SMRT-seq for m6A methylation analysis dataset for Pseudomonas aeruginosa PAO1 37°C vs. 43°C

The data in this item includes Single-molecule real-time sequencing (SMRT-seq) data generated using PacBio Sequel I for high-resolution analysis of m6A methylation from post-43°C grown bacteria and during the recovery period.Sample preparation: Overall, 15 samples included 3 replicates of Pseudomonas aeruginosa after exposure to 37 °C (control) or 43 °C at 4 time points (T = 0 generations, T = 5 generations, T = 22 generations, and T = 54 generations). Samples from the T=0 groups are simply labeled “37” or “43”.Analysis: Pac Bio subreads were mapped to the reference genome Pseudomonas aeruginosa PAO1 GCA000006765, ASM676v1, for each sample separately, using the pbmm2 tool from the smrttools 10 toolkit (Pac Bio). m6A modifications were then inferred with the ipdSummary tools. The control model was used in two separate runs. In the first run samples from the group 43 were used as reference. In the second run, samples from the group 37 were used as reference. Sites with ipd-ratio with p-value < 0.05 were considered to have a new modification in the sample, compared with the reference. Each sample was tested with the reference of the same line, e.g. 1_43_5g was tested against 1_43 or 1_37. 2_43_22g was tested against 2_43 or 2_37, and so on.

本数据集包含使用 PacBio Sequel I 生成的单分子实时测序（SMRT-seq）数据，旨在对经 43°C 培育后以及恢复期的大肠杆菌中的 m6A 甲基化进行高分辨率分析。样本制备方面，总计15个样本，包括对铜绿假单胞菌在37°C（对照组）或43°C下暴露后的3个重复样本，分别在4个时间点（T = 0代，T = 5代，T = 22代和T = 54代）进行采集。T=0组的样本仅标记为“37”或“43”。分析过程中，利用 PacBio 的 smrttools 10 工具包中的 pbmm2 工具，将 Pac Bio 子读段分别映射到参考基因组 Pseudomonas aeruginosa PAO1 GCA000006765，ASM676v1。随后，运用 ipdSummary 工具推断 m6A 修饰。在两次独立运行中使用了对照组模型。第一次运行中，以43°C组样本作为参考；第二次运行中，以37°C组样本作为参考。当 ipd-ratio 的 p 值小于0.05时，认为样本中存在新的修饰与参考相比。每个样本均与同线参考进行测试，例如，1_43_5g与1_43或1_37进行比较，2_43_22g与2_43或2_37进行比较，依此类推。