Ontology highlight
ABSTRACT:
PROVIDER: PRJEB85950 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:This project presents field metaproteomics data from Trichodesmium colonies collected from the surface ocean. Most were collected from the tropical and subtropical Atlantic ocean, but there is also data from the long term Bermuda Atlantic Time Series and Hawaii Ocean Time Series. Trichodesmium is a globally important marine microbe and its growth and nitrogen fixation activity is limited by nutrient availability in the surface ocean. This dataset was generated to answer questions about limitations on Trichodesmium's growth and activity in the nature.
2020-05-08 | PXD016225 | Pride
Project description:When studying gene expression in microbe-animals symbioses collected in the field it is essential to quickly and efficiently preserve in situ symbiont and host gene expression patterns. One of the most commonly used sample preservation methods for samples targeted for proteomic analyses is flash freezing, however, liquid nitrogen or dry ice needed for flash freezing are often not available at remote field sites. We tested if RNAlater allows to preserve proteins in animal-microbe symbioses as efficiently as flash freezing and without introducing issues with downstream processing. We used the marine gutless oligochaete Olavius algarvensis as a model for testing. Olavius algarvensis lives in shallow water sediments off the coast of Elba, Italy. It has no digestive and excretory system and harbors five bacterial symbionts that fulfill its nutritional and waste recycling needs (Kleiner et al., 2012, PNAS 109(19):1173-82). We compared five RNAlater preserved and five flash frozen samples in terms of the number of identified proteins, abundances of individual proteins and potential biases against specific protein or taxonomic groups. Five worms were incubated in RNAlater for 24 hours. After incubation, RNAlater was removed and samples were stored at -80°C. The remaining five worms were preserved with liquid nitrogen and stored at -80 °C immediately after preservation.
2021-11-03 | PXD014591 | Pride
Project description:Over the last 60 years, marine natural products have had major economic and commercial importance. The development of a National Marine Biodiscovery Laboratory in Ireland (NMBLI), located at the Marine Institute (Oranmore), aims to strengthen Ireland’s capacity as research leaders in marine biotechnology and in particularly marine natural products chemistry. The NMBLI houses an Irish marine repository derived from marine macro-organisms collected in Irish coastal waters. The aim of this project is to collect organisms for the marine repository and identify samples of interest for chemical investigation. Other than the development of the laboratory at the marine institute (Oranmore) with the appropriate facilities and procedure to undertake biodiscovery research, the outcomes of this project are to identify bioactive marine natural products from Irish marine life.
2020-02-12 | MTBLS874 | MetaboLights
Project description:DDA non-targeted LC-MS/MS, PPL-SPE extracted marine organic matter. Positive Mode. Samples taken from during the Scripps Pier Diel Project 2022.
2022-07-21 | MSV000089942 | MassIVE
Project description:When studying gene expression in microbe-animals symbioses collected in the field it is essential to quickly and efficiently preserve in situ symbiont and host protein abundance patterns. One of the most commonly used sample preservation methods for samples targeted for proteomic analyses is flash freezing, however, liquid nitrogen or dry ice needed for flash freezing are often not available at remote field sites. We replicated our experiment from PXD014591 to test if RNAlater allows preserving proteins in animal-microbe symbioses as efficiently as flash freezing and without introducing issues with downstream processing. We used the marine gutless oligochaete Olavius algarvensis as a model for testing. Olavius algarvensis lives in shallow water sediments off the coast of Elba, Italy. It has no digestive and excretory system and harbors five bacterial symbionts that fulfill its nutritional and waste recycling needs (Kleiner et al., 2012, PNAS 109(19):1173-82). We compared six RNAlater preserved and eight flash frozen samples in terms of the number of identified proteins, abundances of individual proteins and potential biases against specific protein or taxonomic groups. Six worms were incubated in RNAlater for 24 hours. After incubation, RNAlater was removed and samples were stored at -80°C. Eight worms were directly flash frozen in liquid nitrogen and stored at -80 °C immediately after preservation.
2021-11-03 | PXD026631 | Pride