Summary of Study ST003781

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 PR002359. The data can be accessed directly via it's Project DOI: 10.21228/M8Q538 This work is supported by NIH grant, U2C- DK119886.

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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 IDST003781
Study TitleMetabolomics Study in Turbot on Susceptibility to Bacterial Infections
Study TypeMS quantitative analysis
Study SummaryIn the present study it was conducted an untargeted metabolome analysis of the head kidney, the primary hematopoietic tissue in fish, and the liver, the main metabolic organ, from two full-sibling turbot (Scophthalmus maximus) families that exhibit different susceptibility to the pathogenic bacterium Aeromonas salmonicida subsp. salmonicida. This Gram-negative bacterium is the etiologic agent of classical furunculosis, a widespread disease that poses severe challenges for the aquaculture of various salmonid species (Dallaire-Dufresne et al., 2014 [10.1016/j.vetmic.2013.06.025]), as well as for turbot (Toranzo and Barja, 1992 [Bull. Eur. Ass. Fish. Pathol. 12(5):147-149]; Pedersen and Larsen, 1996 [Bull. Eur. Ass. Fish. Pathol. 16, 129–133]), a species of considerable economic importance in both European and Chinese aquaculture (Fernández-González et al., 2023 [10.1111/raq.12747]). These metabolomics analyses allowed us to identify several metabolites potentially involved in resistance due to their differential abundance in the resistant family. Briefly, after minor manual quality filtering, 158 significant features were identified for all liver comparisons in positive mode and 32 in negative mode. Similarly, 185 significant features were retrieved for all head kidney comparisons in positive mode and 25 in negative mode after discarding high masses (≥800 Da). The identification of annotated features was performed using CEU Mass Mediator 3.0, followed by a comparison of the fragmentation patterns. Thus, a total of 18 features, with molecular weights ranging from 116 to 613 Da, were found to be annotated from all the significant features previously retrieved in the liver comparisons. Among them, various compounds related to amino acids and derivatives were identified, including L-gamma-glutamyl-L-cysteine, L-tyrosine, L-asparagine, gamma-L-glutamyl-L-2-aminobutyrate, S-adenosyl-L-methionine, and L-proline. Compounds related to nitrogenous bases such as guanosine monophosphate, uridine, hypoxanthine, cytidine monophosphate and its neuraminic derivative, adenylsuccinic acid, and adenine were also obtained. Among the significant features observed in the head kidney comparisons, there were annotated 11 with molecular weights ranging from 89 to 489 Da. They comprised various organic acids, including malic and succinic acids, as well as amino acids and derivatives, such as 5-L-glutamyl-taurine and L-glutamic acid.
Institute
Consejo Superior de Investigaciones Científicas
DepartmentInstitute of Aquaculture Torre de la Sal (IATS-CSIC)
Last NameFalco
First NameAlberto
AddressIATS-CSIC, Torre de la Sal sn, Ribera de Cabanes, Castellón, 12595, Spain
Emailalberto.falco@csic.es
Phone0034964187477
Submit Date2025-02-11
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2025-05-23
Release Version1
Alberto Falco Alberto Falco
https://dx.doi.org/10.21228/M8Q538
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR002359
Project DOI:doi: 10.21228/M8Q538
Project Title:Metabolic Therapies for the Treatment of Infectious Diseases in Farmed Fish (MetDisFish)
Project Type:MS quantitative analysis
Project Summary:To identify metabolic processes and/or metabolites that may influence greater or lesser resistance to infectious diseases in farmed fish, in order to design new metabolic therapies aimed at reducing the impact of these diseases in aquaculture.
Institute:Consejo Superior de Investigaciones Científicas
Department:Institute of Aquaculture Torre de la Sal (IATS-CSIC)
Last Name:Falco
First Name:Alberto
Address:Torre de la Sal sn, Ribera de Cabanes, Castellón, 12595, Spain
Email:alberto.falco@csic.es
Phone:0034964187477
Funding Source:The European Maritime, Fisheries and Aquaculture Fund (EMFAF) and the Ministry of Agriculture, Fisheries and Food (MAPA) [grant number MetDisFish]
Publications:https://doi.org/10.1016/j.aquaculture.2025.742721
Contributors:Patricia Pereiro, Alberto Falcó, Marta Fernández-Oliver, Rocío Paladea-Rojo, Raúl Bonet-García, José E. Yuste, Magalí Rey-Campos, Antonio Figueras, Ricardo Mallavia, Beatriz Novoa

Subject:

Subject ID:SU003915
Subject Type:Fish
Subject Species:Scophthalmus maximus
Taxonomy ID:52904

Factors:

Subject type: Fish; Subject species: Scophthalmus maximus (Factor headings shown in green)

