Summary of Study ST001071
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 PR000717. The data can be accessed directly via it's Project DOI: 10.21228/M80M50 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
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.
| Study ID | ST001071 |
| Study Title | Guinea Grass Untargeted Metabolomic Profiling |
| Study Type | Treatment comparison |
| Study Summary | Treatment comparison of Guinea grass planted at University of Sao Paulo Brazil 4 Ambient temp and CO2 plots, 4 elevated CO2 (600 ppm) plots, 4 elevated Temp plots (+2C),4 elevated CO2 and Temp plots. Untargeted metabolomics(GC-MS),de novo transcriptomics, and RNAseq taken at 30(A)(2014-05-22) and 50(B)(2014-07-14)days post treatment exposure. Dried leaf material sent to Uni Illinois-UC. GC-MS protocol followed as stated in Ulanov et al. (2010) J of Plant Phys. |
| Institute | University of Illinois Urbana-Champaign |
| Department | Plant Biology |
| Laboratory | Ainsworth USDA ARS Global Change and Photosynthesis Research Unit |
| Last Name | Ainsworth |
| First Name | Elizabeth |
| Address | 1201 W Gregory Dr, Urbana, IL 61801 |
| lisa.ainsworth@ars.usda.gov | |
| Phone | 217-265-9887 |
| Submit Date | 2018-10-09 |
| Num Groups | 4 |
| Total Subjects | 32 (+ 4 techincal replicates) |
| Raw Data File Type(s) | d |
| Analysis Type Detail | GC-MS |
| Release Date | 2018-11-08 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000717 |
| Project DOI: | doi: 10.21228/M80M50 |
| Project Title: | Guinea Grass elevated CO2 and warming Project |
| Project Type: | Elevated temperature and CO2 treatment |
| Project Summary: | Experiment to test the response of Panicum maximum Jacq.(Guinea Grass) to elevated temperature (+2C) and CO2 (600ppm) or combination at University of Sao Paulo in Ribeirao Preto, Sao Paulo Brazil. Each plot was 2-m in diameter; [CO2] was controlled using Free Air CO2 Enrichment and canopy warming was provided by infrared ceramic heaters as described by Britto de Assis Prado et al. (2016).Samples for untargeted metabolomics (with GC-MS), de novo transcriptomics, and RNASeq, were taken 30 and 50 days post treatment exposure (May 22, 2014 and July 14, 2014). Lyophilized leaf material was sent to the University of Illinois Urbana-Champaign(Ainsworth lab) for the untargeted metabolomics, transcript assembly and RNASeq. |
| Institute: | University of Sao Paulo |
| Department: | Department of Biology-FFCLRP |
| Laboratory: | Martinez |
| Last Name: | Martinez |
| First Name: | Carlos Alberto |
| Address: | Ribeirao Preto, SP, Brazil |
| Email: | carlosamh@ffclrp.usp.br |
| Phone: | +55 16 3315 3648 |
| Funding Source: | FAPESP- Research Program on Global Climate Change (Grant 2008/58075-8) - CNPq/ANA/MCTI (Grant 446357/2015-4) |
| Publications: | Leaf Dynamics of Panicum maximum under future climate changes-https://doi.org/10.1371/journal.pone.0149620 |
| Contributors: | Jessica M. Wedow, Craig R. Yendrek, Tathyana R. Mello, Silvana Creste, Carlos A. Martinez, Elizabeth A. Ainsworth |
Subject:
| Subject ID: | SU001115 |
| Subject Type: | Plant |
