black background, similar residues are shaded in gray, and gaps introduced to optimize the alignment are indicated by dashes."

Fig. 4

Conserved domain architecture of JMJ13, SNAP33, VAMP722, and CDF3 from Arabidopsis thaliana and Brassica napus A-D: schematic diagrams of the conserved domains in JMJ13, SNAP33, VAMP722, and CDF3. The horizontal axis represents protein sequence length, and boxes of different colors represent different conserved domains."

Fig. 5

Detection of target gene expression in seedling leaves after TRV-mediated gene silencing A-D: relative expression levels of the four target genes in leaf tissues after TRV-mediated silencing, as determined by RT-qPCR. Ev: empty vector. Data were normalized using Actin as the internal reference gene and are presented as the mean ± standard deviation of three independent biological replicates. ns: no significant difference; *: P < 0.05; **: P < 0.01; ***: P < 0.001; ****: P < 0.0001."

Fig. 6

Detection of target gene expression in flower buds after TRV-mediated gene silencing A-B: relative expression levels of BnaJMJ13 and BnaSNAP33 in flower buds after TRV-mediated silencing, as determined by RT-qPCR. Ev: empty vector. Data were normalized using Actin as the internal reference gene and are presented as the mean ± standard deviation of three independent biological replicates. ns: no significant difference; **: P < 0.01; ***: P < 0.001; ****: P < 0.0001."

Fig. 7

TRV-mediated silencing of BnaJMJ13 promotes early flowering in Brassica napus Ev: plants transformed with empty vector; ****: P < 0.0001."

Fig. 8

Pollen adhesion and germination rates in TRV-mediated BnaSNAP33-silenced lines A-B: representative images showing pollen adhesion and germination after pollen from the control plants (Ev) and VIGS-Bnasnap33 lines was simultaneously pollinated onto stigmas of control plants (Ev). The upper panels show bright-field images, and the lower panels show fluorescence images. At least six stigmas were observed for each line. Ev: empty vector. Scale bar = 200 μm. C: quantification of pollen grains adhering to stigmas after self-pollination and cross-pollination. D: quantification of pollen grain germination on stigmas after self-pollination and cross-pollination. In all crosses, the female parent was the control plant (Ev, plants transformed with the empty vector), and the male parents were Ev and VIGS-BnaSNAP33 lines. **: P < 0.01; ***: P < 0.001."

Fig. 9

Editing results of bnasnap33 mutants A: gene structure of BnaSNAP33 and positions of the target sites. B: mutations at the target sites of BnaSNAP33 in T1 plants. Blue regions indicate mutations, and red regions indicate target sites. Ref: reference sequence; i: insertion mutation; d: deletion mutation."

Fig. 10

Pollen adhesion and germination rates in bnasnap33 mutants A-C: representative images showing pollen adhesion and germination after pollen from wild-type (WT) plants and bnasnap33 mutants was pollinated onto WT stigmas. The upper panels show bright-field images, and the lower panels show fluorescence images. At least 10 stigmas were observed for each line. Scale bar = 200 μm. D: quantification of pollen grains adhering to stigmas after self-pollination and cross-pollination. E: quantification of pollen grain germination on stigmas after self-pollination and cross-pollination. In all crosses, the female parent was WT, and the male parent was either WT or a bnasnap33 mutant. ****: P < 0.0001."

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