Summary of Study ST001854

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 PR001169. The data can be accessed directly via it's Project DOI: 10.21228/M8M40V This work is supported by NIH grant, U2C- DK119886.

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Study IDST001854
Study TitleMetabolic profiling of Rafflesia-infected Tetrastigma and applications for propagation
Study SummaryEndemic to the forests of Southeast Asia, Rafflesia (Rafflesiaceae) is a genus of holoparasitic plants producing the largest flowers in the world, yet completely dependent on its host, the tropical grape vine, Tetrastigma. Rafflesia species are threatened with extinction, making them an iconic symbol of plant conservation. Thus far, propagation has proved challenging, greatly decreasing efficacy of conservation efforts. This study compared the metabolites in the shoots of Rafflesia-infected and non-infected Tetrastigma loheri to examine how Rafflesia infection affects host metabolomics and elucidate the Rafflesia infection process. Results from LC-MS-based untargeted metabolomics analysis showed benzylisoquinoline alkaloids were significantly elevated in non-infected shoots and are here reported for the first time in the genus Tetrastigma, and in the grape family, Vitaceae. These metabolites have been implicated in plant defense mechanisms and may prevent a Rafflesia infection. In Rafflesia-infected shoots, oxygenated fatty acids, or oxylipins, and a flavonoid, previously shown involved in plant immune response, were abundant. This study provides a preliminary assessment of metabolites that differ between Rafflesia-infected and non-infected Tetrastigma hosts and may have applications in Rafflesia propagation to meet conservation goals.
Institute
Long Island University
Last NameMolina
First NameJeanmaire
Address1 University Plaza
Emailjeanmaire.molina@liu.edu
Phone8482037353
Submit Date2021-06-26
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2021-07-03
Release Version1
Jeanmaire Molina Jeanmaire Molina
https://dx.doi.org/10.21228/M8M40V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001169
Project DOI:doi: 10.21228/M8M40V
Project Title:Metabolic profiling of Rafflesia-infected Tetrastigma and applications for propagation
Project Summary:Endemic to the forests of Southeast Asia, Rafflesia (Rafflesiaceae) is a genus of holoparasitic plants producing the largest flowers in the world, yet completely dependent on its host, the tropical grape vine, Tetrastigma. Rafflesia species are threatened with extinction, making them an iconic symbol of plant conservation. Thus far, propagation has proved challenging, greatly decreasing efficacy of conservation efforts. This study compared the metabolites in the shoots of Rafflesia-infected and non-infected Tetrastigma loheri to examine how Rafflesia infection affects host metabolomics and elucidate the Rafflesia infection process. Results from LC-MS-based untargeted metabolomics analysis showed benzylisoquinoline alkaloids were significantly elevated in non-infected shoots and are here reported for the first time in the genus Tetrastigma, and in the grape family, Vitaceae. These metabolites have been implicated in plant defense mechanisms and may prevent a Rafflesia infection. In Rafflesia-infected shoots, oxygenated fatty acids, or oxylipins, and a flavonoid, previously shown involved in plant immune response, were abundant. This study provides a preliminary assessment of metabolites that differ between Rafflesia-infected and non-infected Tetrastigma hosts and may have applications in Rafflesia propagation to meet conservation goals.
Institute:Long Island University
Last Name:Molina
First Name:Jeanmaire
Address:1 University Plaza
Email:jeanmaire.molina@liu.edu
Phone:7182466410

Subject:

Subject ID:SU001931
Subject Type:Plant
Subject Species:Tetrastigma loheri
Taxonomy ID:1006131

Factors:

