Researcher

Ramiro Ernesto Logares

Ecology of Marine Microbes · ICM
LOG-Lab: Microbial Ecology and Evolution (Logares Lab) · ICM

Biography

I am a computational ecologist and evolutionary biologist specializing in the microbial world, with expertise in molecular biology, multiomics and bioinformatics. I completed my PhD at Lund University (Sweden), and then pursued postdoctoral research at Uppsala University (Sweden) and the Institute of Marine Sciences in Barcelona. After a Ramón y Cajal tenure-track grant, I moved into a permanent position at the ICM-CSIC in 2019. I lead the LOG-Lab, which I established in 2015.

Our research focuses on understanding the structuring, evolution and dynamics of natural microbial communities and populations, disentangling the network of microbial interactions in ecosystems, and linking the gene content of genomes, communities and their variation with ecological function and evolutionary processes.

Since 2006 I have authored more than 100 scientific articles and book chapters, and I have been PI of 12 projects. Since 2010 I have taught postgraduate bioinformatics courses at the University of Oslo. I was instrumental in establishing the Marbits eco-informatics platform at the ICM-CSIC, which I now coordinate. I am ambassador for Spain at the International Society for Microbial Ecology (ISME) and associate editor of The ISME Journal.

Profile

Institution	ICM
Position	Científico Titular (CSIC), head of the LOG-Lab, Institut de Ciències del Mar (ICM-CSIC)
Home page	https://log-lab.barcelona/teams/ramiro-logares/
Contact email	logares@icm.csic.es
ORCID	0000-0002-8213-0604

BCB Hub

BCB Committee	Not a member
BCB Tools	Environmentally-Driven Edge Detection Program (ENDED)
BCB Services

Research

Research topics

Metabolic modellingMolecular evolutionPopulation genomicsNetwork BiologySingle-cell omicsMicrobial communitiesMetagenomicsMetatranscriptomicsMarine Systems

Research lines

Projects, networks, transfer & teaching

Funded projects 11

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Publications 153 entries

Seasonal population structure and adaptive signatures across long-term marine microbial time series Preprint · 28 Sep 2026
Decadal signatures of seasonal and ENSO-driven selection in microbial populations in distant oceans Preprint · 15 Sep 2026
Dynamic interaction balance control of relative abundances buffers community instability Preprint · 9 Sep 2026
A global genomic survey of prokaryotic carbon fixation reveals an oxygen-tolerant rTCA cycle in the surface ocean Preprint · 3 Sep 2026
Microbial Communities, Resistome Risk and Nitrogen Metabolism‐Related Genes in Particle‐Attached and Free‐Living Microbial Fractions of Yunnan‐Guizhou Plateau Lakes Article · Sep 2026

