Comparative transcriptome analysis of differentially expressed genes between the fruit peel and flesh of the purple tomato cultivar ‘Indigo Rose’

Abstract

Anthocyanins are considered health-promoting phytonutrients; however, anthocyanins strictly occurr in the fruit peel of purple tomato cultivars, making the total anthocyanin content limited per tomato fruit. In this study, we performed a transcriptome analysis between the fruit peel and flesh of a purple tomato cultivar 'Indigo Rose' at both the mature green stage and breaking stage. In total, 1,945 differently expressed genes, including 165 transcription factors, were detected between the fruit peel and flesh, both at and after the mature green stage. We further analyzed the transcription of anthocyanin biosynthesis genes and the regulatory genes composing the MYB-bHLH-WD40 (MBW) complex between the fruit peel and flesh at both development stages. In addition, several light-sensing genes and other transcription factor genes, including BBX family genes and WRKY genes, showed different expression patterns between the fruit peel and flesh. These findings deepen our understanding of anthocyanin biosynthesis in tomato fruit peels and facilitate the identification of genes limiting the anthocyanin biosynthesis in tomato fruit flesh.

SlWRKY80 recruits SlHDA1 to regulates the tomato fruit ripening and color transformation

“…Select the sampling location for the fruit pulp, as shown in the red circle in Figure 3A for specific locations. RNA extraction and first-strand cDNA synthesis and RT-qPCR were carried out following the protocol established by Xu et al (2023) and Livak et al (2001). Related primers provided in Supplementary table S5.…”

Comprehensive analysis of metabolome and transcriptome reveals the mechanism of color formation in different leave of Loropetalum Chinense var. Rubrum

“…The transcription factor families MYB, bHLH, and WD40 are also involved in anthocyanin synthesis by regulating the expression of structural genes [33]. MYB is one of the most abundant family of transcription factors in higher plants, which is related to regulating secondary metabolism, cell morphogenesis and differentiation, signal transduction, and stress response [34][35][36][37].…”

Transcriptome Analysis and Metabolic Profiling of Anthocyanins Accumulation in Loropetalum Chinense var. Rubrum With Different Colors of Leaf

“…Anthocyanin accumulation can also activate or inhibit the spatiotemporal expression of structural genes through transcription factors. Such as MYB, bHLH, and WD40 proteins [24]. MYB is one of the most abundant transcription factors in higher plants, which is involved in the regulation of secondary metabolism, cell morphogenesis and differentiation, signal transduction, and stress response [25][26][27][28].…”