2025
Pathogens and planetary change
Carlson C, Brookson C, Becker D, Cummings C, Gibb R, Halliday F, Heckley A, Huang Z, Lavelle T, Robertson H, Vicente-Santos A, Weets C, Poisot T. Pathogens and planetary change. Nature Reviews Biodiversity 2025, 1: 32-49. DOI: 10.1038/s44358-024-00005-w.Peer-Reviewed Original ResearchBiodiversity lossAnthropogenic environmental changesLand-use changeBiodiversity conservationWildlife healthLand-useEcological costsDie-offGlobal changeBiodiversityEnvironmental changesEcological interventionsLive animal marketsInfectious disease riskPathogen surveillanceHuman-animal contactPathogensVector-borne diseasesSpeciesEvolutionary principlesWildlifeHigh-risk virusesEcosystemGlobal gapConservation
2024
The Pelagic Species Trait Database, an open data resource to support trait-based ocean research
Gleiber M, Hardy N, Roote Z, Krug-MacLeod A, Morganson C, Tandy Z, George I, Matuch C, Brookson C, Daly E, Portner E, Choy C, Crowder L, Green S. The Pelagic Species Trait Database, an open data resource to support trait-based ocean research. Scientific Data 2024, 11: 2. PMID: 38216562, PMCID: PMC10786825, DOI: 10.1038/s41597-023-02689-9.Peer-Reviewed Original ResearchConceptsTrait databasesSpecies range shiftsTrait-based approachTrait-based frameworkFood web dynamicsTrait-based researchPrey guildHabitat useCalifornia Current SystemPelagic speciesPelagic fishEcological communitiesMarine ecosystemsOceanic predatorsPredator populationsRange shiftsSpecies interactionsWeb dynamicsInvertebrate speciesFunctional traitsOpen-ocean systemsGlobal changePredatorsPreyNE Pacific Ocean
2023
Trends in mosquito species distribution modeling: insights for vector surveillance and disease control
Lippi C, Mundis S, Sippy R, Flenniken J, Chaudhary A, Hecht G, Carlson C, Ryan S. Trends in mosquito species distribution modeling: insights for vector surveillance and disease control. Parasites & Vectors 2023, 16: 302. PMID: 37641089, PMCID: PMC10463544, DOI: 10.1186/s13071-023-05912-z.Peer-Reviewed Original ResearchConceptsSpecies distribution modelsSpecies distribution modelling methodsSpecies distribution modelling literatureDisease vectorsDistribution modelMosquito-borne disease riskInfectious disease vectorsGlobal changeMosquito speciesSpeciesMethodological focusNorth AmericaOutbreak riskDisease riskGeographyMosquitoesModeling effortsRegional modelSystematic reviewEcologyExploring the Mosquito–Arbovirus Network: A Survey of Vector Competence Experiments
Chen B, Sweeny A, Wu V, Christofferson R, Ebel G, Fagre A, Gallichotte E, Kading R, Ryan S, Carlson C. Exploring the Mosquito–Arbovirus Network: A Survey of Vector Competence Experiments. American Journal Of Tropical Medicine And Hygiene 2023, 108: 987-994. PMID: 37037424, PMCID: PMC10160896, DOI: 10.4269/ajtmh.22-0511.Peer-Reviewed Original Research
2022
Present and future distribution of bat hosts of sarbecoviruses: implications for conservation and public health
Muylaert R, Kingston T, Luo J, Vancine M, Galli N, Carlson C, John R, Rulli M, Hayman D. Present and future distribution of bat hosts of sarbecoviruses: implications for conservation and public health. Proceedings Of The Royal Society B 2022, 289: 20220397. PMID: 35611534, PMCID: PMC9130791, DOI: 10.1098/rspb.2022.0397.Peer-Reviewed Original ResearchConceptsLoss of population connectivityPredictors of species distributionsReservoirs of diverse virusesBiodiversity extinction crisisProject future scenariosModel current distributionHotspots shiftLandscape relationshipsLocal extinctionSpecies distributionHuman encroachmentExtinction crisisSARS-like virusesPopulation connectivityTemperature seasonalityNatural habitatsGlobal changeHost distributionEcological nichesFuture scenariosBat hostsHotspotsDiverse virusesViral spilloverHuman populationTrait-based approaches to global change ecology: moving from description to prediction
Green S, Brookson C, Hardy N, Crowder L. Trait-based approaches to global change ecology: moving from description to prediction. Proceedings Of The Royal Society B 2022, 289: 20220071. PMID: 35291837, PMCID: PMC8924753, DOI: 10.1098/rspb.2022.0071.Peer-Reviewed Original ResearchConceptsTrait-based approachGlobal change predictionsGlobal changeIntensifying global changesPredicting ecological effectsConservation decision-makingChange predictionsGlobal change ecologyTrait-based researchLife history traitsTraits to changesEcological effectsAbiotic limitationsEnvironmental filteringSpecies distributionSpecies rangeChange ecologyEnvironmental parametersMultivariate traitsOrgan sizePlant morphologyTraitsOrgan distributionEcosystemRe-assembly
2020
What would it take to describe the global diversity of parasites?
