Daniel Alfonso Colón-Ramos, PhD
Dorys McConnell Duberg Professor of Neuroscience and Cell BiologyCards
Appointments
Contact Info
About
Titles
Dorys McConnell Duberg Professor of Neuroscience and Cell Biology
Biography
Daniel Colón-Ramos was born and raised in Puerto Rico. He completed his B.A. at Harvard University, his PhD in the lab of Dr. Sally Kornbluth at Duke University and was a postdoctoral fellow in the lab of Dr. Kang Shen at Stanford University. The Colón-Ramos lab is interested in how synapses are precisely assembled to build the neuronal architecture that underlies behavior. To address this, they developed tools in the thermotaxis circuit of C. elegans. Their system enables unbiased genetic screens to identify novel pathways that instruct synaptogenesis in vivo, and single-cell manipulation of these pathways to understand how they influence behavior. As mechanisms underlying synapse structure and function are conserved, the research program seeks to enhance our understanding of synaptic cell biology in higher organisms, which may be important for disease.
Appointments
Cell Biology
ProfessorFully JointNeuroscience
ProfessorFully Joint
Other Departments & Organizations
- Cell Biology
- Cell Biology Research
- Colon-Ramos lab
- Developmental Cell Biology and Genetics
- Diabetes Research Center
- Interdepartmental Neuroscience Program
- Molecular Cell Biology, Genetics and Development
- Neuroscience
- Neuroscience Track
- Program in Cellular Neuroscience, Neurodegeneration and Repair
- Wu Tsai Institute
- Yale Combined Program in the Biological and Biomedical Sciences (BBS)
- Yale Ventures
Education & Training
- Postdoctoral fellow
- Stanford University (2008)
- PhD
- Duke University Medical Center (2003)
- AB
- Harvard College (1998)
Research
Overview
Medical Research Interests
ORCID
0000-0003-0223-7717- View Lab Website
Colón-Ramos Lab
Research at a Glance
Yale Co-Authors
Publications Timeline
Research Interests
Ane Landajuela Larma
Benjamin Clark
Giovanna Guerrero-Medina, PhD
Lin Shao, PhD
Marc Hammarlund, PhD
Neurons
Publications
2025
Glycogen supports glycolytic plasticity in neurons
Singh M, Wolfe A, Vishwanath A, Tsives A, Gonzalez I, Emerson S, Goodman R, Colón-Ramos D. Glycogen supports glycolytic plasticity in neurons. Proceedings Of The National Academy Of Sciences Of The United States Of America 2025, 122: e2509003122. PMID: 40638090, PMCID: PMC12280961, DOI: 10.1073/pnas.2509003122.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsCaenorhabditis elegansConditions of mitochondrial dysfunctionCells of living animalsSynaptic vesicle recyclingTransient hypoxiaSingle cellsVesicle recyclingRNAi screenAssociated with defectsMitochondrial functionResponse to activationGlycolytic stateMitochondrial dysfunctionEnergy metabolism in vivoMetabolism in vivoSynaptic functionNeuronsIn vivoHypoxiaEnergy reservesGlycogen phosphorylaseGlycogenOrthologsCaenorhabditisMutantsDeep learning-based aberration compensation improves contrast and resolution in fluorescence microscopy
Guo M, Wu Y, Hobson C, Su Y, Qian S, Krueger E, Christensen R, Kroeschell G, Bui J, Chaw M, Zhang L, Liu J, Hou X, Han X, Lu Z, Ma X, Zhovmer A, Combs C, Moyle M, Yemini E, Liu H, Liu Z, Benedetto A, La Riviere P, Colón-Ramos D, Shroff H. Deep learning-based aberration compensation improves contrast and resolution in fluorescence microscopy. Nature Communications 2025, 16: 313. PMID: 39747824, PMCID: PMC11697233, DOI: 10.1038/s41467-024-55267-x.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsAdaptive optics techniquesMulti-photonDeep learning-based strategyAberration compensationLearning-based strategyTrained neural networkImprove image qualityOptical aberrationsNeural networkImage quantitationOptical techniquesDiverse datasetsSuper-resolution microscopyLight sheetRestore dataImage qualityImage signalNetworkImage inspectionImage acquisitionImage stacksOpticsResolutionImagesFluorescence microscopy