mb_sample_id local_sample_id Sample source Treatment Genotype
SA41019816907Head kidney Control Resistant
SA41019916945Head kidney Control Resistant
SA41020016909Head kidney Control Resistant
SA41020116908Head kidney Control Resistant
SA41020216944Head kidney Control Resistant
SA41020316946Head kidney Control Resistant
SA41020416912Head kidney Control Susceptible
SA41020516910Head kidney Control Susceptible
SA41020616911Head kidney Control Susceptible
SA41020716949Head kidney Control Susceptible
SA41020816948Head kidney Control Susceptible
SA41020916947Head kidney Control Susceptible
SA41021016916Head kidney Infected Resistant
SA41021116915Head kidney Infected Resistant
SA41021216914Head kidney Infected Resistant
SA41021316951Head kidney Infected Resistant
SA41021416952Head kidney Infected Resistant
SA41021516953Head kidney Infected Resistant
SA41021616956Head kidney Infected Susceptible
SA41021716955Head kidney Infected Susceptible
SA41021816954Head kidney Infected Susceptible
SA41021916917Head kidney Infected Susceptible
SA41022016918Head kidney Infected Susceptible
SA41022116919Head kidney Infected Susceptible
SA41022216943Head kidney Solvent None
SA41022316906Head kidney Solvent None
SA41022416892Liver Control Resistant
SA41022516894Liver Control Resistant
SA41022616893Liver Control Resistant
SA41022716929Liver Control Resistant
SA41022816930Liver Control Resistant
SA41022916931Liver Control Resistant
SA41023016934Liver Control Susceptible
SA41023116933Liver Control Susceptible
SA41023216897Liver Control Susceptible
SA41023316896Liver Control Susceptible
SA41023416895Liver Control Susceptible
SA41023516932Liver Control Susceptible
SA41023616936Liver Infected Resistant
SA41023716938Liver Infected Resistant
SA41023816937Liver Infected Resistant
SA41023916899Liver Infected Resistant
SA41024016900Liver Infected Resistant
SA41024116901Liver Infected Resistant
SA41024216941Liver Infected Susceptible
SA41024316940Liver Infected Susceptible
SA41024416939Liver Infected Susceptible
SA41024516902Liver Infected Susceptible
SA41024616903Liver Infected Susceptible
SA41024716904Liver Infected Susceptible
SA41024816925Liver Solvent None
SA41024916891Liver Solvent None
Showing results 1 to 52 of 52

Collection:

Collection ID:CO003908
Collection Summary:Five full-sibling turbot families (initial body weight 8-9 g) of the exact same age (identified as 22035, 22037, 22038, 22039 and 22040) were used to evaluate their susceptibility to an A. salmonicida subsp. salmonicida intraperitoneal (i.p.) challenge (5.9 × 108 CFU/mL, volume 100 µL) as we previously described (Pereiro et al., 2024 [10.3389/fimmu.2024.1522666]). We found that family 22035 showed a significantly higher survival rate compared to the other four families, and being family 22039 the most susceptible to the bacteria, being considered as resistant and susceptible families, respectively (Pereiro et al., 2024 [10.3389/fimmu.2024.1522666]). At 24 hours post-infection (hpi) we took head kidney and liver samples from uninfected (inoculated with 100 µL of PBS) and infected fish belonging to each family (n=15) for metabolome analysis. The same quantity of tissue from 5 fish was pooled to obtain 3 biological replicates (5 fish/replicate). Four experimental groups per tissue were obtained and named as resistant control (RC), resistant infected (RI), susceptible control (SC) and susceptible infected (SI). The weight of each pool was determined and a volume of 4 µL of cold CHCl3:MeOH (20:30 v/v) per mg of tissue was added to each tube. The samples, maintained in ice, were disrupted with a potter-type homogenizer until completely disaggregated. Extracts were centrifuged (Eppendorf 5415R, Hamburg, Germany) for 20 min at 13,000 rpm and 4°C, and the supernatants containing both polar and non-polar metabolites were transferred to a clean tube and maintained at -80°C until untargeted metabolomics analysis.
Sample Type:Heart kidney, Liver

Treatment:

Treatment ID:TR003924
Treatment Summary:Aeromonas salmonicida subsp. salmonicida intraperitoneal (i.p.) challenge (5.9 × 108 CFU/mL, volume 100 µL) as we previously described (Pereiro et al., 2024 [10.3389/fimmu.2024.1522666]). Control fish were injected with 100 ul of PBS.

Sample Preparation:

Sampleprep ID:SP003921
Sampleprep Summary:The weight of each pool was determined and a volume of 4 µL of cold CHCl3:MeOH (20:30 v/v) per mg of tissue was added to each tube. The samples, maintained in ice, were disrupted with a potter-type homogenizer until completely disaggregated. Extracts were centrifuged (Eppendorf 5415R, Hamburg, Germany) for 20 min at 13,000 rpm and 4°C, and the supernatants containing both polar and non-polar metabolites were transferred to a clean tube and maintained at -80°C until untargeted metabolomics analysis.

Chromatography:

Chromatography ID:CH004710
Chromatography Summary:Separation was performed at 30°C using a reverse phase Poroshell 120 EC-C18 column (3.0 x 100 mm, 2.7 µm particle size) (Agilent Technologies, Waldbronn, Germany). The mobile phases consisted of acidified water (phase A) and acidified acetonitrile (phase B), both containing 0.1% v/v formic acid. The elution gradient was as follows: 1-18% B in 0-10 min, 18-38% B in 10-16 min, 38-95% B in 16-22 min, 95-1% B in 22-23 min and 1% B in 23-28.5 min. The flow rate was 0.4 mL/min, and 3 µL of the sample was injected using a flow-through needle (FTN) injection with a 15 µL needle. The sample compartment in the autosampler was maintained at 6°C.
Instrument Name:ACQUITY I-Class system
Column Name:Agilent InfinityLab Poroshell 120 EC-C18 (100 x 3mm,2.7um)
Column Temperature:30
Flow Gradient:All linear: 1-18% B in 0-10 min, 18-38% B in 10-16 min, 38-95% B in 16-22 min, 95-1% B in 22-23 min and 1% B in 23-28.5 min
Flow Rate:0.4 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:AN006209
Analysis Type:MS
Chromatography ID:CH004710
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003781_AN006209_Results.txt
Units:Intensity units
  
Analysis ID:AN006210
Analysis Type:MS
Chromatography ID:CH004710
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003781_AN006210_Results.txt
Units:Intensity units
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