Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX
Geodia barretti is a deep-sea marine sponge common in the north Atlantic and waters outside of Norway and Sweden. The sampling and subsequent treatment as well as storage of sponges for metabolomics analyses can be performed in different ways, the most commonly used being freezing (directly upon col...
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ftsmithonian:oai:figshare.com:article/14562900 2023-05-15T17:37:14+02:00 Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX Ida Erngren (7328249) Eva Smit (4516408) Curt Pettersson (1716298) Paco Cárdenas (225124) Mikael Hedeland (5094098) 2021-05-10T04:15:10Z https://doi.org/10.3389/fchem.2021.662659.s001 unknown https://figshare.com/articles/dataset/Table1_The_Effects_of_Sampling_and_Storage_Conditions_on_the_Metabolite_Profile_of_the_Marine_Sponge_Geodia_barretti_DOCX/14562900 doi:10.3389/fchem.2021.662659.s001 CC BY 4.0 CC-BY Biochemistry Environmental Chemistry Geochemistry Organic Chemistry Inorganic Chemistry Nuclear Chemistry Medical Biochemistry: Proteins and Peptides (incl. Medical Proteomics) Medical Biochemistry and Metabolomics not elsewhere classified Food Chemistry and Molecular Gastronomy (excl. Wine) Analytical Biochemistry Cell Neurochemistry Enzymes Electroanalytical Chemistry Analytical Chemistry not elsewhere classified Organic Green Chemistry Physical Organic Chemistry Catalysis and Mechanisms of Reactions Environmental Chemistry (incl. Atmospheric Chemistry) metabolomics liquid chromatography–mass spectrometry sponge (porifera) Geodia barretti natural products sampling Dataset 2021 ftsmithonian https://doi.org/10.3389/fchem.2021.662659.s001 2021-05-21T15:18:58Z Geodia barretti is a deep-sea marine sponge common in the north Atlantic and waters outside of Norway and Sweden. The sampling and subsequent treatment as well as storage of sponges for metabolomics analyses can be performed in different ways, the most commonly used being freezing (directly upon collection or later) or by storage in solvent, commonly ethanol, followed by freeze-drying. In this study we therefore investigated different sampling protocols and their effects on the detected metabolite profiles in liquid chromatography-mass spectrometry (LC-MS) using an untargeted metabolomics approach. Sponges (G. barretti) were collected outside the Swedish west coast and pieces from three sponge specimens were either flash frozen in liquid nitrogen, frozen later after the collection cruise, stored in ethanol or stored in methanol. The storage solvents as well as the actual sponge pieces were analyzed, all samples were analyzed with hydrophilic interaction liquid chromatography as well as reversed phase liquid chromatography with high resolution mass spectrometry using full-scan in positive and negative ionization mode. The data were evaluated using multivariate data analysis. The highest metabolite intensities were found in the frozen samples (flash frozen and frozen after sampling cruise) as well as in the storage solvents (methanol and ethanol). Metabolites extracted from the sponge pieces that had been stored in solvent were found in very low intensity, since the majority of metabolites were extracted to the solvents to a high degree. The exception being larger peptides and some lipids. The lowest variation between replicates were found in the flash frozen samples. In conclusion, the preferred method for sampling of sponges for metabolomics was found to be immediate freezing in liquid nitrogen. However, freezing the sponge samples after some time proved to be a reliable method as well, albeit with higher variation between the replicates. The study highlights the importance of saving ethanol extracts after preservation of specimens for biology studies; these valuable extracts could be further used in studies of natural products, chemosystematics or metabolomics. Dataset North Atlantic Unknown Norway |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
ftsmithonian |
language |
unknown |
topic |
Biochemistry Environmental Chemistry Geochemistry Organic Chemistry Inorganic Chemistry Nuclear Chemistry Medical Biochemistry: Proteins and Peptides (incl. Medical Proteomics) Medical Biochemistry and Metabolomics not elsewhere classified Food Chemistry and Molecular Gastronomy (excl. Wine) Analytical Biochemistry Cell Neurochemistry Enzymes Electroanalytical Chemistry Analytical Chemistry not elsewhere classified Organic Green Chemistry Physical Organic Chemistry Catalysis and Mechanisms of Reactions Environmental Chemistry (incl. Atmospheric Chemistry) metabolomics liquid chromatography–mass spectrometry sponge (porifera) Geodia barretti natural products sampling |
spellingShingle |
