RNAseq dataset.xlsx

RNA was extracted from the rhizosphere samples using a PowerSoil® RNA extraction kit (Qiagen Iberia S.L., Madrid, Spain) following the manufacturer's instructions and its amount was quantified using a NanoDrop 2000 spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA). For the RNAseq experiment, the quantity and quality of RNA were verified by the Genomics and Ultrasequencing Service Unit (University of Malaga) and subsequently sequenced using NextSeq550 equipment (Illumina). The raw reads and their subsequent processing were carried out by the Centre for Supercomputing and Bioinnovation (University of Malaga). Once the expression profile was calculated, the differentially expressed genes (<em>P</em> values &lt; 0.05 and Log2 Fold Change &gt; 1 or &lt; −1) between the wild-type strain PcPCL1606 and Δ<em>darB</em> in interaction with the roots of avocado plants were obtained in order to identify possible genes regulated by HPR.

本研究采用PowerSoil® RNA提取试剂盒（PowerSoil® RNA extraction kit，凯杰伊比利亚有限公司（Qiagen Iberia S.L.），西班牙马德里），严格按照制造商说明书从根际样本中提取RNA，并使用NanoDrop 2000分光光度计（NanoDrop 2000 spectrophotometer，赛默飞世尔科技（Thermo Fisher Scientific），美国马萨诸塞州沃尔瑟姆）对RNA的含量进行定量检测。针对RNA测序（RNAseq）实验，马拉加大学基因组与超测序服务单元验证了RNA的浓度与质量，随后使用NextSeq550测序仪（NextSeq550 equipment，因美纳（Illumina））完成上机测序。原始测序读数及其后续生物信息学处理工作由马拉加大学超级计算与生物创新中心负责完成。在完成基因表达谱计算后，本研究获取了野生型菌株PcPCL1606与ΔdarB突变株在与鳄梨植株根系互作过程中的差异表达基因（P值<0.05且Log₂倍变化>1或<-1），以鉴定受HPR调控的潜在基因。