SE15:/S04/M03/D01

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Sample Set Information

ID SE15
Title Comparison of fruit metabolites among developmental stages of Jatropha curcas
Description Investigation of Jatropha curcas fruit metabolites. 4 developmental stages and 3 replicates data are examined.
Authors Ryosuke Sano 1, Takeshi Ara 1, Nayumi Akimoto 1, Yoshihiko Morishita 1, Mitsuo Enomoto 1, Nozomu Sakurai 1, Hideyuki Suzuki 1, Yasunori Fukuzawa 2, Yoshinobu Kawamitsu 2, Masami Ueno 2, Daisuke Shibata 1, 1: Kazusa DNA Research Institute, 2: Faculty of Agriculture, University of the Ryukyus
Reference Sano R. et al. (2012) Plant Biotechnology 29: 175-178
Comment version 4


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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 S04
Title Jatropha curcas Fruit stage 4
Organism - Scientific Name Jatropha curcas
Organism - ID NCBI taxonomy:180498
Compound - ID
Compound - Source
Preparation Jatropha curcas are grown in an open experimental field at the University of the Ryukyus (Okinawa island, Okinawa, Japan), located in a subtropical area.
Sample Preparation Details ID
Comment [KomicMarket ID] KSBA_6

Analytical Method Information

ID M03
Title LC-Orbitrap-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount 3.4mg
Comment [MassBase ID] MDLC1_25031


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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 1
Instrument Agilent1100 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 ground to powder by a homogenizer, Shake Master (Biomedical Science, Tokyo, Japan). The powdered sample (100mg) are solved in 300uL 80% methanol solution. 10uL sample is injected into HPLC after 0.2um membrane filter treatment. HPLC conditions: Agilent 1100 series (Agilent), Column: TSKgel ODS-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 97% (0.0 to 45.0 min), 97% (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). 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); 6: ITMS + c norm !corona !pi Dep MS/MS 5th most intense ion from (1)., Rejected mass=102.09000, 102.13000, 103.11000, 116.14000, 121.12000, 130.16000, 158.00000, 171.15000, 202.13000, 235.18000, 249.21000, 252.22000, 294.26000, 308.00000, 376.04000, 379.04000, 380.03000, 540.61000, 540.95000, 609.28000, 810.41000, 1101.70000, 1123.68000, 1146.75000, 1147.76000.
Comment_of_details

Data Analysis Information

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


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The mass spectrum data are available at Bio-MassBank.

Data Analysis Details Information

ID DS1
Title PowerGet analysis for annotation of peaks with MS/MS (A5)
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 in peak detection=30000, margin of ion grouping in peak detection=5, peak selection filter is default). The replicates data are aligned by PowerMatch with blank data. The alignment is manually edited. Assigned peaks observed in multiple replicate samples are selected for annotation process. Assigned peaks with clear MS2 data are selected for the registration of Bio-MassBank.
Comment_of_details
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