2024
Configuration of electrical synapses filters sensory information to drive behavioral choices
Almoril-Porras A, Calvo A, Niu L, Beagan J, Díaz García M, Hawk J, Aljobeh A, Wisdom E, Ren I, Wang Z, Colón-Ramos D. Configuration of electrical synapses filters sensory information to drive behavioral choices. Cell 2024, 188: 89-103.e13. PMID: 39742807, PMCID: PMC12396738, DOI: 10.1016/j.cell.2024.11.037.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsElectrical synapsesSensory informationGap junction proteinBehavioral strategiesReduced membrane capacitanceProcessing of sensory informationIncreased membrane resistanceSensory information processingAbnormal responseJunction proteinsSynaptic configurationsInnexin 1Process sensory informationC. elegansBehavioral responsesBehavioral choicesMigratory behaviorSensory stimuliThermotaxis behaviorInformation processingInterneuronsChemical synapsesSynapsesAntagonism between neuropeptides and monoamines in a distributed circuit for pathogen avoidance
Marquina-Solis J, Feng L, Vandewyer E, Beets I, Hawk J, Colón-Ramos D, Yu J, Fox B, Schroeder F, Bargmann C. Antagonism between neuropeptides and monoamines in a distributed circuit for pathogen avoidance. Cell Reports 2024, 43: 114042. PMID: 38573858, PMCID: PMC11063628, DOI: 10.1016/j.celrep.2024.114042.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsFLP-1 neuropeptidesBacterium Pseudomonas aeruginosa PA14Pathogen avoidanceGrowth factor BNematode Caenorhabditis elegansC. elegansCaenorhabditis elegansAvoidance signalPathogen infectionFlp-1NeuropeptidePathogensNeuronsMultiple mechanismsMultiple neuronsInfectionNeuromodulationPromote recoveryFactor BAvoidance behaviorAVKPA14Local and dynamic regulation of neuronal glycolysis in vivo
Wolfe A, Koberstein J, Smith C, Stewart M, Gonzalez I, Hammarlund M, Hyman A, Stork P, Goodman R, Colón-Ramos D. Local and dynamic regulation of neuronal glycolysis in vivo. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2314699121. PMID: 38198527, PMCID: PMC10801914, DOI: 10.1073/pnas.2314699121.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsGlycolytic stateEnergy stressEnergy metabolismConditions of energy stressDynamic regulationNeuronal functionIndividual cell typesMitochondrial localizationGenetic analysisSubcellular regionsRegulatory enzymeCell-autonomousNeuronal identityGlycolysisCell typesMetabolic stateImaging dynamic changesMetabolismLiving organismsIn vivoCellsEnergy landscapeIndividual neuronsEnzymeDynamic changesUnderstanding neural circuit function through synaptic engineering
Rabinowitch I, Colón-Ramos D, Krieg M. Understanding neural circuit function through synaptic engineering. Nature Reviews Neuroscience 2024, 25: 131-139. PMID: 38172626, DOI: 10.1038/s41583-023-00777-8.Peer-Reviewed Original ResearchCitationsAltmetricConceptsNeural circuitsNeural circuit functionNew synaptic connectionsVivo neural circuitsNeural circuit manipulationConnexin gap junction proteinsSynaptic plasticitySynaptic connectionsElectrical synapsesGap junction proteinCircuit connectivityJunction proteinsSynapsesCircuit functionNeuronsCircuit manipulationsSpecific signalingSpecific connectionsLight-gated channelsNeuropeptides
