#METABOLOMICS WORKBENCH omkar123_20230420_161302 DATATRACK_ID:3875 STUDY_ID:ST002867 ANALYSIS_ID:AN004700 PROJECT_ID:PR001462 VERSION 1 CREATED_ON September 19, 2023, 11:06 am #PROJECT PR:PROJECT_TITLE Arabdiopsis Root VOCs PR:PROJECT_SUMMARY The rhizosphere is a unique niche surrounding plant roots, where soluble and PR:PROJECT_SUMMARY volatile molecules mediate signaling between plants and the associated PR:PROJECT_SUMMARY microbiota. The preferred lifestyle of soil microbes is in the form of biofilms. PR:PROJECT_SUMMARY However, little is known about whether root VOCs (rVOCs) can influence soil PR:PROJECT_SUMMARY biofilms beyond the 2-10 mm rhizosphere zone influenced by soluble root PR:PROJECT_SUMMARY exudates. Here, we report that rVOCs shift the microbiome composition and growth PR:PROJECT_SUMMARY dynamics of complex soil biofilms. This signaling is evolutionarily conserved PR:PROJECT_SUMMARY from ferns to higher plants, which suggests its coevolution. The defense PR:PROJECT_SUMMARY phytohormone methyl jasmonate (MeJA) is present in rVOCs and drives this PR:PROJECT_SUMMARY bioactivity at nanomolar levels within a few hours. PR:INSTITUTE National University of Singapore PR:LAST_NAME Kulkarni PR:FIRST_NAME Omkar PR:ADDRESS Dept of Biological Sciences,Metabolites Biology Lab,, Science drive 4,Block S1A PR:ADDRESS #06-03 PR:EMAIL omkar@u.nus.edu PR:PHONE 98668733 #STUDY ST:STUDY_TITLE Root VOCs of Arabidopsis thaliana and its mutants ST:STUDY_SUMMARY This study provides a comprehensive list of root VOCs detected from the ST:STUDY_SUMMARY rhizosphere of Arabidopsis thaliana and the mutants belonging to their ST:STUDY_SUMMARY biosynthetic pathways. ST:INSTITUTE National University of Singapore ST:LAST_NAME Kulkarni ST:FIRST_NAME Omkar ST:ADDRESS Dept of Biological Sciences,Metabolites Biology Lab,, Science drive 4,Block S1A ST:ADDRESS #06-03 ST:EMAIL omkar@u.nus.edu ST:PHONE 98668733 #SUBJECT SU:SUBJECT_TYPE Plant SU:SUBJECT_SPECIES Arabidopsis thaliana SU:TAXONOMY_ID 3702 #FACTORS #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Raw file names and additional sample data SUBJECT_SAMPLE_FACTORS - cyp83b1_1 Genotype:cyp83b1 RAW_FILE_NAME=cyp83b1_1.D SUBJECT_SAMPLE_FACTORS - cyp83b1_2 Genotype:cyp83b1 RAW_FILE_NAME=cyp83b1_2.D SUBJECT_SAMPLE_FACTORS - cyp83b1_3 Genotype:cyp83b1 RAW_FILE_NAME=cyp83b1_3.D SUBJECT_SAMPLE_FACTORS - fps1_1 Genotype:fps1 RAW_FILE_NAME=fps1_1.D SUBJECT_SAMPLE_FACTORS - fps1_2 Genotype:fps1 RAW_FILE_NAME=fps1_2.D SUBJECT_SAMPLE_FACTORS - fps1_3 Genotype:fps1 RAW_FILE_NAME=fps1_3.D SUBJECT_SAMPLE_FACTORS - fps2_1 Genotype:fps2 RAW_FILE_NAME=fps2_1.D SUBJECT_SAMPLE_FACTORS - fps2_2 Genotype:fps2 RAW_FILE_NAME=fps2_2.D SUBJECT_SAMPLE_FACTORS - fps2_3 Genotype:fps2 RAW_FILE_NAME=fps2_3.D SUBJECT_SAMPLE_FACTORS - ggpps_1 Genotype:ggpps RAW_FILE_NAME=ggpps_1.D SUBJECT_SAMPLE_FACTORS - ggpps_2 Genotype:ggpps RAW_FILE_NAME=ggpps_2.D SUBJECT_SAMPLE_FACTORS - ggpps_3 Genotype:ggpps RAW_FILE_NAME=ggpps_3.D SUBJECT_SAMPLE_FACTORS - gpps_1 Genotype:gpps RAW_FILE_NAME=gpps_1.D SUBJECT_SAMPLE_FACTORS - gpps_2 Genotype:gpps RAW_FILE_NAME=gpps_2.D