SE27:/S02/M02/D01

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

Sample Set Information

ID SE27
Title Effect of agricultural films for cabbage leaf metabolites
Description Investigation of Brassica oleracea var. capitata YR Tenkuu leaf metabolites. 3 growth conditions (covered with normal or UV cut agricultural film or no agricultural film), 3 replicates data are examined.
Authors Takeshi Ara 1, Naoki Yamamoto 1, Kunihiro Suda 1, Mitsuo Enomoto 1, Nozomu Sakurai 1, Hideyuki Suzuki 1, Tatsuya Suzuki 2, Daisuke Shibata 1, 1: Kazusa DNA Research Institute, 2: Chiba Prefectural Agriculture Research Center
Reference Direct Submittion
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=t3712

Sample Information

ID S02
Title Brassica oleracea var. capitata YR Tenkuu Leaf
Organism - Scientific Name Brassica oleracea var. capitata
Organism - ID NCBI taxonomy:3716
Compound - ID
Compound - Source
Preparation Brassica oleracea var. capitata plants are grown at agricultural field under normal film.
Sample Preparation Details ID
Comment [KomicMarket ID] KSBA_86

Analytical Method Information

ID M02
Title LC-FTICR-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount 6.7mg
Comment [MassBase ID] MDLC1_29107


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 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). 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

Data Analysis Information

ID D01
Title PowerGet data analysis for KomicMarket
Data Analysis Details ID DS1
Recommended decimal places of m/z 6|ITMS 2
Comment [KomicMarket ID] KSBA_86


Link icon database.png Komicmarket logo.png

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

Data Analysis Details Information

ID DS1
Title PowerGet analysis for detection of all peaks (C3)
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).
Comment_of_details
Personal tools
View and Edit Metadata
Variants
Views
Actions