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ProteomicsPacific Ocean metaproteomics, METZYME KM1128
Global metaproteomic analyses of microbial biomass from the upper water column of the Central Pacific Ocean. This dataset was used as a discovery dataset to identify peptide biomarkers for cyanobacterial populations for use in targeted metaproteomic calibrated multiple reaction monitoring (MRM) anal...
ORGANISM(S): environmental samples 
2019-02-12 | PXD009712 | Pride
Metaproteomics proteomics oceanography oceanic proteome 
ProteomicsDinoflagellates contribute to primary and secondary production across biogeochemical gradients of the central Pacific Ocean
In this study we explored the metabolism of unicellular eukaryotic organisms (protists) across a 4,600 km meridional transect in the central Pacific Ocean. The region contains a natural biogeochemical gradient spanning from low nitrogen, oligotrophic waters to a productive equatorial upwelling syste...
ORGANISM(S): phytoplankton environmental sample 
2020-09-18 | PXD014230 | Pride
Phytoplankton Pacific ocean Dinoflagellates 
ProteomicsPhotoacclimation and functional control of stolen organelles in Mesodinium rubrum by an enslaved nucleus
The enslavement of foreign organelles by protists for metabolic gain is a common phenomenon within aquatic ecosystems. Ciliates belonging to the Mesodinium rubrum species complex are unique in that they also steal a transcriptionally active prey nucleus, the kleptokaryon, from certain cryptophytes, ...
ORGANISM(S): Mesodinium rubrum 
2025-01-07 | PXD035728 | Pride
Lc-msms Marine ciliate Mesodinium rubrum Phototrophy 
ProteomicsTemperature (20-28ºC) and nutrient stress (N- and P-stress) on Synechococcus WH8102
Cultures of Synechococcus (WH8102) were grown in polycarbonate bottles with a continuous culturing method with an artificial seawater medium. The experimental design included two concentration ratios of macronutrients (NO3-:PO43- = 1.7 and 80) and 3 levels of temperature (20, 24 and 28°C). Light was...
ORGANISM(S): Bacteria Synechococcus sp. WH 8012 
2024-06-16 | PXD043180 | Pride
Synechococcus wh8102 Environmental Lcmsms 
ProteomicsProteomics analysis reveals differential acclimation of coastal and oceanic Synechococcus to climate warming and iron limitation
In many regions of the ocean, anthropogenic warming will coincide with iron (Fe) limitation. Interactive effects between warming and Fe limitation on phytoplankton physiology and biochemical function are likely, as temperature and Fe availability affect many of the same essential cellular pathways. ...
ORGANISM(S): Escherichia coli 
2025-09-29 | PXD045922 | Pride
Marine Iron limitation Synechococcus Lcms 
ProteomicsOcean warming enhances iron use efficiencies of marine ammonia-oxidizing archaea
Ammonia-oxidizing archaea (AOA) are among the most abundant microorganisms in the ocean, playing a fundamental role in the marine nitrogen cycle. Although key environmental variables such as temperature and trace metal availability are known to influence the growth and activity of marine AOA, there ...
ORGANISM(S): Nitrosopumilus maritimus SCM1 Archaea 
2026-09-14 | PXD049308 | Pride
Nitrosopumlus maritimus scm1 Aoa Ammonia oxidizing archaea Lcmsms 
ProteomicsDynamic metabolic efficiency of substrate utilization by copiotrophic marine bacteria
Under well-defined laboratory conditions, we grew R. pomeroyi DSS-3 and A. macleodii MIT1002 in batch cultures on a monosaccharide (glucose) and organic acid (acetate), provided either individually or in combination, and all at the same carbon equivalent. This batch culturing approach mimicked bacte...
ORGANISM(S): Alteromonas macleodii Ruegeria pomeroyi DSS-3 Bacteria 
2023-10-27 | PXD045824 | Pride
Alteromonas macleodii mit1002 Lcms Ruegeria pomeroyi dss-3 
ProteomicsFlexible B12 ecophysiology of Phaeocystis antarctica due to a B12-independent methionine synthase fusion protein with widespread homologues
Coastal Antarctic marine ecosystems play an important role in carbon cycling due to their highly productive seasonal phytoplankton blooms. Southern Ocean microbes are primarily limited by light and iron (Fe) and can be co-limited by cobalamin (vitamin B12 ). Micronutrient limitation is a key driver ...
ORGANISM(S): Phaeocystis antarctica 
2023-02-27 | PXD031524 | Pride
Lc-msms Vitamin b12 Phaeocystis antarctica Methionine synthase fusion protein 
ProteomicsExploration of Artificial Intelligence-Based Spectral Libraries for Data Independent Acquisition in Complex Ocean Metaproteomic Analyses
Ocean metaproteomics provides valuable insights into the structure and function of marine microbial communities. Yet, ocean samples are challenging due to their extensive biological diversity that results in a very large number of peptides with a large dynamic range. This study characterized the cap...
ORGANISM(S): environmental samples <bacteria Bacteria 
2025-09-29 | PXD057948 | Pride
Dda dia ocean metaproteomics proteomics 
ProteomicsInformatics Component: Results from a Multi-Laboratory Ocean Metaproteomic Intercomparison: Effects of LC-MS Acquisition and Data Analysis Procedures
Metaproteomics is an increasingly popular methodology that provides information regarding the metabolic functions of specific microbial taxa and can be used to assess environmental stressors and change and has potential for contributing to ocean ecology and biogeochemical studies. To enable future l...
ORGANISM(S): Bacteria Bacteria 
2024-05-30 | PXD044234 | Pride
Environmental Ocean Intercomparison Metaproteomics 
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