Summary of Study ST001331

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000909. The data can be accessed directly via it's Project DOI: 10.21228/M8668V This work is supported by NIH grant, U2C- DK119886.

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This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001331
Study TitleMulti-omics of OsGF14b-mediated innate immunity against panicle blast in rice (part-II)
Study SummaryIn the present study, we used a multi-omics approach to decipher the molecular mechanisms of OsGF14b in governing panicle resistance to Magnaporthe oryzae.Results revealed OsGF14b mediated panicle blast resistance was involved in the activation of auxin and JA signaling pathways, resulting in reprogramming of the phenylpropanoid and diterpenoid pathway.
Institute
Agro-biological Gene Research Center , Guangdong Academy of Agricultural Sciences
Last NameYan
First NameShijuan
AddressNo. 20 Jinying Road, Tianhe District, Guangzhou City, Guangdong Province, 510640, China.
Emailshijuan@agrogene.ac.cn
Phone+86-020-38213643
Submit Date2020-03-13
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2020-12-31
Release Version1
Shijuan Yan Shijuan Yan
https://dx.doi.org/10.21228/M8668V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000909
Project DOI:doi: 10.21228/M8668V
Project Title:Rice panicle blast resistence
Project Summary:Metabolomics studies of OsGF14b-mediated innate immunity against panicle blast in rice
Institute:Guangdong Academy of Agricultural Sciences
Department:Agro-biological Gene Research Center
Last Name:Yan
First Name:Shijuan
Address:No. 20 Jinying Road, Tianhe District, Guangzhou City, Guangdong Province, 510640, China.
Email:shijuan@agrogene.ac.cn
Phone:+86-020-38213643

Subject:

Subject ID:SU001405
Subject Type:Plant
Subject Species:Oryza sativa Japonica Group
Taxonomy ID:39947
Species Group:Plants

Factors:

Subject type: Plant; Subject species: Oryza sativa Japonica Group (Factor headings shown in green)

mb_sample_id local_sample_id Genotype Treatment
SA096510OXGF14b-2-0h-1OsGF14b-overexpression line 2 0h
SA096511OXGF14b-2-0h-4OsGF14b-overexpression line 2 0h
SA096512OXGF14b-2-0h-5OsGF14b-overexpression line 2 0h
SA096513OXGF14b-2-0h-3OsGF14b-overexpression line 2 0h
SA096514OXGF14b-2-0h-2OsGF14b-overexpression line 2 0h
SA096515OXGF14b-2-24h-2OsGF14b-overexpression line 2 24h
SA096516OXGF14b-2-24h-3OsGF14b-overexpression line 2 24h
SA096517OXGF14b-2-24h-5OsGF14b-overexpression line 2 24h
SA096518OXGF14b-2-24h-4OsGF14b-overexpression line 2 24h
SA096519OXGF14b-2-24h-1OsGF14b-overexpression line 2 24h
SA096520OXGF14b-4-0h-5OsGF14b-overexpression line 4 0h
SA096521OXGF14b-4-0h-3OsGF14b-overexpression line 4 0h
SA096522OXGF14b-4-0h-4OsGF14b-overexpression line 4 0h
SA096523OXGF14b-4-0h-1OsGF14b-overexpression line 4 0h
SA096524OXGF14b-4-0h-2OsGF14b-overexpression line 4 0h
SA096525OXGF14b-4-24h-2OsGF14b-overexpression line 4 24h
SA096526OXGF14b-4-24h-4OsGF14b-overexpression line 4 24h
SA096527OXGF14b-4-24h-3OsGF14b-overexpression line 4 24h
SA096528OXGF14b-4-24h-5OsGF14b-overexpression line 4 24h
SA096529OXGF14b-4-24h-1OsGF14b-overexpression line 4 24h
SA096530OXGF14b-6-0h-5OsGF14b-overexpression line 6 0h
SA096531OXGF14b-6-0h-4OsGF14b-overexpression line 6 0h
SA096532OXGF14b-6-0h-1OsGF14b-overexpression line 6 0h
SA096533OXGF14b-6-0h-2OsGF14b-overexpression line 6 0h
SA096534OXGF14b-6-0h-3OsGF14b-overexpression line 6 0h
SA096535OXGF14b-6-24h-5OsGF14b-overexpression line 6 24h
SA096536OXGF14b-6-24h-2OsGF14b-overexpression line 6 24h
SA096537OXGF14b-6-24h-3OsGF14b-overexpression line 6 24h
SA096538OXGF14b-6-24h-4OsGF14b-overexpression line 6 24h
SA096539OXGF14b-6-24h-1OsGF14b-overexpression line 6 24h
SA096540Nip-0h-5Wild-type 0h
SA096541Nip-0h-1Wild-type 0h
SA096542Nip-0h-4Wild-type 0h
SA096543Nip-0h-2Wild-type 0h
SA096544Nip-0h-3Wild-type 0h
SA096545Nip-24h-5Wild-type 24h
SA096546Nip-24h-4Wild-type 24h
SA096547Nip-24h-1Wild-type 24h
SA096548Nip-24h-2Wild-type 24h
SA096549Nip-24h-3Wild-type 24h
Showing results 1 to 40 of 40