SUBJECT_SAMPLE_FACTORS - gpps_3 Genotype:gpps RAW_FILE_NAME=gpps_3.D SUBJECT_SAMPLE_FACTORS - hpl_1 Genotype:hpl RAW_FILE_NAME=hpl_1.D SUBJECT_SAMPLE_FACTORS - hpl_2 Genotype:hpl RAW_FILE_NAME=hpl_2.D SUBJECT_SAMPLE_FACTORS - hpl_3 Genotype:hpl RAW_FILE_NAME=hpl_3.D SUBJECT_SAMPLE_FACTORS - lox1_1 Genotype:lox1 RAW_FILE_NAME=lox1_1.D SUBJECT_SAMPLE_FACTORS - lox1_2 Genotype:lox1 RAW_FILE_NAME=lox1_2.D SUBJECT_SAMPLE_FACTORS - lox1_3 Genotype:lox1 RAW_FILE_NAME=lox1_3.D SUBJECT_SAMPLE_FACTORS - pal1_1 Genotype:pal1 RAW_FILE_NAME=pal1_1.D SUBJECT_SAMPLE_FACTORS - pal1_2 Genotype:pal1 RAW_FILE_NAME=pal1_2.D SUBJECT_SAMPLE_FACTORS - pal1_3 Genotype:pal1 RAW_FILE_NAME=pal1_3.D SUBJECT_SAMPLE_FACTORS - soil_1 Genotype:soil RAW_FILE_NAME=soil_1.D SUBJECT_SAMPLE_FACTORS - soil_2 Genotype:soil RAW_FILE_NAME=soil_2.D SUBJECT_SAMPLE_FACTORS - tgg1_1 Genotype:tgg1 RAW_FILE_NAME=tgg1_1.D SUBJECT_SAMPLE_FACTORS - tgg1_2 Genotype:tgg1 RAW_FILE_NAME=tgg1_2.D SUBJECT_SAMPLE_FACTORS - tgg1_3 Genotype:tgg1 RAW_FILE_NAME=tgg1_3.D SUBJECT_SAMPLE_FACTORS - tgg2_1 Genotype:tgg2 RAW_FILE_NAME=tgg2_1.D SUBJECT_SAMPLE_FACTORS - tgg2_2 Genotype:tgg2 RAW_FILE_NAME=tgg2_2.D SUBJECT_SAMPLE_FACTORS - tgg2_3 Genotype:tgg2 RAW_FILE_NAME=tgg2_3.D SUBJECT_SAMPLE_FACTORS - Wt_1 Genotype:Wt RAW_FILE_NAME=Wt_1.D SUBJECT_SAMPLE_FACTORS - Wt_2 Genotype:Wt RAW_FILE_NAME=Wt_2.D SUBJECT_SAMPLE_FACTORS - Wt_3 Genotype:Wt RAW_FILE_NAME=Wt_3.D #COLLECTION CO:COLLECTION_SUMMARY Root VOCs and soil VOCs were trapped as described here (Schulz-Bohm, et al, CO:COLLECTION_SUMMARY 2018, "Calling from distance: attraction of soil bacteria by plant root CO:COLLECTION_SUMMARY volatiles", The ISME Journal, 12(5), pp.1252-1262.). Briefly, 1 Tenax cartridge CO:COLLECTION_SUMMARY was fitted into the side arms of the glass pots in such a way that their opening CO:COLLECTION_SUMMARY was exposed toward the plant roots/soil. The other arm received a constant CO:COLLECTION_SUMMARY airflow from an aerator. VOCs were sampled for 40 hours and immediately analyzed CO:COLLECTION_SUMMARY by thermal desorption-gas chromatography‒mass spectrometry. CO:SAMPLE_TYPE Plant #TREATMENT TR:TREATMENT_SUMMARY No specific treatment. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY After 40 hours of VOC trapping, Tenax cartridges were immediately subjected to SP:SAMPLEPREP_SUMMARY thermal desorption. #CHROMATOGRAPHY CH:CHROMATOGRAPHY_SUMMARY Chromatography GC column used was DB-FFAP, 60m length, 250um inner diameter, CH:CHROMATOGRAPHY_SUMMARY 0.25um film thickness) CH:CHROMATOGRAPHY_TYPE GC CH:INSTRUMENT_NAME Agilent 7890B CH:COLUMN_NAME Agilent DB-FFAP (60m x 250um, 0.25um) CH:SOLVENT_A NA CH:SOLVENT_B NA CH:FLOW_GRADIENT NA CH:FLOW_RATE NA CH:COLUMN_TEMPERATURE NA #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:INSTRUMENT_NAME Agilent 5977B MS:INSTRUMENT_TYPE QTOF MS:MS_TYPE EI MS:ION_MODE POSITIVE MS:MS_COMMENTS Analysis was performed using MassHunter Qualified software to extract and MS:MS_COMMENTS integrate peat spectra to profile the root volatiles from WT and mutant lines. MS:MS_COMMENTS The data from only soil was considered as the blank and