SE11:/S04/M03/D01

From Metabolonote
jump-to-nav Jump to: navigation, search

Sample Set Information

ID SE11
Title Comparison of fruit metabolites among tomato varieties 2
Description Comparison of tomato fruit metabolites. 2 caltivars (Furikoma, Micro-Tom) and 6 original species (S. peruvianum LA0372, S. pennellii LA0716, S. galapagense LA1408, S. pimpinellifolium LA1589, S. habrochaites LA1777, S. peruvianum LA3858), 3 replicates data are examined. The color of fruit of S. peruvianum and S. pennellii are green, others are red.
Authors Takeshi Ara 1, Naoki Yamamoto 1, Kunihiro Suda 1, Tatsuya Suzuki 2, Taneaki Tsugane 2, Yoshihiko Morishita 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 Direct Submittion
Comment version 2


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).

Sample Information

ID S04
Title Solanum galapagense LA1408 Fruit
Organism - Scientific Name Solanum galapagense
Organism - ID NCBI taxonomy:315350
Compound - ID
Compound - Source
Preparation Solanum galapagense are grown at agricultural field in natural conditions.
Sample Preparation Details ID
Comment [KomicMarket ID] KSBA_35

Analytical Method Information

ID M03
Title LC-FTICR-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount 6.7mg
Comment [MassBase ID] MDLC1_32688


Link icon database.png Link icon massbase.png

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=235.1800, 308.0000, 376.0400, 378.0300, 469.3500, 540.6100, 609.2800, 782.5700, 810.4200, 1101.7000, 1123.6800.
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


Link icon database2.png Link icon biomassbank.png

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 (A3)
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, intensity cut off in peak assignment=1000). 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
Personal tools
View and Edit Metadata
Variants
Views
Actions