SE138:/S1/M2/D1

Sample Set Information

ID	TSE1239
Title	Effects of molybdenum deficiency and defects in molybdate transporter MOT1 on transcript accumulation and nitrogen/sulphur metabolism in Arabidopsis thaliana.
Description	Molybdenum (Mo) is a micronutrient essential for plant growth, as several key enzymes of plant metabolic pathways contain Mo cofactor in their catalytic centres. Mo-containing oxidoreductases include nitrate reductase, sulphite oxidase, xanthine dehydrogenase, and aldehyde oxidase. These are involved in nitrate assimilation, sulphite detoxification, purine metabolism or the synthesis of abscisic acid, auxin and glucosinolates in plants. To understand the effects of Mo deficiency and a mutation in a molybdate transporter, MOT1, on nitrogen and sulphur metabolism in Arabidopsis thaliana, transcript and metabolite profiling of the mutant lacking MOT1 was conducted in the presence or absence of Mo. Transcriptome analysis revealed that Mo deficiency had impacts on genes involved in metabolisms, transport, stress responses, and signal transductions. The transcript level of a nitrate reductase NR1 was highly induced under Mo deficiency in mot1-1. The metabolite profiles were analysed further by using gas chromatography time-of-flight mass spectrometry, capillary electrophoresis time-of-flight mass spectrometry, and ultra high performance liquid chromatography. The levels of amino acids, sugars, organic acids, and purine metabolites were altered significantly in the Mo-deficient plants. These results are the first investigation of the global effect of Mo nutrition and MOT1 on plant gene expressions and metabolism.
Authors	Ide Y, Kusano M, Oikawa A, Fukushima A, Tomatsu H, Saito K, Hirai MY, Fujiwara T.
Reference	J Exp Bot. 2011 Feb;62(4):1483-97. doi: 10.1093/jxb/erq345. Epub 2010 Dec 3.
Comment

PubMed

Sample Information

ID	S1
Title	Arabidopsis thaliana seeds
Organism - Scientific Name	Arabidopsis thaliana
Organism - ID	NCBI taxonomy 3702
Compound - ID
Compound - Source
Preparation	Arabidopsis thaliana wild-type, ecotype Col-0 (referred to hereafter as WT) and a T-DNA inserted mutant, mot1-1 (Tomatsu et al., 2007) were grown in Mo-deficient hydroponic solutions and the seeds from the Mo-deficient plants were used in this study. Seeds were surface-sterilized in 15% bleach for 10 min, washed five times with distilled water, and placed at 4 °C for 4 d. MGRL solutions (Fujiwara et al., 1992) were prepared without Mo (−Mo), and the Mo solution was added to 170 nM for the control (+Mo) media as described previously (Tomatsu et al., 2007). The media contain 7 mM nitrate and 1.5 mM sulphate. For the preparation of solid media, 1% sucrose and 1.2% gellan gum (Wako, Osaka, Japan) were added before autoclaving. Plants were grown for 18 d on the solid media at 22 °C under a 16/8 h light/dark cycle in the growth chambers (NK system LPH-220S, Nihon-ika Co., Ltd., Osaka, Japan) and harvested about 10 h after the beginning of the light period.
Sample Preparation Details ID
Comment

Analytical Method Information

ID	M2
Title	Non-targeted analysis of metabolites
Method Details ID	MS2
Sample Amount
Comment

Analytical Method Details Information

ID	MS2
Title	Non-targeted analysis of metabolites
Instrument	Pegasus 4D-C GC×GC-TOFMS
Instrument Type
Ionization	EI
Ion Mode	Positive
Description	Whole shoot samples were harvested (approximately 50–150 mg fresh weight) and frozen in liquid nitrogen. Each sample was extracted and analysed by gas chromatography time-of-flight mass spectrometry (GC-TOF/MS) as described previously (Kusano et al., 2007,a, b).
Comment_of_details

PubMed

doi: 10.1016/j.jchromb.2007.05.002

Data Analysis Information

ID	D1
Title	Non-targeted analysis of metabolites
Data Analysis Details ID	DS1
Recommended decimal places of m/z
Comment

Data Analysis Details Information

ID	DS1
Title	Non-targeted analysis of metabolites
Description	Orthogonal projections to latent structures–discriminant analysis (OPLS–DA) (Bylesjo et al., 2006; Trygg et al., 2007) were performed using SIMCA-P 12.0 software (Umetrics AB, Umea, Sweden). In each analysis, 10 biological replicates were used.
Comment_of_details