was subtracted from the MS:MS_COMMENTS rVOCs data. Compounds were identified by using the library NIST 2020 (Agilent MS:MS_COMMENTS Technologies, Palo Alto, CA, USA) with minimum hit count of 65. The compounds MS:MS_COMMENTS that were found to be present in at least two biological replicates out of three MS:MS_COMMENTS were taken into consideration for further analysis. #MS_METABOLITE_DATA MS_METABOLITE_DATA:UNITS % relative peak abundance MS_METABOLITE_DATA_START Samples Wt_1 Wt_2 Wt_3 tgg1_1 tgg1_2 tgg1_3 tgg2_1 tgg2_2 tgg2_3 pal1_1 pal1_2 pal1_3 lox1_1 lox1_2 lox1_3 hpl_1 hpl_2 hpl_3 gpps_1 gpps_2 gpps_3 ggpps_1 ggpps_2 ggpps_3 fps1_1 fps1_2 fps1_3 fps2_1 fps2_2 fps2_3 cyp83b1_1 cyp83b1_2 cyp83b1_3 soil_1 soil_2 Factors Genotype:Wt Genotype:Wt Genotype:Wt Genotype:tgg1 Genotype:tgg1 Genotype:tgg1 Genotype:tgg2 Genotype:tgg2 Genotype:tgg2 Genotype:pal1 Genotype:pal1 Genotype:pal1 Genotype:lox1 Genotype:lox1 Genotype:lox1 Genotype:hpl Genotype:hpl Genotype:hpl Genotype:gpps Genotype:gpps Genotype:gpps Genotype:ggpps Genotype:ggpps Genotype:ggpps Genotype:fps1 Genotype:fps1 Genotype:fps1 Genotype:fps2 Genotype:fps2 Genotype:fps2 Genotype:cyp83b1 Genotype:cyp83b1 Genotype:cyp83b1 Genotype:soil Genotype:soil (4Z)-5-Methyl-4-undecene 0.028026025 0.022987098 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 (E)-3-pentacosene 0.100914478 0.053482838 0 0.464664385 0 0.313033615 0 0 0 0 0 0 0 0 0 0.148317806 0.188856322 0 0 0 0 0.041152901 0.193389865 0 0 0 0 0 4.636990806 0.093530869 0.117037267 0.079466595 0.734307455 0 0 1-Octanol 0.059227441 0.092808179 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6-oxabicyclo[3.1.0]hexane-2,4-diol 0.050403509 0.041579433 0.115199497 0 0 0 0 0 0 0 0 0 0 0 0 0.327915362 0.292637882 0 0 0 0 0 0.34941768 0.125385386 0.126436452 0 0.157032626 0 0 0 0 0 0 0 0 2-Nonen-1-ol, (Z)- 0.029154099 0 0.516859213 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1-Nonanol 0.059227441 0 0.101670318 0 0 0 0.111793552 0.059694601 0.294335109 0.116798981 1.553570475 0.216591396 0.299417296 0.136834554 0.068811757 0 0.282292865 0.045976289 1.416119057 0.701106396 0.379857398 0 0.859566496 0.236273274 0.090993613 0.906096292 0.177973465 0.672883216 0.368320856 0.118587883 0.345880774 0.136010363 0.489448518 0 0 Nonanoic acid 0.076609246 0.106034569 0 0.249904226 0.580368938 1.073023606 0 0 0 0 0 0 0.277121046 0.152920267 0.525911192 0.344480253 0.423645231 0.130749629 0 0 0 0.064491915 0.413916816 0.120665656 0 0 0 0 0 0 0 0 0 0 0 Propanoic acid 0 0.120832339 0.369385874 0.875081299 0.120118739 0 0 0 0 0 0 0 0.488087313 0.275633649 0.304375787 0 0.506773495 0.183190512 0 0 0 0 0.096095406 0.240749684 0 0 0 0 0 0 0 0 0 0 0 2-(2,2-dimethoxypropyl)-3-(methoxymethyl)oxepin-4,5-dicarboxylic acid dimethyl ester 0.12271267 0.05155766 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 Dibutyl phthalate 0.138993221 0 1.301560845 0 0 0 24.45754653 71.54554551 0.190361908 0 0 0 52.80465616 73.02316777 52.0500236 0 0 0 0 0 0 0 27.93196883 68.90017662 62.71059899 0 34.14943656 0 0 0 0 0 0 0 0 Glycerol tricaprylate 0.059796329 0 0.088567492 