{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST002867","ANALYSIS_ID":"AN004700","VERSION":"1","CREATED_ON":"September 19, 2023, 11:06 am"},

"PROJECT":{"PROJECT_TITLE":"Arabdiopsis Root VOCs","PROJECT_SUMMARY":"The rhizosphere is a unique niche surrounding plant roots, where soluble and volatile molecules mediate signaling between plants and the associated microbiota. The preferred lifestyle of soil microbes is in the form of biofilms. However, little is known about whether root VOCs (rVOCs) can influence soil biofilms beyond the 2-10 mm rhizosphere zone influenced by soluble root exudates. Here, we report that rVOCs shift the microbiome composition and growth dynamics of complex soil biofilms. This signaling is evolutionarily conserved from ferns to higher plants, which suggests its coevolution. The defense phytohormone methyl jasmonate (MeJA) is present in rVOCs and drives this bioactivity at nanomolar levels within a few hours.","INSTITUTE":"National University of Singapore","LAST_NAME":"Kulkarni","FIRST_NAME":"Omkar","ADDRESS":"Dept of Biological Sciences,Metabolites Biology Lab,, Science drive 4,Block S1A #06-03","EMAIL":"omkar@u.nus.edu","PHONE":"98668733"},

"STUDY":{"STUDY_TITLE":"Root VOCs of Arabidopsis thaliana and its mutants","STUDY_SUMMARY":"This study provides a comprehensive list of root VOCs detected from the rhizosphere of Arabidopsis thaliana and the mutants belonging to their biosynthetic pathways.","INSTITUTE":"National University of Singapore","LAST_NAME":"Kulkarni","FIRST_NAME":"Omkar","ADDRESS":"Dept of Biological Sciences,Metabolites Biology Lab,, Science drive 4,Block S1A #06-03","EMAIL":"omkar@u.nus.edu","PHONE":"98668733"},