Subject type: Plant; Subject species: Tetrastigma loheri (Factor headings shown in green)

mb_sample_id local_sample_id factor
SA174209Sample_14A_Jean_LIU_GB5_01_3547Infected
SA174210Sample_16A_Jean_LIU_GB4_01_3545Infected
SA174211Sample_16A_Jeanmaire_LIU_GA7_01_2912Infected
SA174212Sample_16A_Jean_LIU_GB4_01_3543Infected
SA174213Sample_14A_Jean_LIU_GB5_01_3548Infected
SA174214Sample_18A_Jean_LIU_GB3_01_3540Non-infected
SA174215Sample_12A_Jeanmaire_LIU_GA6_01_2911Non-infected
SA174216Sample_12A_Jean_LIU_GB6_01_3536Non-infected
SA174217Sample_18A_Jean_LIU_GB3_01_3534Non-infected
Showing results 1 to 9 of 9

Collection:

Collection ID:CO001924
Collection Summary:Cuttings of Rafflesia lagascae-infected Tetrastigma loheri Gagnep. and non-infected shoots were collected from San Lorenzo Ruiz Municipality, Mt. Guinatungan, Camarines Norte, Philippines. The non-infected cuttings were taken from sufficiently mature woody host vines that did not have any visible sign of Rafflesia infection (i.e. Rafflesia floral buds/scars absent), but mature enough that they could presumably support an infection since Rafflesia has never been observed to infect juvenile vines. Sections within ca. 5 cm of a Rafflesia bud, as well as comparable sections from non-infected cuttings, were subjected to LC-MS experiments.
Sample Type:Plant

Treatment:

Treatment ID:TR001943
Treatment Summary:Sections within ca. 5 cm of a Rafflesia bud (i.e. infected), as well as comparable sections from non-infected cuttings, were subjected to LC-MS experiments.

Sample Preparation:

Sampleprep ID:SP001937
Sampleprep Summary:Samples were first extracted in methanol (25 mg ground in 700 µL methanol). The extracts were evaporated to dryness under a gentle stream of nitrogen. Samples were prepared for injection by reconstituting in 0.3 mL of 1:1 MeOH/water.

Combined analysis:

Analysis ID AN003005
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Scientific Ultimate-3000 UHPLC system
Column Agilent Acclaim 120 C18-column (2.1 mm x 100 mm, 5 µm)
MS Type ESI
MS instrument type QTOF
MS instrument name Bruker Daltonics maXis-II UHR-ESI-QqTOF
Ion Mode POSITIVE
Units ion intensity

Chromatography:

Chromatography ID:CH002228
Instrument Name:Thermo Scientific Ultimate-3000 UHPLC system
Column Name:Agilent Acclaim 120 C18-column (2.1 mm x 100 mm, 5 µm)
Chromatography Type:Reversed phase

MS:

MS ID:MS002794
Analysis ID:AN003005
Instrument Name:Bruker Daltonics maXis-II UHR-ESI-QqTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Raw data were analyzed by using the online version of XCMS metabolomics software (version 1.10.9; Tautenhahn et al. 2012). To analyze the data in XCMS, we applied a pairwise comparison between infected and non-infected samples with default parameters for Bruker Q-TOF. After XCMS analysis, the difference reports were filtered. The features from XCMS with p-value < 0.05, intensities above 50000, and fold difference of at least 5, were analyzed further in Bruker Compass Data Analysis v4.3 and Metfrag Web (Ruttkies et al. 2016; https://msbi.ipb-halle.de/MetFragBeta/) to identify metabolites of interest. The neutral molecular formula of the precursor ions (desired features) and their MS/MS fragmentation spectra were then obtained in Bruker Compass Data Analysis and given as input in the MS/MS peak list in Metfrag. All other settings were kept at default values. Candidate metabolites were then retrieved with the highest scoring candidates subjected to additional analysis in CFM-ID (Allen et al. 2014; http://cfmid.wishartlab.com/) to confirm Metfrag candidates. Metfrag and CFM-ID are silico fragmentation tools that utilize known compounds from structure databases to calculate fragments that are matched to experimentally obtained spectra (Blaženović et al. 2018). In addition to these automated approaches, we have also performed a manual dereplication approach to verify the metabolites of interest, as described in previous publications (Gödecke et al. 2009; Nikolić et al. 2012; Nikolić et al. 2015; Nikolic et al. 2017).
Ion Mode:POSITIVE
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