Carlson C, Dallas T, Alexander L, Phelan A, Phillips A. What would it take to describe the global diversity of parasites? Proceedings Of The Royal Society B 2020, 287: 20201841. PMID: 33203333, PMCID: PMC7739500, DOI: 10.1098/rspb.2020.1841.Peer-Reviewed Original ResearchConceptsParasite diversityParasites of birdsDiversity of parasitesParasites of amphibiansHelminth parasitesHost-parasite associationsParasite collectionGlobal Virome ProjectParasitesHost-parasite networksHuman Genome ProjectUndersampled countriesSample of diversityGenome ProjectMissing speciesBony fishesGlobal diversitySmall hostsSpeciesGlobal changeHelminthsFishDiversityBirdsVertebratesLoss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation
Zhang Z, Zhou C, Li X, Barnes S, Deng S, Hoover E, Chen C, Lee Y, Zhang Y, Wang C, Metang L, Wu C, Tirado C, Johnson N, Wongvipat J, Navrazhina K, Cao Z, Choi D, Huang C, Linton E, Chen X, Liang Y, Mason C, de Stanchina E, Abida W, Lujambio A, Li S, Lowe S, Mendell J, Malladi V, Sawyers C, Mu P. Loss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation. Cancer Cell 2020, 37: 584-598.e11. PMID: 32220301, PMCID: PMC7292228, DOI: 10.1016/j.ccell.2020.03.001.Peer-Reviewed Original ResearchMeSH KeywordsAndrogen AntagonistsAnimalsApoptosisBiomarkers, TumorCell ProliferationChromatinDNA HelicasesDNA-Binding ProteinsDrug Resistance, NeoplasmGene Expression Regulation, NeoplasticHigh-Throughput Screening AssaysHumansMaleMiceProstatic Neoplasms, Castration-ResistantReceptors, AndrogenRNA, Small InterferingTranscription FactorsTumor Cells, CulturedXenograft Model Antitumor AssaysConceptsAntiandrogen resistanceChromatin dysregulationCHD1 lossProstate cancerGenomic copy number alterationsRNA-seq analysisResistance to hormonal therapyCopy number alterationsAR-targeted therapiesMetastatic prostate cancerATAC-seqClosed chromatinRNA-seqTranscriptional plasticityTranscription factorsFunctional screeningTranscriptomic changesMechanisms of resistanceHormone therapyLineage programsChromatinCHD1Global changeIntegrated analysisTherapy
2018
Long‐term research in ecology and evolution: a survey of challenges and opportunities
Kuebbing S, Reimer A, Rosenthal S, Feinberg G, Leiserowitz A, Lau J, Bradford M. Long‐term research in ecology and evolution: a survey of challenges and opportunities. Ecological Monographs 2018, 88: 245-258. DOI: 10.1002/ecm.1289.Peer-Reviewed Original ResearchEvolutionary dynamicsEvolutionary scientistsEcological field experimentsLong-term researchEcological organizationEvolutionary knowledgeEvolutionary understandingEcological understandingGlobal changeEcologyLong-term experimentsExperimental approachField experimentCurrent research prioritiesEvolutionCommunitySubstantive advancesLimited numberUnderstandingWide rangeMaintenanceResearch priorities
2017
Parasite vulnerability to climate change: an evidence-based functional trait approach
Cizauskas C, Carlson C, Burgio K, Clements C, Dougherty E, Harris N, Phillips A. Parasite vulnerability to climate change: an evidence-based functional trait approach. Royal Society Open Science 2017, 4: 160535. PMID: 28280551, PMCID: PMC5319317, DOI: 10.1098/rsos.160535.Peer-Reviewed Original ResearchFunctional trait approachTrait approachClimate changeVulnerability to extinctionRisk of disappearanceConservation targetsTrophic groupsConservation effortsEcological roleBiological traitsInterdisciplinary toolboxFunctional diversityGlobal changeIdentified speciesKnowledge of parasite biologyParasite speciesParasite cladesClimateNext centuryVirulent pathogensSpeciesParasite biologyExtinctionClimate sensitivityParasites