"SUBJECT":{"SUBJECT_TYPE":"Plant","SUBJECT_SPECIES":"Arabidopsis thaliana","TAXONOMY_ID":"3702"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"cyp83b1_1",
"Factors":{"Genotype":"cyp83b1"},
"Additional sample data":{"RAW_FILE_NAME":"cyp83b1_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"cyp83b1_2",
"Factors":{"Genotype":"cyp83b1"},
"Additional sample data":{"RAW_FILE_NAME":"cyp83b1_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"cyp83b1_3",
"Factors":{"Genotype":"cyp83b1"},
"Additional sample data":{"RAW_FILE_NAME":"cyp83b1_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps1_1",
"Factors":{"Genotype":"fps1"},
"Additional sample data":{"RAW_FILE_NAME":"fps1_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps1_2",
"Factors":{"Genotype":"fps1"},
"Additional sample data":{"RAW_FILE_NAME":"fps1_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps1_3",
"Factors":{"Genotype":"fps1"},
"Additional sample data":{"RAW_FILE_NAME":"fps1_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps2_1",
"Factors":{"Genotype":"fps2"},
"Additional sample data":{"RAW_FILE_NAME":"fps2_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps2_2",
"Factors":{"Genotype":"fps2"},
"Additional sample data":{"RAW_FILE_NAME":"fps2_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"fps2_3",
"Factors":{"Genotype":"fps2"},
"Additional sample data":{"RAW_FILE_NAME":"fps2_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"ggpps_1",
"Factors":{"Genotype":"ggpps"},
"Additional sample data":{"RAW_FILE_NAME":"ggpps_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"ggpps_2",
"Factors":{"Genotype":"ggpps"},
"Additional sample data":{"RAW_FILE_NAME":"ggpps_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"ggpps_3",
"Factors":{"Genotype":"ggpps"},
"Additional sample data":{"RAW_FILE_NAME":"ggpps_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"gpps_1",
"Factors":{"Genotype":"gpps"},
"Additional sample data":{"RAW_FILE_NAME":"gpps_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"gpps_2",
"Factors":{"Genotype":"gpps"},
"Additional sample data":{"RAW_FILE_NAME":"gpps_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"gpps_3",
"Factors":{"Genotype":"gpps"},
"Additional sample data":{"RAW_FILE_NAME":"gpps_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"hpl_1",
"Factors":{"Genotype":"hpl"},
"Additional sample data":{"RAW_FILE_NAME":"hpl_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"hpl_2",
"Factors":{"Genotype":"hpl"},
"Additional sample data":{"RAW_FILE_NAME":"hpl_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"hpl_3",
"Factors":{"Genotype":"hpl"},
"Additional sample data":{"RAW_FILE_NAME":"hpl_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"lox1_1",
"Factors":{"Genotype":"lox1"},
"Additional sample data":{"RAW_FILE_NAME":"lox1_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"lox1_2",
"Factors":{"Genotype":"lox1"},
"Additional sample data":{"RAW_FILE_NAME":"lox1_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"lox1_3",
"Factors":{"Genotype":"lox1"},
"Additional sample data":{"RAW_FILE_NAME":"lox1_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"pal1_1",
"Factors":{"Genotype":"pal1"},
"Additional sample data":{"RAW_FILE_NAME":"pal1_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"pal1_2",
"Factors":{"Genotype":"pal1"},
"Additional sample data":{"RAW_FILE_NAME":"pal1_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"pal1_3",
"Factors":{"Genotype":"pal1"},
"Additional sample data":{"RAW_FILE_NAME":"pal1_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"soil_1",
"Factors":{"Genotype":"soil"},
"Additional sample data":{"RAW_FILE_NAME":"soil_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"soil_2",
"Factors":{"Genotype":"soil"},
"Additional sample data":{"RAW_FILE_NAME":"soil_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg1_1",
"Factors":{"Genotype":"tgg1"},
"Additional sample data":{"RAW_FILE_NAME":"tgg1_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg1_2",
"Factors":{"Genotype":"tgg1"},
"Additional sample data":{"RAW_FILE_NAME":"tgg1_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg1_3",
"Factors":{"Genotype":"tgg1"},
"Additional sample data":{"RAW_FILE_NAME":"tgg1_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg2_1",
"Factors":{"Genotype":"tgg2"},
"Additional sample data":{"RAW_FILE_NAME":"tgg2_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg2_2",
"Factors":{"Genotype":"tgg2"},
"Additional sample data":{"RAW_FILE_NAME":"tgg2_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"tgg2_3",
"Factors":{"Genotype":"tgg2"},
"Additional sample data":{"RAW_FILE_NAME":"tgg2_3.D"}
},
{
"Subject ID":"-",
"Sample ID":"Wt_1",
"Factors":{"Genotype":"Wt"},
"Additional sample data":{"RAW_FILE_NAME":"Wt_1.D"}
},
{
"Subject ID":"-",
"Sample ID":"Wt_2",
"Factors":{"Genotype":"Wt"},
"Additional sample data":{"RAW_FILE_NAME":"Wt_2.D"}
},
{
"Subject ID":"-",
"Sample ID":"Wt_3",
"Factors":{"Genotype":"Wt"},
"Additional sample data":{"RAW_FILE_NAME":"Wt_3.D"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"Root VOCs and soil VOCs were trapped as described here (Schulz-Bohm, et al, 2018, Calling from distance: attraction of soil bacteria by plant root volatiles, The ISME Journal, 12(5), pp.1252-1262.). Briefly, 1 Tenax cartridge was fitted into the side arms of the glass pots in such a way that their opening was exposed toward the plant roots/soil. The other arm received a constant airflow from an aerator. VOCs were sampled for 40 hours and immediately analyzed by thermal desorption-gas chromatography‒mass spectrometry.","SAMPLE_TYPE":"Plant"},

"TREATMENT":{"TREATMENT_SUMMARY":"No specific treatment."},

"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"After 40 hours of VOC trapping, Tenax cartridges were immediately subjected to thermal desorption."},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_SUMMARY":"Chromatography GC column used was DB-FFAP, 60m length, 250um inner diameter, 0.25um film thickness)","CHROMATOGRAPHY_TYPE":"GC","INSTRUMENT_NAME":"Agilent 7890B","COLUMN_NAME":"Agilent DB-FFAP (60m x 250um, 0.25um)","SOLVENT_A":"NA","SOLVENT_B":"NA","FLOW_GRADIENT":"NA","FLOW_RATE":"NA","COLUMN_TEMPERATURE":"NA"},

"ANALYSIS":{"ANALYSIS_TYPE":"MS"},

"MS":{"INSTRUMENT_NAME":"Agilent 5977B","INSTRUMENT_TYPE":"QTOF","MS_TYPE":"EI","ION_MODE":"POSITIVE","MS_COMMENTS":"Analysis was performed using MassHunter Qualified software to extract and integrate peat spectra to profile the root volatiles from WT and mutant lines. The data from only soil was considered as the blank and was subtracted from the rVOCs data. Compounds were identified by using the library NIST 2020 (Agilent Technologies, Palo Alto, CA, USA) with minimum hit count of 65. The compounds that were found to be present in at least two biological replicates out of three were taken into consideration for further analysis."},

