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In this study, we analyzed the Arabidopsis thali-ana transcriptome to identify genes with differential expression (DEGs) in 14-day-old plantlets exposed to temperatures of 0°C, 4°C, and 10°C for 24 h, compared to the 22°C control group. We found 31 genes shared among three low temperatures, with 9 genes common to 0°C-4°C, 8 genes to 4°C-10°C, and 2 genes to 0°C-10°C among the top 50 cold-induced genes from each tempera-ture. Our data revealed that genes, such as galactinol synthase 3 (Gols3, At1g09350), CIR1 (At5g37260), DnaJ (At1g71000), and At5g05220 (unknown function), exhibited the highest ex-pressions at 0°C and 4°C during the 24, 48, and 72-h intervals. We also studied genes from the UDP-glycosyltransferase (UGT78) family, including At5g17030 (D3), At5g17040 (D4), At5g17050 (D2), and At1g30530 (D1), which showed increased expression at low temperatures compared to plantlets at 22°C for 24 h. Gene ontology analysis revealed that DEGs highly en-riched were found in biological processes including “RNA secondary structure unwinding” and “rRNA processing” induced at the three low temperatures, whereas processes related to photo-synthesis were repressed. Our findings indicated upregulation in the expression of four RNA hel-icases (RH13, RH48, RH32, and RH29), belonging to the “RNA secondary structure unwinding” category, mainly at 0°C and 4°C. This study provides valuable information on the molecular mechanisms that activate Arabidopsis thaliana in its early response to these three low tempera-tures. Overall design: After growing for two weeks, 14-day-old plantlets were subjected to low temperatures of 0ºC, 4ºC, and 10ºC for 24h, 48h, and 72h, respectively. Control plants were maintained in a growth chamber at 22ºC. After the cold treatments, the plants were harvested, rapidly frozen in liquid nitrogen, and stored at -80°C for further analysis. Each temperature condition had three biological replicates (n=3), with each replicate comprising groups of 10 plantlets per Petri plate."],"repository":["ENA"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptome analysis reveals genes responsive to three low-temperature treatments in Arabidopsis thaliana","description":"Transcriptome analysis reveals genes responsive to three low-temperature treatments in Arabidopsis thaliana","dates":{"last_updated":"2025-09-24","first_public":"2024-10-29"},"accession":"PRJNA1168970","cross_references":{"GEO":["GSE278815"],"taxon":["3702"]}}