Ehime HBFP - Tomato TGC

Ehime HBFP - Tomato TGC
Clustergrammer Heatmap
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QEPlus_WideWindowDIA_2020-01-22_14-59-08.sky.zip2020-01-231052932932,0681
QEPlus_NarrowWindowDIA_2020-01-22_15-07-40.sky.zip2020-01-231544844846,1311
Ludwig_Ecoli_PQP_Absolute_AQUA_Ribo_Seq_2018-05-03_14-04-22.sky.zip2020-01-223039723667
20150514_Plasma_remove_points_LKP_curated.sky.zip2020-01-1518848455912
LINCS_P100_DIA_Plate91_Broad.sky.zip2020-01-0990961922,76454
LINCS_P100_DIA_Plate91_Pweb.sky.zip2020-01-0990961922,76454
LINCS_P100_PRM_Plate18_annotated_minimized_2020-01-08_17-11-19.sky.zip2020-01-0890961921,53896
LINCS_GCP_Plate83_annotated_minimized_2020-01-06_14-56-50.sky.zip2020-01-06818116291458
LINCS_P100_PRM_PlateAD1_annotated_minimized_2019-12-20_18-30-35.sky.zip2019-12-2090961921,33296
PRM_7x5mix_A40010_QEHF_examples_v3.sky.zip2019-12-2017352506
Arbacia session 2 2019-09-17_10-05-34.sky.zip2019-12-1919501002006
Arbacia session 1 2019-09-18_07-49-30.sky.zip2019-12-1919501002009
LINCS_GCP_Plate70_annotated_minimized_metadataupdate_2019-12-16_17-22-40.sky.zip2019-12-16818116280285
LINCS_GCP_Plate72_annotated_minimized_2019-12-16_16-53-04.sky.zip2019-12-16818116280291
20191014_LRH_GW_lumos_wide_2019-12-12_13-31-06.sky.zip2019-12-121731,6261,6268,2534
20191014_LRH_GW_lumos_newiRT_2019-12-12_11-19-52.sky.zip2019-12-121691,4071,4077,0461
190208_MW_SaKi_phospho_trypsin_new_2019-04-05_14-00-47.sky.zip2019-12-11413141108
190830_MW_MiWr_p_LysC_pub.sky.zip2019-12-11111818
190830_MW_MiWr_p_trypsin_pub.sky.zip2019-12-111332418
190208_MW_SaKi_phospho_LysC_new_2019-04-05_11-39-07.sky.zip2019-12-11124328
LINCS_P100_DIA_Plate69_annotated_minimized_2019-12-11_10-54-09.sky.zip2019-12-1190961922,76296
LINCS_P100_DIA_Plate71c_annotated_minimized_2019-12-09_11-18-17.sky.zip2019-12-0990961922,75811
LINCS_GCP_Plate65_annotated_minimized_2019-10-17_15-57-42.sky.zip2019-11-22818116282496
LINCS_GCP_Plate63_annotated_minimized_2019-09-12_11-57-23.sky.zip2019-11-22818116288296
LINCS_GCP_Plate59_annotated_minimized_2019-09-26_16-33-28.sky.zip2019-11-22818116279095
LINCS_GCP_Plate34_annotated_minimized_2019-10-17_13-06-51.sky.zip2019-11-22606012051896
LINCS_P100_DIA_Plate65_annotated_minimized_2019-10-21_16-54-32.sky.zip2019-11-2290961921,58694
LINCS_P100_DIA_Plate63a_annotated_minimized_2019-11-14_15-28-26.sky.zip2019-11-2290961922,76494
LINCS_P100_DIA_Plate34_annotated_minimized_2019-08-30_17-25-21.sky.zip2019-11-22909619275296
20190712_Bx7_fuerPanorama_2019-09-05_13-44-07.sky.zip2019-11-192222613
20190712_Bx6_fuerPanorama_2019-09-05_13-55-41.sky.zip2019-11-192668713
LINCS_GCP_Plate85_annotated_minimized_2019-11-15_15-03-53.sky.zip2019-11-15818116284996
Mouse_ACE10Experiment_KB_2019-11-14_15-28-02.sky.zip2019-11-14387915654716
LINCS_P100_DIA_Plate63a_annotated_minimized_2019-11-14_15-28-26.sky.zip2019-11-1490961922,76494
EXP 1and2_SB4andSB8_ATF4_BZIPTAP_0620_2017_v5_fed only_v3_2019-11-03_18-45-34.sky.zip2019-11-032401,0211,11112,1670
20190204 hp02 borm5 borm8 isobutyryl_2019-11-01_18-06-43.sky.zip2019-11-013744456422
20190130 hp02 borm5 borm8 isobutyryl_2019-11-01_18-05-53.sky.zip2019-11-013138395812
LINCS_GCP_Plate86_annotated_minimized_2019-10-30_11-14-22.sky.zip2019-10-30818116289096
LINCS_P100_DIA_Plate84_annotated_minimized_2019-10-29_17-10-38.sky.zip2019-10-2990961922,76459
LINCS_P100_DIA_Plate18_annotated_minimized_2019-10-29_16-32-47.sky.zip2019-10-2990961923,33296
MRM_barley_quantification_tryptic_2019-05-16_10-27-32.sky.zip2019-10-291415156012
