Summary of Study ST003560

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR002194. The data can be accessed directly via it's Project DOI: 10.21228/M81C1C This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST003560
Study TitlePoplar leaf bud resin metabolomics: Seasonal profiling of leaf bud chemistry in Populus trichocarpa provides insight into resin biosynthesis
Study SummaryTrees in the genus Populus synthesize sticky and fragrant resins to protect dormant leaf buds during winter. These resins contain diverse phenolic metabolites, in particular hydroxycinnamate esters and methylated flavonoids. P. trichocarpa leaf bud resin is characterized by methylated dihydrochalcone aglycones. To determine how the resin profile is influenced by seasonal changes, P. trichocarpa lateral leaf bud extracts and secreted surface resin were collected monthly over a one-year cycle. THE Chemical changes monitored using nontargeted metabolomics by UPLC-HRMS. The results indicate that the dihydrochalcone content changes over the seasons and that biosynthesis occurs concomitant with bud development in the summer months. Non-targeted metabolomics data confirmed a pattern of dramatic changes in the summer, and further suggested additional periods of substantive biochemical change in the resin. While overall patterns of surface-extracted resin matched that of whole bud extracts, some of the dynamics were shifted in the surface resin samples. This study provides the basis for the use of dihydrochalcones and other identified resin components as metabolic markers for more detailed investigations of resin biosynthesis, secretion and movement to the bud surface.
Institute
University of Victoria
Last NameConstabel
First NameC. Peter
Address3800 Finnerty Road | Victoria BC | V8P 5C2 Canada
Emailcpc@uvic.ca
Phone(250) 472-5140
Submit Date2024-10-27
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2024-12-02
Release Version1
C. Peter Constabel C. Peter Constabel
https://dx.doi.org/10.21228/M81C1C
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002194
Project DOI:doi: 10.21228/M81C1C
Project Title:Poplar leaf bud resin metabolomics: Seasonal profiling of leaf bud chemistry in Populus trichocarpa provides insight into resin biosynthesis
Project Summary:Trees in the genus Populus synthesize sticky and fragrant resins to protect dormant leaf buds during winter. These resins contain diverse phenolic metabolites, in particular hydroxycinnamate esters and methylated flavonoids. P. trichocarpa leaf bud resin is characterized by methylated dihydrochalcone aglycones. To determine how the resin profile is influenced by seasonal changes, P. trichocarpa lateral leaf bud extracts (Total_resin_positive_mode.txt) and secreted surface resin (Surface_resin_positive_mode.txt) were collected monthly over a one-year cycle. The dihydrochalcones in both sets of extracts were quantified using UPLC-MS and other chemical changes monitored using nontargeted metabolomics by UPLC-HRMS. The results indicate that the dihydrochalcone content changes over the seasons and that biosynthesis occurs concomitant with bud development in the summer months. Non-targeted metabolomics data confirmed a pattern of dramatic changes in the summer, and further suggested additional periods of substantive biochemical change in the resin. While overall patterns of surface-extracted resin matched that of whole bud extracts, some of the dynamics were shifted in the surface resin samples. This study provides the basis for the use of dihydrochalcones and other identified resin components as metabolic markers for more detailed investigations of resin biosynthesis, secretion and movement to the bud surface.
Institute:University of Victoria
Last Name:Constabel
First Name:C. Peter
Address:3800 Finnerty Road | Victoria BC | V8P 5C2 Canada
Email:cpc@uvic.ca
Phone:(250) 472-5140
Contributors:Piirtola, Eerik-Mikael (eerik.piirtola@ubc.ca, Phone: 604 690 0193)

Subject:

Subject ID:SU003689
Subject Type:Plant
Subject Species:Populus trichocarpa
Species Group:Plants

Factors:

Subject type: Plant; Subject species: Populus trichocarpa (Factor headings shown in green)

