SE42:/S02/M01/D01

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Sample Set Information

ID SE42
Title Metabolic profiling of flavonoids in Lotus japonicus
Description Metabolic profiling of flavonoids in leaf, stem, flower of Lotus japonicus Miyakojima MG-20 and Gifu B-129.
Authors Hideyuki Suzuki 1, Ryosuke Sasaki 1, Yoshiyuki Ogata 1, Yukiko Nakamura 2 4, Nozomu Sakurai 1, Mariko Kitajima 3, Hiromitsu Takayama 3, Shigehiko Kanaya 2, Koh Aoki 1, Daisuke Shibata 1, Kazuki Saito 3, 1: Kazusa DNA Research Institute, 2: Nara Institute of Science and Technology, 3: hiba University, 4: Ehime Women’s College
Reference Phytochemistry, 2008, 69(1), 99-111
Comment Seed coats of L. japonicus were scratched by glass paper and fed water for 1 d. The seedlings were transferred to a mixture of vermiculite and a commercial soil, Powersoil (mix ratio 1.3–1, Kureha Chemical Ind., Tokyo, Japan, and Kanto Hiryou Ind., Saitama, Japan), and grown for 90–120 days (from March to June) in 2005, in a greenhouse under natural sunlight. From 7-day-old plants, cotyledons and hypocotyls were collected separately and served as leaf and stem samples, respectively. From 14-, 21-, 30-, 60, and 90-day-old plants, leaves and stems were collected. The tissues for one experimental replicate were collected from 12 independent plants for 7-, 14-, and 21-day-old stages, or from one independent plant for 30-, 60-, and 90-day-old stages.


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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).

http://pgdbj.jp/plantdb/plantinfo.html?ln=en&cmd=entry&ppid=t34305

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Sample Information

ID S02
Title Lotus japonicus B-129 leaf
Organism - Scientific Name Lotus japonicus
Organism - ID NCBI taxonomy:34305
Compound - ID
Compound - Source
Preparation
Sample Preparation Details ID SS1
Comment

Sample Preparation Details Information

ID SS1
Title Growth condition
Description Seed coats of L. japonicus were scratched by glass paper and fed water for 1 d. The seedlings were transferred to a mixture of vermiculite and a commercial soil, Powersoil (mix ratio 1.3–1, Kureha Chemical Ind., Tokyo, Japan, and Kanto Hiryou Ind., Saitama, Japan), and grown for 90–120 days (from March to June) in 2005, in a greenhouse under natural sunlight. From 7-day-old plants, cotyledons and hypocotyls were collected separately and served as leaf and stem samples, respectively. From 14-, 21-, 30-, 60, and 90-day-old plants, leaves and stems were collected. The tissues for one experimental replicate were collected from 12 independent plants for 7-, 14-, and 21-day-old stages, or from one independent plant for 30-, 60-, and 90-day-old stages.
Comment_of_details

Analytical Method Information

ID M01
Title LC-FTICR-MS, ESI Positive analysis
Method Details ID MS1
Sample Amount
Comment [MassBase ID] MDLC1_05067


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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 42% (0.0 to 45.0 min), 42 to 95% (45.0 to 45.1 min), 95% (45.1 to 50.0 min), 3% (50.1 to 57.0 min), Column temp.: 30 degree C, Flow rate=0.5mL/min, PDA: 200-650 nm (2 nm step). FT-ICR-MS conditions: Filter 1: FTMS + p norm !corona !pi o(200.0-1500.0);2: ITMS + p norm !corona !pi Dep MS/MS Most intense ion from (1). Rejected mass=249.00;266.00;271.50;294.00;391.00;609.00;810.50;1101.50;1105.50;1123.50;1139.50.
Comment_of_details MTLC0307

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 annotation of 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. 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.
Comment_of_details
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