Biochemistry Environmental Chemistry Geochemistry Organic Chemistry Inorganic Chemistry Nuclear Chemistry Medical Biochemistry: Proteins and Peptides (incl. Medical Proteomics) Medical Biochemistry and Metabolomics not elsewhere classified Food Chemistry and Molecular Gastronomy (excl. Wine) Analytical Biochemistry Cell Neurochemistry Enzymes Electroanalytical Chemistry Analytical Chemistry not elsewhere classified Organic Green Chemistry Physical Organic Chemistry Catalysis and Mechanisms of Reactions Environmental Chemistry (incl. Atmospheric Chemistry) metabolomics liquid chromatography–mass spectrometry sponge (porifera) Geodia barretti natural products sampling Ida Erngren (7328249) Eva Smit (4516408) Curt Pettersson (1716298) Paco Cárdenas (225124) Mikael Hedeland (5094098) Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
topic_facet |
Biochemistry Environmental Chemistry Geochemistry Organic Chemistry Inorganic Chemistry Nuclear Chemistry Medical Biochemistry: Proteins and Peptides (incl. Medical Proteomics) Medical Biochemistry and Metabolomics not elsewhere classified Food Chemistry and Molecular Gastronomy (excl. Wine) Analytical Biochemistry Cell Neurochemistry Enzymes Electroanalytical Chemistry Analytical Chemistry not elsewhere classified Organic Green Chemistry Physical Organic Chemistry Catalysis and Mechanisms of Reactions Environmental Chemistry (incl. Atmospheric Chemistry) metabolomics liquid chromatography–mass spectrometry sponge (porifera) Geodia barretti natural products sampling |
description |
Geodia barretti is a deep-sea marine sponge common in the north Atlantic and waters outside of Norway and Sweden. The sampling and subsequent treatment as well as storage of sponges for metabolomics analyses can be performed in different ways, the most commonly used being freezing (directly upon collection or later) or by storage in solvent, commonly ethanol, followed by freeze-drying. In this study we therefore investigated different sampling protocols and their effects on the detected metabolite profiles in liquid chromatography-mass spectrometry (LC-MS) using an untargeted metabolomics approach. Sponges (G. barretti) were collected outside the Swedish west coast and pieces from three sponge specimens were either flash frozen in liquid nitrogen, frozen later after the collection cruise, stored in ethanol or stored in methanol. The storage solvents as well as the actual sponge pieces were analyzed, all samples were analyzed with hydrophilic interaction liquid chromatography as well as reversed phase liquid chromatography with high resolution mass spectrometry using full-scan in positive and negative ionization mode. The data were evaluated using multivariate data analysis. The highest metabolite intensities were found in the frozen samples (flash frozen and frozen after sampling cruise) as well as in the storage solvents (methanol and ethanol). Metabolites extracted from the sponge pieces that had been stored in solvent were found in very low intensity, since the majority of metabolites were extracted to the solvents to a high degree. The exception being larger peptides and some lipids. The lowest variation between replicates were found in the flash frozen samples. In conclusion, the preferred method for sampling of sponges for metabolomics was found to be immediate freezing in liquid nitrogen. However, freezing the sponge samples after some time proved to be a reliable method as well, albeit with higher variation between the replicates. The study highlights the importance of saving ethanol extracts after preservation of specimens for biology studies; these valuable extracts could be further used in studies of natural products, chemosystematics or metabolomics. |
format |
Dataset |
author |
Ida Erngren (7328249) Eva Smit (4516408) Curt Pettersson (1716298) Paco Cárdenas (225124) Mikael Hedeland (5094098) |
author_facet |
Ida Erngren (7328249) Eva Smit (4516408) Curt Pettersson (1716298) Paco Cárdenas (225124) Mikael Hedeland (5094098) |
author_sort |
Ida Erngren (7328249) |
title |
Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
title_short |
Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
title_full |
Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
title_fullStr |
Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
title_full_unstemmed |
Table1_The Effects of Sampling and Storage Conditions on the Metabolite Profile of the Marine Sponge Geodia barretti.DOCX |
title_sort |
table1_the effects of sampling and storage conditions on the metabolite profile of the marine sponge geodia barretti.docx |
publishDate |
2021 |
url |
https://doi.org/10.3389/fchem.2021.662659.s001 |
geographic |
Norway |
geographic_facet |
Norway |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_relation |
https://figshare.com/articles/dataset/Table1_The_Effects_of_Sampling_and_Storage_Conditions_on_the_Metabolite_Profile_of_the_Marine_Sponge_Geodia_barretti_DOCX/14562900 doi:10.3389/fchem.2021.662659.s001 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fchem.2021.662659.s001 |
_version_ |
1766137037783564288 |