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Machine learning predictions for microbial eukaryotic plankton: implications from unevenly structured data Article · 23 Jul 2026
Global population structure in MAST-4 unicellular marine predators Article · 9 Jul 2026
The natural history of bacterial bloomers in a decade-long time series Preprint · 1 Jul 2026
Linking Protistan Trophic Indicators to Phylogenetic Identity: From Single‐Cell Grazing Evidence to Biogeographic Context Article · Jul 2026
Microbial fingerprinting of marine water masses in an Antarctic and hydrographically complex area Article · 23 May 2026
Machine learning-driven mapping of prokaryotic community diversity in the Mediterranean Sea using omics, earth observation, and model data Article · May 2026
Single-cell sequencing reveals genome streamlining and functional diversity in ecologically dominant marine protists Preprint · 21 Apr 2026
Microbial generalists and specialists in permafrost demonstrate disparate responses to extreme environments Article · Feb 2026
Functional complementarity between vitamin B1 and B12 metabolisms shapes seasonal marine microbial communities Article · Jan 2026
Unifying microorganisms and macrograzers in intertidal rocky shore ecological networks Article · Jan 2026
Ecological Processes Shaping Marine Microbial Assemblages Diverge Between Equatorial and Temperate Time‐Series Article · Jan 2026
Global geography outweighs long-term dynamics in shaping marine microbial population structure Preprint · 23 Dec 2025
Unexpected microbial rhodopsin dynamics in sync with phytoplankton blooms Article · 19 Dec 2025
The Basque Coast Estuarine Sediment Gene Catalogue Article · 4 Dec 2025
A cascade of localized transitions drives system-wide microbial collapse Preprint · 1 Nov 2025
Microbiome composition and function vary with depth in the Mediterranean gorgonian Eunicella singularis Preprint · 18 Oct 2025
Complex interplay between the microalgae and their microbiome in production raceways Article · Sep 2025
Functional redundancy enables emergent metabolic dynamics in marine microbiomes Preprint · 15 Aug 2025
Metagenomic-based network analysis reveals the importance of vitamin cross-feeding in marine microbial assemblages Preprint · 8 Aug 2025
Omics to Study and Manage Aquatic Environments: A Snapshot From the A qua E c O mics Meeting (Evian‐les‐Bains, 2025) Article · 23 Jul 2025
Microbial functional diversity and redundancy: moving forward Article · 17 Dec 2024
Ecological processes shaping highly connected bacterial communities along strong environmental gradients Article · 30 Oct 2024
Insight into the coupling process of antibiotic resistance gene dissemination and nitrogen retention across various fractions in Plateau lakes Preprint · 25 Oct 2024
Time Series Data Provide Insights into the Evolution and Abundance of One of the Most Abundant Viruses in the Marine Virosphere: The Uncultured Pelagiphages vSAG 37-F6 Article · 24 Oct 2024
Cold-water coral mortality under ocean warming is associated with pathogenic bacteria Article · 16 Oct 2024
Global distribution, diversity, and ecological niche of Picozoa, a widespread and enigmatic marine protist lineage Article · 4 Sep 2024
Assessing patterns of metazoans in the global ocean using environmental DNA Article · Aug 2024
Cracking the dynamic code of the deep: Unexpected seasonal patterns of active protistan-bacterial microbiomes in the mesopelagic zone of the South China Sea Article · Jul 2024
A fungi hotspot deep in the ocean: explaining the presence of Gjaerumia minor in equatorial Pacific bathypelagic waters Article · 8 May 2024
Decoding populations in the ocean microbiome Article · 1 Apr 2024
Microbial community and network responses across strong environmental gradients: How do they compare with macroorganisms? Article · 7 Feb 2024
Marine picoplankton metagenomes and MAGs from eleven vertical profiles obtained by the Malaspina Expedition Article · 1 Feb 2024
Disentangling microbial networks across pelagic zones in the tropical and subtropical global ocean Article · 2 Jan 2024
The active free-living bathypelagic microbiome is largely dominated by rare surface taxa Article · 1 Jan 2024
Increased prokaryotic diversity in the Red Sea deep scattering layer Article · 14 Dec 2023