| Subject Species: | Panicum maximum(Megathyrsis maximus (Jacq.)) |
| Taxonomy ID: | 59788 |
Factors:
Subject type: Plant; Subject species: Panicum maximum(Megathyrsis maximus (Jacq.)) (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Ring | Time Point (days) |
|---|---|---|---|---|
| SA072348 | Amb_R1_T1 | Control- ambient temperature and ambient [CO2] | 1 | 30 |
| SA072349 | Amb_R1_T2 | Control- ambient temperature and ambient [CO2] | 1 | 50 |
| SA072350 | Amb_R2_T1 | Control- ambient temperature and ambient [CO2] | 2 | 30 |
| SA072351 | Amb_R2_T2 | Control- ambient temperature and ambient [CO2] | 2 | 50 |
| SA072352 | Amb_R3_T1 | Control- ambient temperature and ambient [CO2] | 3 | 30 |
| SA072353 | Amb_R3_T2 | Control- ambient temperature and ambient [CO2] | 3 | 50 |
| SA072354 | Amb_R4_T1 | Control- ambient temperature and ambient [CO2] | 4 | 30 |
| SA072355 | Amb_R4_T2 | Control- ambient temperature and ambient [CO2] | 4 | 50 |
| SA072356 | eC_R1_T1 | elevated [CO2] + ambient temperature | 1 | 30 |
| SA072357 | eC_R1_T2 | elevated [CO2] + ambient temperature | 1 | 50 |
| SA072358 | eC_R2_T1 | elevated [CO2] + ambient temperature | 2 | 30 |
| SA072359 | eC_R2_T2 | elevated [CO2] + ambient temperature | 2 | 50 |
| SA072360 | eC_R3_T1 | elevated [CO2] + ambient temperature | 3 | 30 |
| SA072361 | eC_R3_T2 | elevated [CO2] + ambient temperature | 3 | 50 |
| SA072362 | eC_R4_T1 | elevated [CO2] + ambient temperature | 4 | 30 |
| SA072363 | eC_R4_T2 | elevated [CO2] + ambient temperature | 4 | 50 |
| SA072364 | T_R1_T1 | elevated temperature + ambient [CO2] | 1 | 30 |
| SA072365 | T_R1_T2 | elevated temperature + ambient [CO2] | 1 | 50 |
| SA072366 | T_R2_T1 | elevated temperature + ambient [CO2] | 2 | 30 |
| SA072367 | T_R2_T2 | elevated temperature + ambient [CO2] | 2 | 50 |
| SA072368 | T_R3_T1 | elevated temperature + ambient [CO2] | 3 | 30 |
| SA072369 | T_R3_T2 | elevated temperature + ambient [CO2] | 3 | 50 |
| SA072370 | T_R4_T1 | elevated temperature + ambient [CO2] | 4 | 30 |
| SA072371 | T_R4_T2 | elevated temperature + ambient [CO2] | 4 | 50 |
| SA072372 | eCeT_R1_T1 | elevated temperature + elevated [CO2] | 1 | 30 |
| SA072373 | eCeT_R1_T2 | elevated temperature + elevated [CO2] | 1 | 50 |
| SA072374 | eCeT_R2_T1 | elevated temperature + elevated [CO2] | 2 | 30 |
| SA072375 | eCeT_R2_T2 | elevated temperature + elevated [CO2] | 2 | 50 |
| SA072376 | eCeT_R3_T1 | elevated temperature + elevated [CO2] | 3 | 30 |
| SA072377 | eCeT_R3_T2 | elevated temperature + elevated [CO2] | 3 | 50 |
| SA072378 | eCeT_R4_T1 | elevated temperature + elevated [CO2] | 4 | 30 |
| SA072379 | eCeT_R4_T2 | elevated temperature + elevated [CO2] | 4 | 50 |
| Showing results 1 to 32 of 32 |
Collection:
| Collection ID: | CO001109 |
| Collection Summary: | Leaf material dried and processed as stated Ulanov et al. (2010) J of Plant Phys |
| Sample Type: | Plant |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR001129 |
| Treatment Summary: | Ambient(Amb) : Control plots with ambient [CO2] and ambient temperature elvTemp(T): elevated temperature plots (+2C) and ambient [CO2] elvCO2(eC): elevated [CO2] plots (600ppm) and ambient temperature elvTemp+elvCO2(eCeT): elevated temperature (+2C) and elevated [CO2] (600ppm). Time Point A(2014-05-22) and Time Point B(2014-07-14) |
