Transcription Profile of Potato (Solanum tuberosum L.) Growing In Vitro

Abstract

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.

Mining sequences with similarity to XTH genes in the Solanum tuberosum L. transcriptome: introductory step for identifying homologous XTH genes

“…Table 4). The different comparisons correspond to the AB-US and PE-US compared to their respective controls, as well as AB-US vs PE-US comparisons, each at five sampling times, namely 0 h, 24 h, 48 h, 1 w and 4 w, corresponding to five growth stages of in vitro potato as described in Dobránszki et al 5,7,23 After the AB-US treatment, which caused a weaker stress than PE-US treatment, 7 the expression intensity of five sequences differed. Up-regulation of StXTH16 and StXTH12 occurred immediately after ultrasonication (0 h), while StXTH9-1 and StXTH25 were upregulated at 24 h. Later, at 48 h, StXTH9-1 was then downregulated.…”

“…In the present study, we used our previous RNA-seq datasets gained from our earlier studies. 5,7,23 The RNA-seq projects were uploaded to the Gene Expression Omnibus (GEO) under GSE123176, GSE123037 and GSE135294. The RNAseq raw FASTQ files were uploaded as GSM3498049, GSM3498050, GSM3498051, GSM3498052, GSM3498053, GSM3498054, GSM3498055, GSM3498056, GSM3498057, GSM3498058, GSM3494235, GSM3494236, GSM4002842, GSM4002843, GSM4002844, GSM4002845, GSM4002846, GSM4002847, GSM4002848, GSM4002849, GSM4002850 and GSM4002851 onto the Sequence Read Archive (SRA).…”

Effect of Menthol Treatment on the Sprouting and Quality of Potato Tuber

“…Additionally, PPO functions as a terminal oxidase system in plant tissue respiration, influencing dormancy and sprouting in tubers [31]. Within 15 days of storage, the binding of PPO to the inner vesicle membrane may be compromised, leading to PPO activation [32]. As depicted in Figure 4C, PPO activity exhibited an initial increase (during the first six days) followed by a decrease during storage across all groups.…”