Cotton Science

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Screening of highly efficient sgRNA for gene editing marker genes GhOMT1 and GhPGF in cotton

Guo Haomeng, Dai Peihong, Zhang Jin’en, Zhang Guoshuai, Lei Jianfeng, Liu Xiaodong

Cotton Science, 2025, 37(2): 153-164. DOI: 10.11963/cs20250005

Fig. 3 Sequence alignment analysis of the 3 potential off-target sites for GhOMT1-sgRNA2 PAM: protospacer adjacent motif. Off-score: off-target effect score. Consensus: consistent base sequence.

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Fig. 1 Sequencing chromatogram of target sites of GhOMT1 and GhPGF A: Comparison of sequencing chromatogram of target sites of GhOMT1-sgRNA2 in wild type (WT) and Cas9-OE plants transformed with CLCrV-AtU6-26::GhOMT1-sgRNA viral vectors. B: Comparison of sequencing chromatogram of target sites of GhPGF-sgRNA in wild type (WT) and Cas9-OE plants transformed with CLCrV-AtU6-26::GhPGF-sgRNA viral vectors.
Table 1 Analysis of mutation patterns in plants with high editing efficiency of GhOMT1
Table 2 Analysis of mutation patterns in plants with high and low editing efficiency of GhPGF
Table 3 Relationship between viral accumulation and gene editing efficiency
Fig. 2 Analysis of the predicted secondary structures of GhOMT1-sgRNAs and GhPGF-sgRNA A-H: Secondary structures of GhOMT1-sgRNA1 to GhOMT1-sgRNA8. I: Secondary structure of GhPGF-sgRNA. RAR: retinoic acid receptors.
Table 4 Detection and analysis of the potential off-target sites for GhOMT1-sgRNA2

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