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| Status |
Public on Feb 16, 2018 |
| Title |
A naturally unique variation in Al-activated malate transporter 9 determines fruit malate in cultivated tomato |
| Organism |
Solanum lycopersicum |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: Understanding the mechanism of malate accumulation in plants is beneficial for both plant nutrient and human health. However, little is known regarding regulation of malate accumulation in horticulture plants such as tomato. The goals of this study are to investigate potential regulation network of Al-Activated Malate Transporter 9 (ALMT9) which is the major locus responsible for the variation in fruit malate concentration observed in cultivared tomato.
Methods: The transcriptomes of fruit at ripening stage from CK and SlALMT9 overexpressing line1 were evaluated using single-ended sequencing of Illumina HiSeq 2500. Raw sequences were filtered and the resulting sets of clean reads were used for the following analysis by tophat and edgeR software.
Results: Among 1,887 differentially expressed genes, some structural genes involved in sugar and organic acid metabolism were differently expressed in SlALMT9 overexpressing line, which partially coincide with changes of sugar and organic acid concentration. PR genes was also altered in the OX lines, in agreement with previous study that tomato fruit malate is involved in pathogen infection. Three members of malate transporters, MATE (multidrug and toxin efflux), were up-regulated (SlMATE5 and 6) or down-regulated (SlMATE9) . Besides, three sugar transport proteins and four vacuole membrane or plasma membrane proteins were up-regulated in OX line
Conclusions: Using RNA-seq analysis, 1,887 differentially expressed genes was revealed. Among them, several genes related to sugar and organic acid metabolism and transport, pathogen resistances were identified. This transcriptome study provides insight into the regulatory mechanism of fruit malate accumulation and the effect of the SlALMT9 to primary metabolism.
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| Overall design |
Investigate the potential regulation network of SlALMT9 in ripening tomato fruit by Illumina sequencing platform.
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| Contributor(s) |
Ye J, Ye Z |
| Citation(s) |
28814642 |
| Submission date |
Nov 10, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
JIE YE |
| E-mail(s) |
yjstudents@163.com
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| Organization name |
Huazhong Agricultural University
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| Lab |
Key Laboratory of Horticultural Plant Biology, Ministry of Education
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| Street address |
No. 1, Shizishan Road
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| City |
Wuhan City |
| State/province |
Hubei Province |
| ZIP/Postal code |
430070 |
| Country |
China |
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| Platforms (1) |
| GPL19694 |
Illumina HiSeq 2500 (Solanum lycopersicum) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA353244 |
| SRA |
SRP093257 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE89772_RPKM.txt.gz |
441.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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