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.147799531 0.223366652 0.087127797 0 0 0 0 0 Propionic acid, 2-mercapto-, isopropyl ester, benzoate 0.03597711 0.077578736 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1-(Benzyloxy)-2-fluoro-2-phenyl-3-(p-toluenesulsulfonyloxy)propane 0.730439909 0 51.51165575 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2-Methyl-1-phenyl-1-propenylisocyanide 0.058494472 0 0.432482979 0.332300972 0.738250239 0 0.140379592 0.026837715 0 0 0 0 0.186284944 0 0.392248906 0.305665298 0.105915779 0 0 0.841507851 0.563704215 0 0 0 0.091534392 0 0.308113713 0.488548669 0.392868751 0.093437676 0 0.189043515 0.19304035 0 0 Hexadecane, 2,6,10,14-tetramethyl- 1.068746441 0.031713047 2.853119875 0 0 0 0 0 0 0 0 0 0 0 0 0.148907052 1.426694495 0 0 0 0 0.19748647 0.133055213 0 0.268348719 2.912126927 0.081361239 5.062555602 4.636990806 0 0.117037267 0 6.118109794 0 0 1-Ethylundecylbenzene 0.021565924 0.018010124 0 0 0.038589413 0.053291702 0 0 0 0 0 0 0.055687623 0.037270745 0 0 0.078605178 0.021916972 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1-methoxy-4-(1-methoxypropyl)benzene 0 0.015963485 0.055263107 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3-(4-methoxyphenyl)-4,4-dimethyl-3-hepta-1,6-dienol 0 0.222438796 0.07602477 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4-(methoxymethoxy)-1-pentyne 0.101247165 0.073432389 0 0 0 0 0.164160679 0 0.191556708 0 0.642465832 0.158024486 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 Quinuclidinium-methanesulfonate 2.13489855 0 0.183977377 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2-Hydroxy-1-[(2-hydroxy)phenyl]-1-propanone 0 0.007379757 0.017874377 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.011413232 0.046882262 0 0 0 0 0 0 0 0 0 Acetophenone 0.036462676 0 0.75079666 1.538127267 0 0.145090537 0 0 0 0 0 0 0.687312536 0.470065523 0 1.639509891 1.495625594 0.395430104 3.3685256 1.670092142 1.855073234 0 1.606076865 0.473853189 0.55731402 2.025998568 0 1.674330996 1.823409001 1.224616378 0 0 0 0 0 Methyl 2-O-Tosyl-.alpha.-D-xylopyranoside 0 0.045357715 0.076239713 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 MS_METABOLITE_DATA_END #METABOLITES METABOLITES_START metabolite_name PubChem ID (4Z)-5-Methyl-4-undecene 5364593 (E)-3-pentacosene NA 1-Octanol 957 6-oxabicyclo[3.1.0]hexane-2,4-diol 18506421 2-Nonen-1-ol, (Z)- 5365027 1-Nonanol 8914 Nonanoic acid 8158 Propanoic acid 1032 2-(2,2-dimethoxypropyl)-3-(methoxymethyl)oxepin-4,5-dicarboxylic acid dimethyl ester NA Dibutyl phthalate 3026 Glycerol tricaprylate 10850 Propionic acid, 2-mercapto-, isopropyl ester, benzoate NA 1-(Benzyloxy)-2-fluoro-2-phenyl-3-(p-toluenesulsulfonyloxy)propane NA 2-Methyl-1-phenyl-1-propenylisocyanide 85638800 Hexadecane, 2,6,10,14-tetramethyl- 73437587 1-Ethylundecylbenzene NA 1-methoxy-4-(1-methoxypropyl)benzene 4605200 3-(4-methoxyphenyl)-4,4-dimethyl-3-hepta-1,6-dienol NA 4-(methoxymethoxy)-1-pentyne NA Quinuclidinium-methanesulfonate NA 2-Hydroxy-1-[(2-hydroxy)phenyl]-1-propanone NA Acetophenone 7410 Methyl 2-O-Tosyl-.alpha.-D-xylopyranoside NA METABOLITES_END #END