Functional redundancy of seasonal vitamin B 12 biosynthesis pathways in coastal marine microbial communities Article · 30 Nov 2023
Global biogeography of the smallest plankton across ocean depths Article · 10 Nov 2023
18S rDNA gene metabarcoding of microeukaryotes and epi‐endophytes in the holobiome of seven species of large brown algae Article · 19 Sep 2023
Core taxa drive microeukaryotic community stability of a deep subtropical reservoir after complete mixing Article · 9 Sep 2023
Linking extreme seasonality and gene expression in Arctic marine protists Article · 5 Sep 2023
Inter-comparison of marine microbiome sampling protocols Article · 19 Aug 2023
Assembly processes and functional diversity of marine protists and their rare biosphere Article · 13 Jul 2023
From the Sunlit to the Aphotic Zone: Assembly Mechanisms and Co-Occurrence Patterns of Protistan-Bacterial Microbiotas in the Western Pacific Ocean Article · 27 Apr 2023
A ubiquitous gammaproteobacterial clade dominates expression of sulfur oxidation genes across the mesopelagic ocean Article · 24 Apr 2023
Disentangling temporal associations in marine microbial networks Article · 21 Apr 2023
Tracking contemporary microbial evolution in a changing ocean Article · Apr 2023
Seasonality of biogeochemically relevant microbial genes in a coastal ocean microbiome Article · 28 Mar 2023
Diversity of eukaryotic and prokaryotic microbiota revealed by metabarcoding in Neotropical floodplain lakes Article · 2023
Role of Bacterial Community Composition as a Driver of the Small-Sized Phytoplankton Community Structure in a Productive Coastal System Article · 28 Oct 2022
Does filter pore size introduce bias in DNA sequence-based plankton community studies? Article · 26 Sep 2022
Hidden interactions in the intertidal rocky shore: variation in pedal mucus microbiota among marine grazers that feed on epilithic biofilm communities Article · 23 Sep 2022
Shared and contrasting associations in the dynamic nano‐ and picoplankton communities of two close but contrasting sites from the Bay of Biscay Article · 24 Aug 2022
Global beta diversity patterns of microbial communities in the surface and deep ocean Article · 11 Aug 2022
Novel Interactions Between Phytoplankton and Bacteria Shape Microbial Seasonal Dynamics in Coastal Ocean Waters Article · 22 Jul 2022
Long-term patterns of an interconnected core marine microbiota Article · 7 May 2022
Novel bacterial group potentially dominates sulfur cycling in the dark ocean Preprint · 20 Apr 2022
Phylogenetically and functionally diverse microorganisms reside under the Ross Ice Shelf Article · 10 Jan 2022
The ocean we want: inclusive and transformative ocean science Other · Dec 2021
Disentangling environmental effects in microbial association networks Software · 26 Nov 2021
Microbial population genomes from the Amazon River reveal possible modulation of the organic matter degradation process in tropical freshwaters Article · 26 Oct 2021
Recent advances in environmental DNA‐based biodiversity assessment and conservation Article · 28 Sep 2021
Microbial eukaryote assemblages and potential novel diversity in four tropical East African Great Lakes Article · 2 Aug 2021
Seasonal niche differentiation among closely related marine bacteria Article · 20 Jul 2021
Niche adaptation promoted the evolutionary diversification of tiny ocean predators Article · 21 Jun 2021
Low shifts in salinity determined assembly processes and network stability of microeukaryotic plankton communities in a subtropical urban reservoir Article · 3 Jun 2021
A global overview of the trophic structure within microbiomes across ecosystems Article · Jun 2021
Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities Article · 21 May 2021
Elucidating the diversity of microeukaryotes and epi-endophytes in the brown algal holobiome Preprint · 10 May 2021
Comparative genomics reveals new functional insights in uncultured MAST species Article · 15 Jan 2021
Uncovering the genomic potential of the Amazon River microbiome to degrade rainforest organic matter Article · 30 Oct 2020
Bacterioplankton dynamics driven by interannual and spatial variation in diatom and dinoflagellate spring bloom communities in the Baltic Sea Article · Oct 2020
Single Cell Genomics Reveals Viruses Consumed by Marine Protists Article · 24 Sep 2020