| Treatment Protocol Comments: | Time Point A(2014-05-22) and Time Point B(2014-07-14) |
| Treatment: | elevated [CO2] and/or elevated temperature |
| Treatment Doseduration: | 30 days and 50days |
| Plant Growth Location: | MiniFACE facility at University of São Paul in Ribeirão Preto, São Paulo Brazil |
| Plant Plot Design: | Complete replicated design (n=4) |
| Plant Light Period: | ambient |
| Plant Harvest Date: | 2014-05-22 |
| Plant Metab Quench Method: | Immersion in liquid N2 within 1 min of harvest |
| Plant Harvest Method: | Youngest fully expanded leaves was cut (PO:0001053), placed in foil, quenched in LN2 |
| Plant Storage: | -80 C, then lyophilized and ground, shipped on dry ice to University of Illinois at Urbana-Champagin were stored in 20 C in falcon tubes |
Sample Preparation:
| Sampleprep ID: | SP001122 |
| Sampleprep Summary: | Room temp Methanol extration: 10-20 mg leaf material, extracted with 1.5 mL MeOH for 15 min at RT followed by another extraction with 1.4 mL H2O at RT. 1 mL of extraction dried under vacuum. 5 uL internal standard added to each sample. 1uL aliquot per sample |
| Sampleprep Protocol Comments: | As described in Ulanov, A. & J. M. Widholm (2010) Metabolic profiling to determine the cause of the increased triphenyltetrazolium chloride reduction in mannitol-treated maize callus. Journal of Plant Physiology, 167, 1423-1431. |
| Processing Method: | Homogenization and Solvent removal with speed vac |
| Processing Storage Conditions: | Room temperature |
| Extraction Method: | 1:1 MeOH/H20 |
| Extract Storage: | -80℃ |
| Sample Spiking: | Internal Standard (hentriacontanoic acid 5 uL) |
Combined analysis:
| Analysis ID | AN001753 |
|---|---|
| Analysis type | MS |
| Chromatography type | GC |
| Chromatography system | Agilent 7890A |
| Column | Phenomenea ZB-5MS (60m x 0.32mm,0.25um) |
| MS Type | EI |
| MS instrument type | Single quadrupole |
| MS instrument name | Agilent 5975C |
| Ion Mode | POSITIVE |
| Units | peak area |
Chromatography:
| Chromatography ID: | CH001237 |
| Instrument Name: | Agilent 7890A |
| Column Name: | Phenomenea ZB-5MS (60m x 0.32mm,0.25um) |
| Column Pressure: | 19.223 psi |
| Flow Rate: | 2.4ml/min |
| Injection Temperature: | 250C |
| Internal Standard: | C31:0 fatty acid (hentriacontanoate) |
| Sample Injection: | split (5:1), 1ul |
| Analytical Time: | 65 min |
| Oven Temperature: | 70C - 310C |
| Running Voltage: | 1094 emvolts |
| Transferline Temperature: | 250 |
| Strong Wash Solvent Name: | pyridine |
| Strong Wash Volume: | 10ul |
| Sample Syringe Size: | 10ul |
| Chromatography Type: | GC |
MS:
| MS ID: | MS001621 |
| Analysis ID: | AN001753 |
| Instrument Name: | Agilent 5975C |
| Instrument Type: | Single quadrupole |
| MS Type: | EI |
| Ion Mode: | POSITIVE |
| Helium Flow: | 2.4 |
| Ion Source Temperature: | 230 |
| Ionization Energy: | 69.9 |
| Mass Accuracy: | low |
| Scan Range Moverz: | 50-800 |
| Scanning Cycle: | 4 |
