Metabolomic Analysis by LC-MS

LC-MS for metabolomic analysis was performed using an HPLC apparatus (Agilent) coupled to an LTQ Orbitrap XL-MS system (Thermo Fisher Scientific Inc., San Jose, CA, USA), equipped with an electrospray source in APCI positive-ion mode. The spray capillary temperature was 200°C. Scan event 1 was performed in full mass mode (analyzer; orbitrap), and scan events 2–5 were operated in MS/MS mode (analyzer; ion trap, act type; collision-induced dissociation, normalized collision energy: 35.0). The tomato extract was injected and analyzed by LC, using the same LC analysis program as that used for HPLC. The data were obtained using Xcalibur (Thermo Fisher Scientific Inc.), Compound Discoverer 2.1 (Thermo Fisher Scientific Inc.), and PowerGet software (Kazusa DNA Research Institute, Chiba, Japan) using previously described methods [31 (link)–33 (link)]. Compound Discoverer software and PowerGet software were linked to the metabolite databases (KEGG, ChemSpider, and PubChem).

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Mohri S., Takahashi H., Sakai M., Waki N., Takahashi S., Aizawa K., Suganuma H., Ara T., Sugawara T., Shibata D., Matsumura Y., Goto T, & Kawada T. (2022). Integration of bioassay and non-target metabolite analysis of tomato reveals that β-carotene and lycopene activate the adiponectin signaling pathway, including AMPK phosphorylation. PLoS ONE, 17(7), e0267248.

Publication 2022

HPLC apparatus Xcalibur Compound Discoverer 2.1

Capillary Hplc Ms ms Scan Tomato

Corresponding Organization : Kazusa DNA Research Institute

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Variable analysis

independent variables

HPLC apparatus (Agilent) coupled to an LTQ Orbitrap XL-MS system (Thermo Fisher Scientific Inc., San Jose, CA, USA)
Electrospray source in APCI positive-ion mode
Scan event 1 in full mass mode (analyzer; orbitrap)
Scan events 2–5 in MS/MS mode (analyzer; ion trap, act type; collision-induced dissociation, normalized collision energy: 35.0)

dependent variables

Metabolomic analysis

control variables

Spray capillary temperature of 200°C
The same LC analysis program as that used for HPLC

controls

No positive or negative controls were explicitly mentioned.

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