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| Status |
Public on Feb 04, 2024 |
| Title |
Real-time quantitative PCR analysis of Tomato stress response |
| Organism |
Solanum lycopersicum |
| Experiment type |
Expression profiling by RT-PCR
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| Summary |
To extract RNA from shoots and roots, 3 weeks old control and treated plants were harvested at 2pm in the greenhouse. Total RNA was extracted using the AccuPrep® Universal RNA extraction kit (Bioneer, Daejeon, Korea) and treated with RNase-free DNase to remove DNA fragments (Qiagen, Hilden, Germany). One microgram of total RNA was used to synthesize cDNA with AccuPower® RT PreMix (Bioneer, Daejeon, Korea). Quantitative real-time RT-PCR was conducted using a T100TM Thermocycler system (Bio-Rad, Hercules, CA, USA). Primer information is given in Table S7. Reactions (10 µL final volume) were prepared using 5 µL of LaboPass™ SYBR Green Q Master Kit (Cosmogenetech, Dajeon, Korea). 0.5 pmol of a primer pair, and 0.5 µL of cDNA template. 4 biological samples and two technical replicates were used for the quantifications. Ubiquitin was used as the reference. gene expression analysis was performed with the 2^−ΔΔCt method using Bio-Rad CFX Maestro software v.4.0 (Bio-Rad). Baseline and threshold levels were set according to the manufacturer’s instructions.
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| Overall design |
qPCR gene expression profiling. Soot and root samples were acquired and cDNA synthezised using 1microgram RNA. qPCR was conducted using CYBR green with Biorad C-1000.
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| Contributor(s) |
Rajendran S, Kim CM |
| Citation(s) |
38580719 |
| Submission date |
Nov 17, 2023 |
| Last update date |
Apr 24, 2024 |
| Contact name |
Sujeevan Rajendran |
| E-mail(s) |
sujee119@gmail.com
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| Phone |
+821068069010
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| Organization name |
Wonkwang University
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| Street address |
Muwang-ro
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| City |
Iksan |
| ZIP/Postal code |
54538 |
| Country |
Sri Lanka |
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| Platforms (1) |
| GPL33939 |
BIO-RAD C1000 Dx Thermal Cycler with CFX DX ORM Real-Time PCR System. |
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| Samples (16)
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| GSM7905806 |
Control plants [SAMPLE 2-2] |
| GSM7905807 |
Treated with salt (200mM NaCL water) [SAMPLE 3-1] |
| GSM7905808 |
Treated with salt (200mM NaCL water) [SAMPLE 3-2] |
| GSM7905809 |
Treated with salt (200mM NaCL water) [SAMPLE 4-1] |
| GSM7905810 |
Treated with salt (200mM NaCL water) [SAMPLE 4-2] |
| GSM7905811 |
Treated with acid (pH 4.2 water) [SAMPLE 5-1] |
| GSM7905812 |
Treated with acid (pH 4.2 water) [SAMPLE 5-2] |
| GSM7905813 |
Treated with acid (pH 4.2 water) [SAMPLE 6-1] |
| GSM7905814 |
Treated with acid (pH 4.2 water) [SAMPLE 6-2] |
| GSM7905815 |
treated with Flood (excessive watering) [SAMPLE 7-1] |
| GSM7905816 |
treated with Flood (excessive watering) [SAMPLE 7-2] |
| GSM7905817 |
treated with Flood (excessive watering) [SAMPLE 8-1] |
| GSM7905818 |
treated with Flood (excessive watering) [SAMPLE 8-2] |
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| Relations |
| BioProject |
PRJNA1041763 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE248090_processed_and_normalized.xls.gz |
27.4 Kb |
(ftp)(http) |
XLS |
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