2016
Optimization of techniques for multiple platform testing in small, precious samples such as human chorionic villus sampling
Pisarska MD, Akhlaghpour M, Lee B, Barlow GM, Xu N, Wang ET, Mackey AJ, Farber CR, Rich SS, Rotter JI, Chen Y, Goodarzi MO, Guller S, Williams J. Optimization of techniques for multiple platform testing in small, precious samples such as human chorionic villus sampling. Prenatal Diagnosis 2016, 36: 1061-1070. PMID: 27718505, PMCID: PMC5142835, DOI: 10.1002/pd.4936.Peer-Reviewed Original ResearchConceptsGenome-wide methylation profilingRNA-seq librariesSystems biology approachGene expression studiesBiology approachEpigenetic modificationsLow DNA yieldRNA sequencingMethylation profilingExpression studiesGene expressionPurification of DNAQuality DNAGlobal changeHighest RNA yieldDNA yieldRNA yieldRNADNAIsolation kitRNAlater samplesRNAlaterGenesChorionic villiMultiple testing
2015
Neuronal ceroid lipofuscinosis with DNAJC5/CSPα mutation has PPT1 pathology and exhibit aberrant protein palmitoylation
Henderson MX, Wirak GS, Zhang YQ, Dai F, Ginsberg SD, Dolzhanskaya N, Staropoli JF, Nijssen PC, Lam TT, Roth AF, Davis NG, Dawson G, Velinov M, Chandra SS. Neuronal ceroid lipofuscinosis with DNAJC5/CSPα mutation has PPT1 pathology and exhibit aberrant protein palmitoylation. Acta Neuropathologica 2015, 131: 621-637. PMID: 26659577, PMCID: PMC4791186, DOI: 10.1007/s00401-015-1512-2.Peer-Reviewed Original ResearchConceptsNeuronal ceroid lipofuscinosesProtein palmitoylationDisease pathwaysPalmitoyl-protein thioesterase 1Forms of NCLEnzyme palmitoyl-protein thioesterase 1Disease-associated proteinsCommon disease pathwaysNCL genesQuantitative proteomicsCSPα mutationsSpecific enzymatic activityCSPαFunctional linkNeuronal ceroid lipofuscinosisGlobal changePPT1Synaptic proteinsEnzymatic activityCeroid lipofuscinosesPalmitoylationGenesCeroid lipofuscinosisNeurodegenerative disordersProteinNoise in gene expression is coupled to growth rate
Keren L, van Dijk D, Weingarten-Gabbay S, Davidi D, Jona G, Weinberger A, Milo R, Segal E. Noise in gene expression is coupled to growth rate. Genome Research 2015, 25: 1893-1902. PMID: 26355006, PMCID: PMC4665010, DOI: 10.1101/gr.191635.115.Peer-Reviewed Original ResearchConceptsGene expression noiseExpression noiseGene expressionGlobal changeLower growth rateDifferent growth ratesDifferent cell cycle stagesAverage gene expressionNutrient-poor conditionsEnvironmental conditionsCell cycle stageOverall high variabilityGrowth rateMost promotersCell cycle heterogeneityCellular regulationPromoter featuresDisplay elevated levelsExpression variabilityBiological functionsExpression distributionPhenotypic implicationsAsynchronous populationIdentical cellsExpression valuesIon Channels Are Membrane Proteins
Levitan I, Kaczmarek L. Ion Channels Are Membrane Proteins. 2015, 85-102. DOI: 10.1093/med/9780199773893.003.0005.ChaptersMembrane-spanning segmentsHomologous domainsPrimary subunitIon channelsFunctional potassium channelsPotassium channelsVoltage-dependent ion channelsThree-dimensional structureMembrane proteinsSodium channelsMutational analysisProtein regionsVoltage-gated sodiumChannel proteinsChannel gatingProtein conformationStructural modulesChannel poreGlobal changeVoltage-dependent activationVoltage-dependent channelsSubunitsProteinOverall structureIon selectivity
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