"MS_METABOLITE_DATA":{
"Units":"% relative peak abundance",

"Data":[{"Metabolite":"(4Z)-5-Methyl-4-undecene","Wt_1":"0.028026025","Wt_2":"0.022987098","Wt_3":"0","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0","hpl_2":"0","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0","ggpps_3":"0","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"(E)-3-pentacosene","Wt_1":"0.100914478","Wt_2":"0.053482838","Wt_3":"0","tgg1_1":"0.464664385","tgg1_2":"0","tgg1_3":"0.313033615","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0.148317806","hpl_2":"0.188856322","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0.041152901","ggpps_2":"0.193389865","ggpps_3":"0","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"4.636990806","fps2_3":"0.093530869","cyp83b1_1":"0.117037267","cyp83b1_2":"0.079466595","cyp83b1_3":"0.734307455","soil_1":"0","soil_2":"0"},{"Metabolite":"1-Octanol","Wt_1":"0.059227441","Wt_2":"0.092808179","Wt_3":"0","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0","hpl_2":"0","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0","ggpps_3":"0","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"6-oxabicyclo[3.1.0]hexane-2,4-diol","Wt_1":"0.050403509","Wt_2":"0.041579433","Wt_3":"0.115199497","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0.327915362","hpl_2":"0.292637882","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0.34941768","ggpps_3":"0.125385386","fps1_1":"0.126436452","fps1_2":"0","fps1_3":"0.157032626","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"2-Nonen-1-ol, (Z)-","Wt_1":"0.029154099","Wt_2":"0","Wt_3":"0.516859213","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0","hpl_2":"0","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0","ggpps_3":"0","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"1-Nonanol","Wt_1":"0.059227441","Wt_2":"0","Wt_3":"0.101670318","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0.111793552","tgg2_2":"0.059694601","tgg2_3":"0.294335109","pal1_1":"0.116798981","pal1_2":"1.553570475","pal1_3":"0.216591396","lox1_1":"0.299417296","lox1_2":"0.136834554","lox1_3":"0.068811757","hpl_1":"0","hpl_2":"0.282292865","hpl_3":"0.045976289","gpps_1":"1.416119057","gpps_2":"0.701106396","gpps_3":"0.379857398","ggpps_1":"0","ggpps_2":"0.859566496","ggpps_3":"0.236273274","fps1_1":"0.090993613","fps1_2":"0.906096292","fps1_3":"0.177973465","fps2_1":"0.672883216","fps2_2":"0.368320856","fps2_3":"0.118587883","cyp83b1_1":"0.345880774","cyp83b1_2":"0.136010363","cyp83b1_3":"0.489448518","soil_1":"0","soil_2":"0"},{"Metabolite":"Nonanoic acid","Wt_1":"0.076609246","Wt_2":"0.106034569","Wt_3":"0","tgg1_1":"0.249904226","tgg1_2":"0.580368938","tgg1_3":"1.073023606","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0.277121046","lox1_2":"0.152920267","lox1_3":"0.525911192","hpl_1":"0.344480253","hpl_2":"0.423645231","hpl_3":"0.130749629","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0.064491915","ggpps_2":"0.413916816","ggpps_3":"0.120665656","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"Propanoic acid","Wt_1":"0","Wt_2":"0.120832339","Wt_3":"0.369385874","tgg1_1":"0.875081299","tgg1_2":"0.120118739","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0.488087313","lox1_2":"0.275633649","lox1_3":"0.304375787","hpl_1":"0","hpl_2":"0.506773495","hpl_3":"0.183190512","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0.096095406","ggpps_3":"0.240749684","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"2-(2,2-dimethoxypropyl)-3-(methoxymethyl)oxepin-4,5-dicarboxylic acid dimethyl ester","Wt_1":"0.12271267","Wt_2":"0.05155766","Wt_3":"0","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"0","tgg2_2":"0","tgg2_3":"0","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"0","lox1_2":"0","lox1_3":"0","hpl_1":"0","hpl_2":"0","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"0","ggpps_3":"0","fps1_1":"0","fps1_2":"0","fps1_3":"0","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"Dibutyl phthalate","Wt_1":"0.138993221","Wt_2":"0","Wt_3":"1.301560845","tgg1_1":"0","tgg1_2":"0","tgg1_3":"0","tgg2_1":"24.45754653","tgg2_2":"71.54554551","tgg2_3":"0.190361908","pal1_1":"0","pal1_2":"0","pal1_3":"0","lox1_1":"52.80465616","lox1_2":"73.02316777","lox1_3":"52.0500236","hpl_1":"0","hpl_2":"0","hpl_3":"0","gpps_1":"0","gpps_2":"0","gpps_3":"0","ggpps_1":"0","ggpps_2":"27.93196883","ggpps_3":"68.90017662","fps1_1":"62.71059899","fps1_2":"0","fps1_3":"34.14943656","fps2_1":"0","fps2_2":"0","fps2_3":"0","cyp83b1_1":"0","cyp83b1_2":"0","cyp83b1_3":"0","soil_1":"0","soil_2":"0"},{"Metabolite":"Glycerol 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}