Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa)
Strawberry (Fragaria × ananassa) is an ideal plant for fruit development and ripening research due to the rapid substantial changes in fruit color, aroma, taste, and softening. To gain deeper insights into the genes that play a central regulatory role in strawberry fruit development and ripening cha...
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| Format: | Article |
| Language: | English |
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PeerJ Inc.
2018-06-01
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| Series: | PeerJ |
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| Online Access: | https://peerj.com/articles/4976.pdf |
| _version_ | 1797424686524530688 |
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| author | Panpan Hu Gang Li Xia Zhao Fengli Zhao Liangjie Li Houcheng Zhou |
| author_facet | Panpan Hu Gang Li Xia Zhao Fengli Zhao Liangjie Li Houcheng Zhou |
| author_sort | Panpan Hu |
| collection | DOAJ |
| description | Strawberry (Fragaria × ananassa) is an ideal plant for fruit development and ripening research due to the rapid substantial changes in fruit color, aroma, taste, and softening. To gain deeper insights into the genes that play a central regulatory role in strawberry fruit development and ripening characteristics, transcriptome profiling was performed for the large green fruit, white fruit, turning fruit, and red fruit stages of strawberry. A total of 6,608 differentially expressed genes (DEGs) with 2,643 up-regulated and 3,965 down-regulated genes were identified in the fruit development and ripening process. The DEGs related to fruit flavonoid biosynthesis, starch and sucrose biosynthesis, the citrate cycle, and cell-wall modification enzymes played important roles in the fruit development and ripening process. Particularly, some candidate genes related to the ubiquitin mediated proteolysis pathway and MADS-box were confirmed to be involved in fruit development and ripening according to their possible regulatory functions. A total of five ubiquitin-conjugating enzymes and 10 MADS-box transcription factors were differentially expressed between the four fruit ripening stages. The expression levels of DEGs relating to color, aroma, taste, and softening of fruit were confirmed by quantitative real-time polymerase chain reaction. Our study provides important insights into the complicated regulatory mechanism underlying the fruit ripening characteristics in Fragaria × ananassa. |
| first_indexed | 2024-03-09T08:04:25Z |
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| id | doaj.art-6eb014acc6a34447b26e1fd0cd58e6e9 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T08:04:25Z |
| publishDate | 2018-06-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-6eb014acc6a34447b26e1fd0cd58e6e92023-12-03T00:23:42ZengPeerJ Inc.PeerJ2167-83592018-06-016e497610.7717/peerj.4976Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa)Panpan HuGang LiXia ZhaoFengli ZhaoLiangjie LiHoucheng ZhouStrawberry (Fragaria × ananassa) is an ideal plant for fruit development and ripening research due to the rapid substantial changes in fruit color, aroma, taste, and softening. To gain deeper insights into the genes that play a central regulatory role in strawberry fruit development and ripening characteristics, transcriptome profiling was performed for the large green fruit, white fruit, turning fruit, and red fruit stages of strawberry. A total of 6,608 differentially expressed genes (DEGs) with 2,643 up-regulated and 3,965 down-regulated genes were identified in the fruit development and ripening process. The DEGs related to fruit flavonoid biosynthesis, starch and sucrose biosynthesis, the citrate cycle, and cell-wall modification enzymes played important roles in the fruit development and ripening process. Particularly, some candidate genes related to the ubiquitin mediated proteolysis pathway and MADS-box were confirmed to be involved in fruit development and ripening according to their possible regulatory functions. A total of five ubiquitin-conjugating enzymes and 10 MADS-box transcription factors were differentially expressed between the four fruit ripening stages. The expression levels of DEGs relating to color, aroma, taste, and softening of fruit were confirmed by quantitative real-time polymerase chain reaction. Our study provides important insights into the complicated regulatory mechanism underlying the fruit ripening characteristics in Fragaria × ananassa.https://peerj.com/articles/4976.pdfStrawberryFruit ripeningTranscriptomeDifferentially expressed gene |
| spellingShingle | Panpan Hu Gang Li Xia Zhao Fengli Zhao Liangjie Li Houcheng Zhou Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) PeerJ Strawberry Fruit ripening Transcriptome Differentially expressed gene |
| title | Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) |
| title_full | Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) |
| title_fullStr | Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) |
| title_full_unstemmed | Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) |
| title_short | Transcriptome profiling by RNA-Seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries (Fragaria × ananassa) |
| title_sort | transcriptome profiling by rna seq reveals differentially expressed genes related to fruit development and ripening characteristics in strawberries fragaria ananassa |
| topic | Strawberry Fruit ripening Transcriptome Differentially expressed gene |
| url | https://peerj.com/articles/4976.pdf |
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