Perspectives from Ten Years of Protist Studies by High‐Throughput Metabarcoding Article · 2 Jul 2020
Linking microbial genomes with their potential to degrade terrestrial organic matter in the Amazon River Preprint · 1 Jun 2020
Disentangling the mechanisms shaping the surface ocean microbiota Article · 20 Apr 2020
Tracing the Origin of Planktonic Protists in an Ancient Lake Article · 9 Apr 2020
Response of pico-nano-eukaryotes to inorganic and organic nutrient additions Article · Apr 2020
The planktonic protist interactome: where do we stand after a century of research? Article · 4 Nov 2019
Marked changes in diversity and relative activity of picoeukaryotes with depth in the world ocean Article · 23 Oct 2019
Assessing the viral content of uncultured picoeukaryotes in the global‐ocean by single cell genomics Article · Sep 2019
Important contribution of macroalgae to oceanic carbon sequestration Article · 5 Aug 2019
Diversity patterns of planktonic microeukaryote communities in tropical floodplain lakes based on 18S rDNA gene sequences Article · 31 May 2019
Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems Article · 15 Apr 2019
Primer Design for an Accurate View of Picocyanobacterial Community Structure by Using High-Throughput Sequencing Article · Apr 2019
Higher contribution of globally rare bacterial taxa reflects environmental transitions across the surface ocean Article · Apr 2019
Impact of grazing, resource availability and light on prokaryotic growth and diversity in the oligotrophic surface global ocean Article · 20 Mar 2019
Summer comes to the Southern Ocean: how phytoplankton shape bacterioplankton communities far into the deep dark sea Article · Mar 2019
Quantifying long‐term recurrence in planktonic microbial eukaryotes Article · 4 Feb 2019
Microzooplankton distribution in the Amundsen Sea Polynya (Antarctica) during an extensive Phaeocystis antarctica bloom Article · Jan 2019
Ecology of Rare Microorganisms Book / chapter · 2019
Diatom diversity through HTS-metabarcoding in coastal European seas Article · 24 Dec 2018
Protist Diversity and Seasonal Dynamics in Skagerrak Plankton Communities as Revealed by Metabarcoding and Microscopy Article · 29 Nov 2018
Seasonal succession of small planktonic eukaryotes inhabiting surface waters of a coastal upwelling system Article · Aug 2018
Different processes shape prokaryotic and picoeukaryotic assemblages in the sunlit ocean microbiome Preprint · 23 Jul 2018
Sinking particles promote vertical connectivity in the ocean microbiome Article · 2 Jul 2018
Delineating closely related dinoflagellate lineages using phylotranscriptomics Article · 13 Jun 2018
Contrasting prevalence of selection and drift in the community structuring of bacteria and microbial eukaryotes Article · Jun 2018
Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans Article · 22 Jan 2018
Large-scale ocean connectivity and planktonic body size Article · 10 Jan 2018
Quantifying long-term predictability in microbial plankton dynamics Preprint · 21 Dec 2017
The roles of geographic distance and socioeconomic factors on international collaboration among ecologists Article · 19 Sep 2017
Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition Article · 1 Aug 2017
Habitat diversification promotes environmental selection in planktonic prokaryotes and ecological drift in microbial eukaryotes Preprint · 9 Jul 2017
Mixing of water masses caused by a drifting iceberg affects bacterial activity, community composition and substrate utilization capability in the Southern Ocean Article · 26 May 2017
Exploring the oceanic microeukaryotic interactome with metaomics approaches Article · 28 Mar 2017
Seasonal patterns in Arctic prasinophytes and inferred ecology of Bathycoccus unveiled in an Arctic winter metagenome Article · 7 Mar 2017
Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells Article · 27 Jan 2017
Abundant and rare picoeukaryotic sub‐communities present contrasting patterns in the epipelagic waters of marginal seas in the northwestern P acific O cean Article · Jan 2017
Planktonic protistan communities in lakes along a large-scale environmental gradient Article · 7 Nov 2016
Environmental Sequencing Provides Reasonable Estimates of the Relative Abundance of Specific Picoeukaryotes Article · Aug 2016