Collection:

Collection ID:CO001400
Collection Summary:The panicles at the initial heading stage of the wild-type Nipponbare (Nip) and OsGF14b-overexpressing plants were harvested before (Nip-0h; OXGF14b-2-0h; OXGF14b-4-0h; OXGF14b-6-0h) and after M. oryzae 24-hour inoculation (Nip-24h; OXGF14b-2-24h; OXGF14b-4-24h; OXGF14b-6-24h) respectively. They were immediately frozen in liquid nitrogen, with each biological replicate containing panicle pooled from 10 individual plants.
Sample Type:Seeds

Treatment:

Treatment ID:TR001420
Treatment Summary:Wild-type japonica rice (Oryzae sativa cv. Nipponbare) and three OsGF14b gene overexpressing lines, including transgenic line 2 (OXGF14b-2), transgenic line 4 (OXGF14b-4), transgenic line 6 (OXGF14b-6) were used in this study. Rice seeds were surface-sterilized and transferred to 1/2 MS medium and incubated in a growth chamber for germination under light of 200 μmol/m2/s with a 12-h photoperiod at 26℃. Subsequently, rice seedlings were transplanted into soil and kept in a greenhouse. M. oryzae GD08-T13 was used for rice blast inoculation.

Sample Preparation:

Sampleprep ID:SP001413
Sampleprep Summary:The rice panicle pre-cooled in liquid nitrogen were ground using a Mixer/mill (MM400; Retsch) with steel ball for 30 seconds at 30 HZ. Fifty milligram of rice panicle powder of each sample was extracted with a fixed volume (1 ml) of pre-cooled (−20 °C) extraction solvent (methanol: chloroform: water = 5: 2: 2) was added to homogenized tissues. After adding the extraction solvent, the vials/tubes were thoroughly vortexed for 1 min and then incubated on an orbital shaker (200 rpm) for 10 min at 4 °C followed by a 15 min sonication step. For phase separation, a volume of 500 µl of solvent (methanol: water = 1: 3), was added to each vial/tube and the samples were again thoroughly vortexed for 1 min. After that, the samples are centrifuged at a speed of 14000rpm for 10 min at 4 °C. one fixed volume 500 μL of the unpolar phase (the upper phase) was transferred into pre-labeled 1.5 ml microcentrifuge tube. Then the samples were dried in a SpeedVac concentrator without heating. The dried 500 μL aliquot from the upper phase for lipids profiling was re-suspended in 200 μL UPLC-grade ACN: 2-propanol: dichloromethane (1:1:1, v/v/v) and analyzed using LC-MS for lipidomics study.
Processing Storage Conditions:-80℃
Extract Storage:-80℃

Chromatography:

Chromatography ID:CH001628
Chromatography Summary:Five μL of each sample was eluted using a CORTECS® C18 column (150 mm × 2.1 mm, 2.7μm, Waters) with 0.4 mL/min flow rate. The mobile phase A was water: ACN (40: 60, v/v) with 0.1% formic acid and 10mM ammonium formate, and the mobile phase B was 2-propanol: ACN (90:10, v/v) with 0.1% formic acid and 10mM ammonium formate. The compounds were separated by a elution gradient: 20% B was firstly maintained for 0.2 min, then linearly decreased to 60% B from 0.2 to 2min, to 100% B from 2 to 9min, and maintained at 100% B from 9 to 10 min, then linearly increased to 20% B from 10 to 10.5 min followed by equilibration at 20% B for 3.5 min.
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Waters CORTECS C18 (150 x 2.1mm,2.7um)
Flow Rate:0.4 mL/min
Solvent A:60% acetonitrile/40% water; 0.1% formic acid; 10 mM ammonium formate
Solvent B:90% isopropanol/10% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN002219
Analysis Type:MS
Chromatography ID:CH001628
Num Factors:8
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST001331_AN002219_Results.txt
Units:Relative content
  
Analysis ID:AN002220
Analysis Type:MS
Chromatography ID:CH001628
Num Factors:8
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST001331_AN002220_Results.txt
Units:Relative content
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