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| Autores principales: | , , , , , , , , |
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| Formato: | Dataset Open Access |
| Lenguaje: | en |
| Publicado: |
PANGAEA
2023
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| Materias: | |
| Acceso en línea: | https://doi.org/10.1594/PANGAEA.953906 |
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| _version_ | 1867169153790509056 |
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| author | Turner, Lucy M Madeira, Diana Ricevuto, Elena Massa Gallucci, Alexia Sommer, Ulf Viant, Mark R Dineshram, Ramadoss Gambi, Maria Cristina Calosi, Piero |
| author_facet | Turner, Lucy M Madeira, Diana Ricevuto, Elena Massa Gallucci, Alexia Sommer, Ulf Viant, Mark R Dineshram, Ramadoss Gambi, Maria Cristina Calosi, Piero |
| collection | Datos científicos de ciencias marinas y ambientales |
| contents | Platynereis spp. were collected via snorkelling or scuba from either inside (40°43′53″N, 13°57′47″E) or outside (40°43'33.33N, 13°57'36.38E and 40°44′48″N, 13°56′39″E) the carbon dioxide (CO2) vent on the island of Ischia (Italy) and used in a reciprocal transplant experiment. The effect of exposure to high or low partial pressures of CO2 (pCO2) conditions on the metabolome (metabolome, and lipidome) of worms from different pCO2 regimes was investigated to understand the effect of exposure to different pCO2 conditions on the cellular physiological response. This experiment was conducted between 04/09/2013 and 16/09/2013. The experiment was staggered during this time so all worms could be processed. After five days exposure to either low or high CO2 conditions worms were snap frozen in liquid nitrogen and shipped to the University of Birmingham for metabolomic analysis which was finalised on 21/01/2016. Metabolomic profiles of worms were characterised using a mass spectrometry approach. A standard mass spectrometry based metabolomics workflow was used to analyse both the polar and lipid extracts from the samples (Kirwan et al. 2014). Raw mass spectral data were processed using the SIM-stitching algorithm, using an in-house Matlab script. The data matrices were normalized using the PQN algorithm. Missing values were imputed using the KNN algorithm. The resulting data matrix was analysed using univariate statistics, described below. The same matrix was transformed using the generalised logarithm to stabilise the technical variance across the measured peaks prior to analysis using multivariate statistics. Signals were putatively annotated with empirical formulae calculated by the MIPack software (Weber et al. 2010), searching the KEGG (Kanehisa et al. 2012) and LipidMaps (Fahy et al. 2007) databases, and confirmed by performing calculations based on the original spectra in Xcalibur 2.0.7 (Thermo Fisher Scientific). |
| format | Dataset Open Access |
| id | pangaea_https___doi_org_10_1594_PANGAEA_953906 |
| institution | PANGAEA |
| language | en |
| publishDate | 2023 |
| publisher | PANGAEA |
| record_format | pangaea |
| spellingShingle | Metabolomic profiles of Platynereis spp. collected from inside and outside the CO2 vent (Ischia, Italy) and used in a reciprocal transplant experiment in September 2013 Turner, Lucy M Madeira, Diana Ricevuto, Elena Massa Gallucci, Alexia Sommer, Ulf Viant, Mark R Dineshram, Ramadoss Gambi, Maria Cristina Calosi, Piero ASSEMBLE_Plus; Association of European Marine Biological Laboratories Expanded; Binary Object; Binary Object (File Size); Castello_Aragonese_A1; Castello_Aragonese_A2; Castello_Aragonese_A3; Castello Aragonese; EXP; Experiment; File content; Punta_San_Pietro_C1; Punta_San_Pietro_C2; Punta_San_Pietro_C3; Punta San Pietro Platynereis spp. were collected via snorkelling or scuba from either inside (40°43′53″N, 13°57′47″E) or outside (40°43'33.33N, 13°57'36.38E and 40°44′48″N, 13°56′39″E) the carbon dioxide (CO2) vent on the island of Ischia (Italy) and used in a reciprocal transplant experiment. The effect of exposure to high or low partial pressures of CO2 (pCO2) conditions on the metabolome (metabolome, and lipidome) of worms from different pCO2 regimes was investigated to understand the effect of exposure to different pCO2 conditions on the cellular physiological response. This experiment was conducted between 04/09/2013 and 16/09/2013. The experiment was staggered during this time so all worms could be processed. After five days exposure to either low or high CO2 conditions worms were snap frozen in liquid nitrogen and shipped to the University of Birmingham for metabolomic analysis which was finalised on 21/01/2016. Metabolomic profiles of worms were characterised using a mass spectrometry approach. A standard mass spectrometry based metabolomics workflow was used to analyse both the polar and lipid extracts from the samples (Kirwan et al. 2014). Raw mass spectral data were processed using the SIM-stitching algorithm, using an in-house Matlab script. The data matrices were normalized using the PQN algorithm. Missing values were imputed using the KNN algorithm. The resulting data matrix was analysed using univariate statistics, described below. The same matrix was transformed using the generalised logarithm to stabilise the technical variance across the measured peaks prior to analysis using multivariate statistics. Signals were putatively annotated with empirical formulae calculated by the MIPack software (Weber et al. 2010), searching the KEGG (Kanehisa et al. 2012) and LipidMaps (Fahy et al. 2007) databases, and confirmed by performing calculations based on the original spectra in Xcalibur 2.0.7 (Thermo Fisher Scientific). |
| title | Metabolomic profiles of Platynereis spp. collected from inside and outside the CO2 vent (Ischia, Italy) and used in a reciprocal transplant experiment in September 2013 |
| topic | ASSEMBLE_Plus; Association of European Marine Biological Laboratories Expanded; Binary Object; Binary Object (File Size); Castello_Aragonese_A1; Castello_Aragonese_A2; Castello_Aragonese_A3; Castello Aragonese; EXP; Experiment; File content; Punta_San_Pietro_C1; Punta_San_Pietro_C2; Punta_San_Pietro_C3; Punta San Pietro |
| url | https://doi.org/10.1594/PANGAEA.953906 |