MRM_rye_quantification_tryptic_2019-05-16_14-19-39.sky.zip2019-10-291415156012
MRM_barley_quantification_chymotryptic_2019-05-16_10-30-55.sky.zip2019-10-293331212
MRM_rye_quantification_chymotryptic_2019-05-16_10-31-55.sky.zip2019-10-296662412
MRM_wheat_quantification_chymotryptic_2019-05-16_09-50-38.sky.zip2019-10-292223239218
MRM_wheat_quantification_tryptic_2019-05-16_09-27-20.sky.zip2019-10-2927333313218
LINCS_GCP_Plate89_annotated_minimized_2019-10-23_11-24-15.sky.zip2019-10-23818116288691
LINCS_P100_DIA_Plate65_annotated_minimized_2019-10-21_16-54-32.sky.zip2019-10-2190961921,58694
LINCS_P100_DIA_Plate89_annotated_minimized_2019-10-18_11-33-20.sky.zip2019-10-1890961922,76492
LINCS_GCP_Plate65_annotated_minimized_2019-10-17_15-57-42.sky.zip2019-10-17818116282496
LINCS_GCP_Plate34_annotated_minimized_2019-10-17_13-06-51.sky.zip2019-10-17606012051896
LINCS_GCP_Plate87_annotated_minimized_2019-10-16_17-59-07.sky.zip2019-10-16818116291096
LINCS_GCP_Plate84_annotated_minimized_2019-10-16_15-41-56.sky.zip2019-10-16818116289860
LINCS_GCP_Plate88_annotated_minimized_2019-10-16_11-37-48.sky.zip2019-10-16818116288896
LINCS_P100_DIA_Plate70_annotated_minimized_2019-10-11_15-25-03.sky.zip2019-10-1190961922,76496
20180420_effect1_final_2018-06-20_11-03-21.sky.zip2019-10-08173467180171
20180130_repeatability_final_2018-06-20_11-28-05.sky.zip2019-10-0817356918945
20190221_extended_repeatability_2019-02-26_15-38-15.sky.zip2019-10-0817356926749
20170913_screening_2018-11-02_11-21-25.sky.zip2019-10-0818434317519
20190312_ce-opt_2019-03-22_17-52-43.sky.zip2019-10-081945451752
20181106_prest_transitions_selection_2018-11-07_11-01-36.sky.zip2019-10-0829931241,1880
20190523_LOQ_2019-07-15_17-06-32.sky.zip2019-10-08143059161138
20190708_apoa1_2019-09-02_14-48-45.sky.zip2019-10-0817144245
LINCS_P100_DIA_Plate88_annotated_minimized_2019-10-04_12-15-13.sky.zip2019-10-0490961922,76489
2019-03-16 MinDMinE_2019-10-01_19-54-06.sky.zip2019-10-02311114821
2019-06-18 MinDMinE quant timecourse_2019-10-02_15-44-07.sky.zip2019-10-02311114836
extended model system with three peptides_2019-09-19_20-40-56.sky.zip2019-09-28130351056
TG2 PepQ_b-side_2019-09-19_20-03-21.sky.zip2019-09-28234401206
TG2 PepQ_a-side_2019-09-19_19-55-14.sky.zip2019-09-28234341026
TG2 PepQ in different ratios_2019-09-19_19-34-37.sky.zip2019-09-28222226612
LINCS_GCP_Plate59_annotated_minimized_2019-09-26_16-33-28.sky.zip2019-09-26818116279095
LINCS_GCP_Plate82_annotated_minimized_2019-09-23_11-24-24.sky.zip2019-09-23818116287496
LINCS_GCP_Plate63_annotated_minimized_2019-09-12_11-57-23.sky.zip2019-09-12818116288296
LINCS_GCP_Plate81_annotated_minimized_2019-09-11_09-07-54.sky.zip2019-09-11818116286694
20190312_CultureComponents.sky.zip2019-09-0530321545
20190315_iRT_GU_2019-03-15.sky.zip2019-09-05101069122
20190308_hPSCCM_NG.sky.zip2019-09-051104042,20151
20190314_hCMTissue_NG.sky.zip2019-09-05801085618
20190311_hPSCCM_OG.sky.zip2019-09-0530156551
LINCS_P100_DIA_Plate34_annotated_minimized_2019-08-30_17-25-21.sky.zip2019-08-30909619275296
LINCS_P100_DIA_Plate87_annotated_minimized_2019-08-29_17-30-16.sky.zip2019-08-2990961922,76494
Polyamines_Brain_2019-08-22_11-32-25.sky.zip2019-08-2210206094
Polyamines_1_X_2019-08-22_11-44-35.sky.zip2019-08-2210144355
DAG_Verification_2019-08-22_11-31-48.sky.zip2019-08-22104813
Biocrates_p180Quantification_UPLC_KJA_Manual_v3_1_x_052819_2019-08-22_11-30-44.sky.zip2019-08-2220717198
2018-01-18-Iso1-MouseUrine_scan - FINAL_2019-08-22_11-28-52.sky.zip2019-08-22110681126
Polyamines_Urine_1_X2_2019-08-22_12-08-36.sky.zip2019-08-2210103155
