Despite countless papers on plant tissue culture, few have assessed the transcriptional changes that occur in a developing explant from the moment it is cut and plated, and during early stages of development. In this study, the mRNA profile of in vitro potato (Solanum tuberosum L.) plantlets derived from internode stems was assessed via four comparisons during five time intervals (0 h, 24 h, 48 h, 1 week, and 4 weeks) using the Kyoto Encyclopedia of Genes and Genomes (KEGG) classification. After screening KEGG metabolic groups, 35 processes were shown to be either up- or down-regulated. The vast majority (28 processes) were related to growth or development. The expression intensity of 40,430 genes was assessed and 158, 107, 163, and 142 sequences were either significantly up- or down-regulated at 0 h vs 24 h, 24 h vs 48 h, 48 h vs 1 week, and 1 week vs 4 weeks, respectively. A total of 10 DEGs coding for transcription factors were significantly down-regulated, including five ethylene-responsive transcription factors, and two probable WRKY transcription factors. RT-qPCR was used to validate RNA-seq data: Spearman and Pearson correlation coefficients between SeqMonk LFC and RT-qPCR LFC were 0.748 and 0.879, respectively. To the best of our knowledge, this is the first transcriptomic assessment of the changes taking place in the mRNA profile of a developing potato stem explant.

中文翻译：

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体外生长的马铃薯 (Solanum tuberosum L.) 的转录谱

尽管有无数关于植物组织培养的论文，但很少有人评估从切割和铺板那一刻起，以及在发育的早期阶段发生在发育中的外植体中的转录变化。在这项研究中，通过五个时间间隔（0 小时、24 小时、48 小时、1 周和 4 周）内的四次比较评估了源自节间茎的体外马铃薯 (Solanum tuberosum L.) 植株的 mRNA 谱。京都基因和基因组百科全书 (KEGG) 分类。筛选 KEGG 代谢组后，显示 35 个过程被上调或下调。绝大多数（28 个过程）与生长或发育有关。评估了 40,430 个基因的表达强度，158、107、163 和 142 个序列在 0 小时与 24 小时、24 小时与 48 小时、48 小时与 1 周时显着上调或下调，和 1 周 vs 4 周，分别。总共有 10 个编码转录因子的 DEGs 被显着下调，包括 5 个乙烯响应转录因子和两个可能的 WRKY 转录因子。RT-qPCR 用于验证 RNA-seq 数据：SeqMonk LFC 和 RT-qPCR LFC 之间的 Spearman 和 Pearson 相关系数分别为 0.748 和 0.879。据我们所知，这是对发育中的马铃薯茎外植体 mRNA 谱发生变化的第一次转录组学评估。SeqMonk LFC 和 RT-qPCR LFC 之间的 Spearman 和 Pearson 相关系数分别为 0.748 和 0.879。据我们所知，这是对发育中的马铃薯茎外植体 mRNA 谱发生变化的第一次转录组学评估。SeqMonk LFC 和 RT-qPCR LFC 之间的 Spearman 和 Pearson 相关系数分别为 0.748 和 0.879。据我们所知，这是对发育中的马铃薯茎外植体 mRNA 谱发生变化的第一次转录组学评估。