2023
The active zone protein CLA-1 (Clarinet) bridges two subsynaptic domains to regulate presynaptic sorting of ATG-9
Xuan Z, Colón-Ramos D. The active zone protein CLA-1 (Clarinet) bridges two subsynaptic domains to regulate presynaptic sorting of ATG-9. Autophagy 2023, 19: 2807-2808. PMID: 37389488, PMCID: PMC10472863, DOI: 10.1080/15548627.2023.2229227.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsATG-9Forward genetic screenAdaptor protein complexesIntegral synaptic vesicle proteinsActive zone proteinsSynaptic vesicle cycleCLA-1Synaptic vesicle proteinsGenetic screenPeriactive zoneAutophagosome biogenesisProtein complexesVesicle cycleVesicle proteinsLong isoformNovel roleSubsynaptic domainsZone proteinNeuronal synapsesSynaptic vesiclesProteinDistinct mechanismsVesiclesMutantsPresynaptic localizationThe active zone protein Clarinet regulates synaptic sorting of ATG-9 and presynaptic autophagy
Xuan Z, Yang S, Clark B, Hill S, Manning L, Colón-Ramos D. The active zone protein Clarinet regulates synaptic sorting of ATG-9 and presynaptic autophagy. PLOS Biology 2023, 21: e3002030. PMID: 37053235, PMCID: PMC10101500, DOI: 10.1371/journal.pbio.3002030.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsATG-9Presynaptic autophagyAdaptor protein complexesZone proteinActive zone proteinsC. elegans neuronsSynaptic vesicle proteinsGenetic screenPeriactive zoneAutophagosome biogenesisCellular homeostasisProtein complexesVesicle proteinsGenetic analysisLong isoformNovel roleSynaptic vesiclesAutophagyDistinct mechanismsProteinVesiclesSortingCLA-1Abnormal accumulationActive zone
2022
Incorporating the image formation process into deep learning improves network performance
Li Y, Su Y, Guo M, Han X, Liu J, Vishwasrao H, Li X, Christensen R, Sengupta T, Moyle M, Rey-Suarez I, Chen J, Upadhyaya A, Usdin T, Colón-Ramos D, Liu H, Wu Y, Shroff H. Incorporating the image formation process into deep learning improves network performance. Nature Methods 2022, 19: 1427-1437. PMID: 36316563, PMCID: PMC9636023, DOI: 10.1038/s41592-022-01652-7.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsLong-Term Precision Editing of Neural Circuits Using Engineered Gap Junction Hemichannels
Dzirasa K, Ransey E, Chesnov K, Wisdom E, Bowman R, Rodriguez T, Adamson E, Thomas G, Almoril-Porras A, Schwennesen H, Colón-Ramos D, Hultman R, Bursac N. Long-Term Precision Editing of Neural Circuits Using Engineered Gap Junction Hemichannels. Biological Psychiatry 2022, 91: s14-s15. DOI: 10.1016/j.biopsych.2022.02.055.Peer-Reviewed Original ResearchCitations
Academic Achievements & Community Involvement
Honors
honor AAAS Early Career Award for Public Engagement with Science
02/13/2012International AwardAmerican Association for the Advancement of ScienceDetailsUnited Stateshonor Sloan Research Fellow
01/01/2010UnknownDetailsUnited Stateshonor Klingenstein Fellowship Award in the Neurosciences
01/01/2009UnknownDetailsUnited States
News & Links
News
- July 16, 2025Source: Yale News
Neurons Use Built-In ‘Backup Batteries’ That Fuel the Brain Under Stress
- January 03, 2025Source: Yale News
How Electrical Synapses Fine-tune Sensory Information for Better Decisions
- May 03, 2024
Hao, Chen, and Bhaskar Honored With 2024 Kavli Postdoctoral Fellowship
- January 24, 2024Source: Yale News
Powering the Brain: How Energy Is Distributed Within Single Cells
Get In Touch
Contacts
Administrative Support
Locations
100 College Street
Lab
Ste 1041
New Haven, CT 06510
Events
Yale Only Susan Dymecki, MD, PhD
Yale Only Gaby Maimon, PhD