Polyamines_Urine_1_X2_2019-08-22_12-08-36.sky.zip2019-08-2210103155
Polyamines_1_X_2019-08-22_11-44-35.sky.zip2019-08-2210144355
Polyamines_Brain_2019-08-22_11-32-25.sky.zip2019-08-2210206094
DAG_Verification_2019-08-22_11-31-48.sky.zip2019-08-22104813
Biocrates_p180Quantification_UPLC_KJA_Manual_v3_1_x_052819_2019-08-22_11-30-44.sky.zip2019-08-2220717198
2018-01-18-Iso1-MouseUrine_scan - FINAL_2019-08-22_11-28-52.sky.zip2019-08-22110681126
Peptide stability on autosampler_2019-07-10_13-05-02.sky.zip2019-08-2124229759459436
Parallelism in DBS sampled from six individuals_2019-07-10_09-45-44.sky.zip2019-08-2121825951852048
Calibration_curves_2019-07-10_15-59-33.sky.zip2019-08-2122527054054242
Repeatability_at_LLOQ_2019-07-10_09-31-27.sky.zip2019-08-21249298596596308
LLOQ_2_of_3_2019-07-05_11-41-44.sky.zip2019-08-2113414028028026
LLOQ_3_of_3_2019-07-05_13-08-34.sky.zip2019-08-212424484826
protein_concentration_range_capillary_DBS_20_individuals_2019-07-12_11-02-47.sky.zip2019-08-2121325551051260
Quantitative assay of targeted proteome in trichome glandular cells using large-scale selected reaction monitoring strategy

  • Organism: Solanum lycopersicum
  • Instrument: QTRAP 5500
  • SpikeIn: No
  • Keywords: Tomato type VI trichome glandular cell
  • Lab head: Nobuaki Takemori
Abstract
Background: Glandular trichomes found in vascular plants are called natural cell factories because they synthesize and store secondary metabolites in the glandular cell. In order to systematically understand the metabolic processes in the glandular cells, it is indispensable to analyze the cellular proteome dynamics. The conventional proteomics methods based on mass spectrometry have been enabled large-scale protein analysis, but requires a large number of trichome samples for in-depth analysis and is not suitable for rapid and sensitive quantification of targeted proteins. Results: Here we present a high-throughput strategy for quantifying targeted proteins in a specific trichome glandular cell, using selected reaction monitoring (SRM) assay. SRM assay platform, targeting the proteins in tomato type VI trichome gland cells as a model study, demonstrated its effectiveness in multiple protein quantitation from a limited sample amount. A large-scale SRM assay developed using triple quadrupole mass spectrometer online connected to nanoflow liquid chromatography has enough capability to accurately measure the expression level of 221 targeted proteins contained in the glandular cell sample recovered from the 100 glandular trichomes within 120 minutes. Conclusions: Targeted proteomics approach using established SRM assays makes it possible to quantify the proteins of interest with minimum effort in the sampling. The remarkable success of the SRM assay developments by a simple experimental workflow will increase the plant biologist's accessibility to proteomics research for glandular trichome.
Experiment Description
The development of SRM assays was performedwith the Skyline software. The database search files from the ProteinPilot software (SCIEX) were used to build the MS spectral library containing only tryptic digested peptides (allowed one missed cleavage) with their confidence value > 0.9. The analysis of obtained SRM data was performed with Skyline. Endogenous peptide peaks in the acquired SRM chromatogram were selected manually based on chromatographic elution pattern and the dot product (dotp) value.
Sample Description
Tomato cultivar ‘Micro-Tom’ (S. lycopersicum L. cv. Microtom) was used for all the studies.
Created on 1/7/19, 9:05 PM