mb_sample_id local_sample_id Sample source Treatment
SA388728B5Blank Blank
SA388729B1_2Blank Blank
SA388730B6_2Blank Blank
SA388731B6Blank Blank
SA388732B5_2Blank Blank
SA388733B1Blank Blank
SA388734B4_2Blank Blank
SA388735B3_2Blank Blank
SA388736B3Blank Blank
SA388737B2_2Blank Blank
SA388738B2Blank Blank
SA388739B4Blank Blank
SA388740MeOH_027Blank Control
SA388741MeOH_021Blank Control
SA388742MeOH_022Blank Control
SA388743MeOH_023Blank Control
SA388744MeOH_024Blank Control
SA388745MeOH_025Blank Control
SA388746MeOH_026Blank Control
SA388747Reserpine_3Blank Control
SA388748Reserpine_1Blank Control
SA388749Reserpine_2Blank Control
SA388750MeOH_019Blank Control
SA388751Reserpine_4Blank Control
SA388752Reserpine_5Blank Control
SA388753Reserpine_7Blank Control
SA388754Standard_mix_5x_dil_POSBlank Control
SA388755MeOH_020Blank Control
SA388756Reserpine_6Blank Control
SA388757MeOH_018Blank Control
SA388758MeOH_008Blank Control
SA388759MeOH_001Blank Control
SA388760MeOH_017Blank Control
SA388761MeOH_004Blank Control
SA388762MeOH_005Blank Control
SA388763MeOH_006Blank Control
SA388764MeOH_007Blank Control
SA388765MeOH_003Blank Control
SA388766MeOH_009Blank Control
SA388767MeOH_014Blank Control
SA388768MeOH_016Blank Control
SA388769MeOH_015Blank Control
SA388770MeOH_010Blank Control
SA388771MeOH_002Blank Control
SA388772MeOH_012Blank Control
SA388773MeOH_011Blank Control
SA388774MeOH_013Blank Control
SA388775T3-S12-1Plant Sample
SA388776T3-S8-1Plant Sample
SA388777T3-S8-2Plant Sample
SA388778T3-S8-3Plant Sample
SA388779T3-S9-1Plant Sample
SA388780T3-S9-3Plant Sample
SA388781T3-S9-2Plant Sample
SA388782T3-S7-3Plant Sample
SA388783T3-S10-1Plant Sample
SA388784T3-S10-2Plant Sample
SA388785T3-S11-1Plant Sample
SA388786T3-S11-2Plant Sample
SA388787T3-S11-3Plant Sample
SA388788T3-S10-3Plant Sample
SA388789T3-S4-3Plant Sample
SA388790T3-S7-2Plant Sample
SA388791T3-S3-3Plant Sample
SA388792T3-S12-3Plant Sample
SA388793T3-S2-1Plant Sample
SA388794T3-S2-2Plant Sample
SA388795T3-S2-3Plant Sample
SA388796T3-S3-1Plant Sample
SA388797T3-S3-2Plant Sample
SA388798T3-S4-1Plant Sample
SA388799T3-S7-1Plant Sample
SA388800T3-S4-2Plant Sample
SA388801T3-S5-1Plant Sample
SA388802T3-S5-2Plant Sample
SA388803T3-S5-3Plant Sample
SA388804T3-S6-1Plant Sample
SA388805T3-S6-2Plant Sample
SA388806T3-S6-3Plant Sample
SA388807T3-S12-2Plant Sample
SA388808T2-S8Plant Sample
SA388809T1-S1Plant Sample
SA388810T3-S4Plant Sample
SA388811T2-S10Plant Sample
SA388812T2-S11Plant Sample
SA388813T2-S12Plant Sample
SA388814T3-S1Plant Sample
SA388815T3-S2Plant Sample
SA388816T3-S3Plant Sample
SA388817T3-S5Plant Sample
SA388818T3-S1-2Plant Sample
SA388819T3-S6Plant Sample
SA388820T3-S7Plant Sample
SA388821T3-S8Plant Sample
SA388822T3-S9Plant Sample
SA388823T3-S10Plant Sample
SA388824T3-S11Plant Sample
SA388825T3-S12Plant Sample
SA388826T2-S9Plant Sample
SA388827T2-S7Plant Sample
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Collection:

Collection ID:CO003682
Collection Summary:Poplar leaf bud samples of P. trichocarpa (Nisqually-1) were collected from the University of Victoria Research Compound (48°27’ N, -123°18’ W). Intact leaf buds of P. trichocarpa were collected every month (mid-month) for 12 months from three adjacent clonal trees (biological replicates). For leaf bud extraction, 10 lateral leaf buds were sampled from each biological replicate tree and frozen immediately in liquid nitrogen. For the collection of surface resin, three replicate sets of five similarly sized lateral leaf buds were collected from individual branches of each tree. Surface resin between May and July was collected from the entire leaf nodes, which included new buds as well as resinous expanding leaves, due to the very small size of the developing buds.
Sample Type:Plant

Treatment:

Treatment ID:TR003698
Treatment Summary:The surface resin extracts of P. trichocarpa leaf buds were collected by accurately weighing 0.5 g (fresh weight) of intact lateral leaf buds and submerging them in 0.1 mL of HPLC-grade methanol per 10 mg of sample. The leaf buds were stirred for 1 min, after which the supernatant was collected. The methanol extract was filtered using a 0.20 μm PTFE filter to remove any solid particles. The extract was dried by transferring 2 mL of methanol extract into pre-weighed Eppendorf tubes and evaporating the samples using an Eppendorf concentrator until dry. The dried samples were accurately weighed to determine the dry weight of the surface resin extracts. The dry extracts were stored at -20°C prior to the analysis. For whole bud extracts, harvested leaf buds were homogenized into a fine powder in liquid nitrogen using a ceramic mortar and pestle and stored at -80°C before extraction. The powder was accurately weighed to 40 mg (fresh weight) and 1 mL of methanol was added. Samples were vortexed, sonicated for 10 min in a sonicating water bath, and centrifuged for 10 min at 15000 rpm. The supernatant was collected, and the extraction was repeated on the remaining plant tissue pellet. Supernatants from both extractions were combined, and the pooled samples were dried using a SpeedVac for 2 h until dry. The dried extracts were stored at -20°C prior to analysis. For non-targeted analysis, nine extraction blanks without tissue were prepared using the same protocol.

Sample Preparation:

Sampleprep ID:SP003696
Sampleprep Summary:Whole leaf bud extracts were reconstituted in 1 mL of methanol. These samples were normalized by the fresh weight of the extracted whole buds. Surface resin samples were normalized by the extract dry weight and reconstituted to 100 μg/mL

Chromatography:

Chromatography ID:CH004443
Instrument Name:Thermo Ultimate 3000 UPLC
Column Name:Phenomenex Kinetex C18 (50 x 2.1mm, 1.7μm)
Column Temperature:30°C
Flow Gradient:1% B (0–0.5 min), 1–99% B (0.5–4.5 min), 99% B (4.5–8 min), 99-1% B (8–8.5 min), and 1% B (8.5–11.5 min)
Flow Rate:0.35 mL/min
Solvent A:100% Water; 0.1% formic acid
Solvent B:100% Acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN005851
Analysis Type:MS
Chromatography ID:CH004443
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003560_AN005851_Results.txt
Units:Peak Area
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