Probing the Rare Biosphere of the North-West Mediterranean Sea: An Experiment with High Sequencing Effort Article · 21 Jul 2016
Restructuring of the sponge microbiome favors tolerance to ocean acidification Article · 30 Jun 2016
Benthic protists: the under-charted majority Article · 5 Jun 2016
A carbon budget for the Amundsen Sea Polynya, Antarctica: Estimating net community production and export in a highly productive polar ecosystem Article · 1 Jan 2016
Rarity in aquatic microbes: placing protists on the map Article · Dec 2015
Weak Coherence in Abundance Patterns Between Bacterial Classes and Their Constituent OTUs Along a Regulated River Article · 26 Nov 2015
Large variability of bathypelagic microbial eukaryotic communities across the world’s oceans Article · 9 Oct 2015
Marine protist diversity in E uropean coastal waters and sediments as revealed by high‐throughput sequencing Article · 4 Aug 2015
Eukaryotic plankton diversity in the sunlit ocean Article · 22 May 2015
The influence of light and water mass on bacterial population dynamics in the Amundsen Sea Polynya Article · 1 Jan 2015
Evidence of concurrent local adaptation and high phenotypic plasticity in a polar microeukaryote Article · 3 Sep 2014
Patterns of Rare and Abundant Marine Microbial Eukaryotes Article · Apr 2014
Different bacterial communities in ectomycorrhizae and surrounding soil Article · 11 Dec 2013
Metagenomic 16S rDNA I llumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities Article · 18 Sep 2013
General Patterns of Diversity in Major Marine Microeukaryote Lineages Article · 21 Feb 2013
Biogeography of bacterial communities exposed to progressive long-term environmental change Article · 20 Dec 2012
Eukaryotic versus prokaryotic marine picoplankton ecology Article · 4 Dec 2012
Environmental microbiology through the lens of high-throughput DNA sequencing: Synopsis of current platforms and bioinformatics approaches Article · Oct 2012
Polar lakes may act as ecological islands to aquatic protists Article · 7 May 2012
Diversity patterns and activity of uncultured marine heterotrophic flagellates unveiled with pyrosequencing Article · 26 Apr 2012
Black Swans in ecology and evolution: The importance of improbable but highly influential events Article · 2012
Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria Article · 23 Dec 2011
Low Evolutionary Diversification in a Widespread and Abundant Uncultured Protist (MAST-4) Article · 13 Dec 2011
Population genetics: the next stop for microbial ecologists? Article · 23 Nov 2011
Freshwater Perkinsea and marine-freshwater colonizations revealed by pyrosequencing and phylogeny of environmental rDNA Article · 15 Apr 2010
Composition and dynamics of microeukaryote communities in the River Danube. Article · 1 Mar 2010
A data mining approach to dinoflagellate clustering according to sterol composition: correlations with evolutionary history Article · 2010
Infrequent Transitions between Saline and Fresh Waters in One of the Most Abundant Microbial Lineages (SAR11) Article · 6 Oct 2009
Infrequent marine–freshwater transitions in the microbial world Article · Sep 2009
Genetic Diversity Patterns in Five Protist Species Occurring in Lakes Article · May 2009
Diversification of unicellular eukaryotes: cryptomonad colonizations of marine and fresh waters inferred from revised 18S rRNA phylogeny Article · 10 Sep 2008
MARINE‐DERIVED DINOFLAGELLATES IN ANTARCTIC SALINE LAKES: COMMUNITY COMPOSITION AND ANNUAL DYNAMICS 1 *[link] Article · 7 May 2008
Recent evolutionary diversification of a protist lineage Article · 19 Feb 2008
Applying Clustering and Phylogeny Analysis to Study Dinoflagellates Based on Sterol Composition Conference paper · 2008
Extensive dinoflagellate phylogenies indicate infrequent marine–freshwater transitions Article · Dec 2007
Phenotypically Different Microalgal Morphospecies with Identical Ribosomal DNA: A Case of Rapid Adaptive Evolution? Article · 5 Apr 2007
Fatty acid and sterol composition of two evolutionarily closely related dinoflagellate morphospecies from cold Scandinavian brackish and freshwaters Article · Aug 2006
First insights into the overwintering biology of Alsodes gargola frogs and tadpoles inhabiting harsh Andean-Patagonian alpine environments Article · 2006

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