SE41:/S02/M03/D01

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Sample Set Information

ID SE41
Title Comparison of tomato fruit metabolites among fruit maturation
Description Investigation of Tomato fruits metabolites. 2 cultivers, 4 deveropmental stages and 3 replicates data are examined.
Authors Takeshi Ara 1, Shingo Takahashi 1,3, Naoko Waki 1,3, Nozomu Sakurai 2, Haruya Takahashi 1, Shinsuke Mohri 1, Kunihiro Suda 2, Keishi Ozawa 2, Koichi Aizawa 3, Hiroyuki Suganuma 3, Yasuki Matsumura 1, Teruo Kawada 1, Daisuke Shibata 1, 2, 1:Graduate School of Agriculture, Kyoto University, Japan, 2:Kazusa DNA Research Institute, Japan, 3:KAGOME CO., LTD., Japan
Reference Ara T. et al. (2017) Acta Horticulturae 1159: 101-106.
Comment version 1


Link icon database.png Link icon pgdbj.png

The web resources and information related to the species used in this study are available at Plant Genome Database Japan (PGDBj).

http://pgdbj.jp/plantdb/plantinfo.html?ln=en&cmd=entry&ppid=t4081

Sample Information

ID S02
Title Solanum lycopersicum KTP001 fruit, stage 2
Organism - Scientific Name Solanum lycopersicum
Organism - ID NCBI taxonomy:4081
Compound - ID
Compound - Source
Preparation
Sample Preparation Details ID
Comment Solanum lycopersicum KTP001 are grown in an agricultural field of KAGOME CO., LTD.

Analytical Method Information

ID M03
Title LC-Orbitrap-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount
Comment [MassBase ID] MDLC1_46986


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The raw (binary) and near-raw (text) files of this analysis are available at MassBase.

Analytical Method Details Information

ID MS1
Title LC-Orbitrap-MS ESI positive method
Instrument Agilent1200 HPLC (Agilent), LTQ-Orbitrap (Thermo Fisher Scientific)
Instrument Type LC-Orbitrap-MS
Ionization ESI
Ion Mode Positive
Description Harvested sample is frozen by liquid N2 and resulting powder (100mg) are solved in 300uL 80% methanol solution. 5uL sample is injected into HPLC after 0.2um membrane filter treatment. HPLC conditions: Agilent 1200 series (Agilent), Column: TSKgel ODS-100V (3 x 50 mm, 5 micrometer; TOSOH), Solvent: A; 0.1% formic acid aq. B; ACN (addition 0.1% formic acid fc.), Gradient: (B) 3 to 97% for 85 min, 97% for 10 min, 97 to 3% for 0.1 min, and 3% for 5 min., Column temp.: 40 degree C, Flow rate=0.4mL/min, PDA: 190-950 nm (2 nm step). Orbitrap-MS conditions: Filter 1: FTMS + c norm !corona !pi res=60000 o(100.0-1500.0); 2: ITMS + c norm !corona !pi Dep MS/MS Most intense ion from (1); 3: ITMS + c norm !corona !pi Dep MS/MS 2nd most intense ion from (1); 4: ITMS + c norm !corona !pi Dep MS/MS 3rd most intense ion from (1); 5: ITMS + c norm !corona !pi Dep MS/MS 4th most intense ion from (1).
Comment_of_details

Data Analysis Information

ID D01
Title PowerGet data analysis
Data Analysis Details ID DS1
Recommended decimal places of m/z 6|ITMS 2
Comment


Data Analysis Details Information

ID DS1
Title PowerGet analysis for detection of all peaks
Description Raw data files are converted to text file by MSGet software without cut off value and peaks are extracted from the text files by PowerFT with parameters (intensity cut off=20000, margin of ion grouping in peak detection=5, peak selection filter is default, intensity cut off in peak assignment=1000). The replicates data are aligned by PowerMatch with blank data. Average peak intensity cutoff value is 10000. The alignment is manually edited. Assigned peaks observed in multiple replicate samples are selected for annotation process.
Comment_of_details
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