SE3:/S01/M02/D03

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Sample Set Information

ID SE3
Title Comparison of fruit metabolites among tomato varieties 1
Description Investigation of Solanum lycopersicum fruit metabolites. 3 caltivars and an original species, 3 replicates data are examined.
Authors Naoki Yamamoto 1, Takeshi Ara 1, Tatsuya Suzuki 2, Taneaki Tsugane 2, Sayaka Shinpo 1, Yoshihiko Morishita 1, Ryosuke Sasaki 1, Mitsuo Enomoto 1, Nozomu Sakurai 1, Hideyuki Suzuki 1, Daisuke Shibata 1, 1: Kazusa DNA Research Institute, 2: Chiba Prefectural Agriculture Research Center
Reference Yamamoto N et al. (2012) Plant Biotechnology 29: 109-113
Comment version 5


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

Sample Information

ID S01
Title Solanum lycopersicum Lovely ai fruit
Organism - Scientific Name Solanum lycopersicum
Organism - ID NCBI taxonomy:4081
Compound - ID
Compound - Source
Preparation Solanum lycopersicum Lovely ai (ref: http://www.mikadokyowa.com/Seed/034_tomato/034_lovely_ai/034_lovely_ai.htm) are grown at agricultural field under normal film in natural conditions.
Sample Preparation Details ID
Comment [KomicMarket ID] KSBA_8

Analytical Method Information

ID M02
Title LC-FTICR-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount 6.7 mg
Comment [MassBase ID] MDLC1_25527


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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-FT-ICR-MS ESI positive method 1
Instrument Agilent1100 HPLC (Agilent), LTQ-FT (Thermo Fisher Scientific)
Instrument Type LC-FTICR-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. 20uL sample is injected into HPLC after 0.2um membrane filter treatment. HPLC conditions: Agilent 1100 series (Agilent), Column: TSKgel-100V (4.6 x 250 mm, 5 micrometer; TOSOH), Solvent: A; 0.1% formic acid aq. B; ACN (addition 0.1% formic acid fc.), Gradient: (B);3 to 50% (0.0 to 20.0 min), 50 to 90% (20.0 to 40.0 min), 90% (40.0 to 45.0 min), 95% (45.1 to 50.0 min), 3% (50.1 to 57.0 min), Column temp.: 40 degree C, Flow rate=0.5mL/min, PDA: 200-650 nm (2 nm step). FT-ICR-MS conditions: Filter 1: FTMS + c norm !corona !pi res=100000 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); 6: ITMS + c norm !corona !pi Dep MS/MS 5th most intense ion from (1)., Rejected mass=294.2600, 376.0400, 609.2800, 810.4200, 1123.6800
Comment_of_details


link=SE14_MS1

The data can be compared with the data obtained by the method SE14_MS1

Data Analysis Information

ID D03
Title PowerGet data analysis for KomicMarket
Data Analysis Details ID DS3
Recommended decimal places of m/z 6|ITMS 2
Comment [KomicMarket ID] KSBA_8


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The annotation data and quantitative data of the metabolite peaks in this sample are available at KomicMarket.

Data Analysis Details Information

ID DS3
Title PowerGet analysis for detection of all peaks (C2)
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=5000, peak selection filter is default, peak shape is manually checked for peaks with intensity < 1000).
Comment_of_details
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