Comparative transcriptome analysis uncovers the regulatory functions of long noncoding RNAs in fruit development and color changes of Fragaria pentaphylla
| Autor: | Li-jun Bai, Yuanxiu Lin, Haoru Tang, Jiang Leiyu, Peng Liu, Xiaorong Wang, Ye Yuntian, Qing Chen |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
0106 biological sciences
0301 basic medicine Fruit development Plant Science Horticulture 01 natural sciences Biochemistry Article Transcriptome 03 medical and health sciences lcsh:Botany Genetics lcsh:QH301-705.5 Gene biology Structural gene food and beverages Fragaria pentaphylla Ripening biology.organism_classification lcsh:QK1-989 030104 developmental biology lcsh:Biology (General) Cell wall organization Biogenesis 010606 plant biology & botany Biotechnology |
| Zdroj: | Horticulture Research Horticulture Research, Vol 6, Iss 1, Pp 1-15 (2019) |
| ISSN: | 2052-7276 |
| Popis: | To investigate the molecular mechanism underlying fruit development and color change, comparative transcriptome analysis was employed to generate transcriptome profiles of two typical wild varieties of Fragaria pentaphylla at three fruit developmental stages (green fruit stage, turning stage, and ripe fruit stage). We identified 25,699 long noncoding RNAs (lncRNAs) derived from 25,107 loci in the F. pentaphylla fruit transcriptome, which showed distinct stage- and genotype-specific expression patterns. Time course analysis detected a large number of differentially expressed protein-coding genes and lncRNAs associated with fruit development and ripening in both of the F. pentaphylla varieties. The target genes downregulated in the late stages were enriched in terms of photosynthesis and cell wall organization or biogenesis, suggesting that lncRNAs may act as negative regulators to suppress photosynthesis and cell wall organization or biogenesis during fruit development and ripening of F. pentaphylla. Pairwise comparisons of two varieties at three developmental stages identified 365 differentially expressed lncRNAs in total. Functional annotation of target genes suggested that lncRNAs in F. pentaphylla may play roles in fruit color formation by regulating the expression of structural genes or regulatory factors. Construction of the regulatory network further revealed that the low expression of Fra a and CHS may be the main cause of colorless fruit in F. pentaphylla. Ripening: What makes strawberries turn red? Researchers have pinpointed key genes that make strawberries turn red when they ripen. The role of hormones in fruit ripening has been extensively studied, but questions remain about the underlying genetics. Haoru Tang at Sichuan Agricultural University in China and co-workers assembled detailed genetic profiles of two wild strawberry varieties, one with red and the other with white fruits, at three stages of ripening. They focused on long non-coding RNAs (lncRNAs), master switches of gene regulation. Identifying differences in lncRNA profiles between the varieties allowed them to trace the complex genetic networks controlling ripening and redness. They also identified two key genes that generate red pigment, which are switched off in the white fruits. These results illuminate the complex genetics underlying a key feature of one of the world’s most economically important fruits. Researchers have illuminated the genetic cues that control the ripening of strawberries by comparing the genes switched on two variants, that produce red or white fruits, respectively. |
| Databáze: | OpenAIRE |
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