The fructose1, 6bisphosphate aldolase (FBA) family plays an important role in plants stressresponse. A sikFBA1 gene was cloned based on the sequencing results of the Saussurea involucrata Kar. et Kir transcriptome with RTPCR method. The open reading frame (ORF) of the sikFBA1 gene is 1 077 bp which encoded a deduced protein including 358 amino acids residues. The protein sequence of sikFBA1 possesses the conserved Glycolytic domain, the typical family characteristic of FBA. Phylogenetic analysis exhibitied that sikFBA1 of S. involucrata Kar. et Kir showed the closest genetic relationship with that of Codonopsis lanceolata and they are all belonged to the FBA class I .When fused to green fluorescent protein (GFP) in the subcellular localization assay, we found that sikFBA1 protein was present in the cytoplasm, which was consistent with the predicted results. sikFBA1 is cytoplasmic isoenzyme. Quantitative realtime PCR (qRTPCR) was performed to determine the expression pattern in 4 ℃ and -2 ℃ during the low temperature treatment. The results showed that the expression level of sikFBA1 gene was generally downregulated after treatment. Interestingly, the sikFBA1 gene showed different expression patterns between the different stress conditions of cold and freeze, cold acclimation and unacclimation respectively. These results indicated that sikFBA1 had the potential function in S. involucrata Kar. et Kir response to low temperature stress.