Eirin Lopez, Jose
- Assistant Professor, Biological Sciences , College of Arts, Sciences & Education
Overview
overview
- Dr. Jose M. Eirin-Lopez is an associate professor in the Department of Biological Sciences at Florida International University (Miami, FL). He is also an affiliated faculty in the Center for Coastal Oceans Research at the Institute of Environment, as well as in the CREST Center for Aquatiic Chemistry and Environment at this institution. Since 2007, he is the principal investigator at the Environmental Epigenetics Lab. His research aims to make fundamental contributions to the study of marine environmental epigenetics using molecular, ecological and toxicological approaches.
Scholarly & Creative Works
selected publications
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Article
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2021Epigenetic responses in juvenile Lemon sharks (Negaprion brevirostris) during a coastal dredging episode in Bimini, BahamasFull Text via DOI: 10.1016/j.ecolind.2021.107793 Web of Science: 000658937700003
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2021Application of an Improved Chloroform-Free Lipid Extraction Method to Staghorn Coral (Acropora cervicornis) Lipidomics Assessments. BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY.Full Text via DOI: 10.1007/s00128-020-03078-3 Web of Science: 000604487500008
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2020Genome-Wide DNA Methylation Analysis Reveals a Conserved Epigenetic Response to Seasonal Environmental Variation in the Staghorn Coral Acropora cervicornis. FRONTIERS IN MARINE SCIENCE. 7.Full Text via DOI: 10.3389/fmars.2020.560424 Web of Science: 000582739600001
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2019Protamines from liverwort are produced by post-translational cleavage and C-terminal di-aminopropanelation of several male germ-specific H1 histones. JOURNAL OF BIOLOGICAL CHEMISTRY. 294:16364-16373.Full Text via DOI: 10.1074/jbc.RA119.010316 Web of Science: 000499478600039
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2019The Bottlenose Dolphin Epigenetic Aging Tool (BEAT): A Molecular Age Estimation Tool for Small Cetaceans. FRONTIERS IN MARINE SCIENCE. 6.Full Text via DOI: 10.3389/fmars.2019.00561 Web of Science: 000488121900001
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2019SEASONAL DNA METHYLATION VARIATION IN THE FLAT TREE OYSTER ISOGNOMON ALATUS FROM A MANGROVE ECOSYSTEM IN NORTH BISCAYNE BAY, FLORIDA. JOURNAL OF SHELLFISH RESEARCH. 38:79-88.Full Text via DOI: 10.2983/035.038.0108 Web of Science: 000464930800008
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2018Coral epigenetic responses to nutrient stress: Histone H2A.X phosphorylation dynamics and DNA methylation in the staghorn coral Acropora cervicornis. ECOLOGY AND EVOLUTION. 8.Full Text via DOI: 10.1002/ece3.4678 Web of Science: 000454107200070
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2018Karyotype Characterization of Nine Periwinkle Species (Gastropoda, Littorinidae). GENES. 9.Full Text via DOI: 10.3390/genes9110517 Web of Science: 000451636700002
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2017Transcriptional and biochemical analysis of antioxidant enzymes in the mussel Mytilus galloprovincialis during experimental exposures to the toxic dinoflagellate Prorocentrum lima. MARINE ENVIRONMENTAL RESEARCH. 129.Full Text via DOI: 10.1016/j.marenvres.2017.06.009 Web of Science: 000407981500027
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2017Detection of invasive and cryptic species in marine mussels (Bivalvia, Mytilidae): A chromosomal perspective. JOURNAL FOR NATURE CONSERVATION. 39:58-67.Full Text via DOI: 10.1016/j.jnc.2017.07.005 Web of Science: 000410880400003
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2017Effects of Florida Red Tides on histone variant expression and DNA methylation in the Eastern oyster Crassostrea virginica. AQUATIC TOXICOLOGY. 186:196-204.
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2017Molecular and Biochemical Methods Useful for the Epigenetic Characterization of Chromatin-Associated Proteins in Bivalve Molluscs. FRONTIERS IN PHYSIOLOGY. 8.
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2016Characterization of mussel H2AZ2: a new H2A.Z variant preferentially expressed in germinal tissues from Mytilus. BIOCHEMISTRY AND CELL BIOLOGY. 94:480-490.
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2016Early Genotoxic and Cytotoxic Effects of the Toxic Dinoflagellate Prorocentrum lima in the Mussel Mytilus galloprovincialis. TOXINS. 8.Full Text via DOI: 10.3390/toxins8060159 Web of Science: 000378808700002
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2016Unique yeast histone sequences influence octamer and nucleosome stability. FEBS LETTERS. 590:2629-2638.
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2015An Unusual Role for doublesex in Sex Determination in the Dipteran Sciara. GENETICS. 200:1181-+.
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2015Evolution of High Mobility Group Nucleosome-Binding Proteins and Its Implications for Vertebrate Chromatin Specialization. MOLECULAR BIOLOGY AND EVOLUTION. 32:121-131.
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2015IN VITRO ANALYSIS OF EARLY GENOTOXIC AND CYTOTOXIC EFFECTS OF OKADAIC ACID IN DIFFERENT CELL TYPES OF THE MUSSEL Mytilus galloprovincialis. JOURNAL OF TOXICOLOGY AND ENVIRONMENTAL HEALTH-PART A-CURRENT ISSUES. 78:814-824.
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2015The comparative study of five sex-determining proteins across insects unveils high rates of evolution at basal components of the sex determination cascade. DEVELOPMENT GENES AND EVOLUTION. 225:23-30.
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2013A computer lab exploring evolutionary aspects of chromatin structure and dynamics for an undergraduate chromatin course*. BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION. 41:95-102.
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2012
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2011
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2010Birth-and-Death Long-Term Evolution Promotes Histone H2B Variant Diversification in the Male Germinal Cell LineFull Text via DOI: 10.1093/molbev/msq058 Web of Science: 000280296700008
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2010The gene transformer-2 of Anastrepha fruit flies (Diptera, Tephritidae) and its evolution in insectsFull Text via DOI: 10.1186/1471-2148-10-140 Web of Science: 000279827800001
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2010Evolutionary Dynamics of the 5S rDNA Gene Family in the Mussel Mytilus: Mixed Effects of Birth-and-Death and Concerted EvolutionFull Text via DOI: 10.1007/s00239-010-9341-3 Web of Science: 000278094800002
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2010H2A.Bbd: an X-chromosome-encoded histone involved in mammalian spermiogenesisFull Text via DOI: 10.1093/nar/gkp1129 Web of Science: 000276304600011
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2009Characterization of the histone H2A.Z-1 and H2A.Z-2 isoforms in vertebratesFull Text via DOI: 10.1186/1741-7007-7-86 Web of Science: 000273536900001
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2009Histone genes of the razor clam Solen marginatus unveil new aspects of linker histone evolution in protostomesFull Text via DOI: 10.1139/G09-034 Web of Science: 000268853700002
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2008The sperm proteins from amphioxus mirror its basal position among chordates and redefine the origin of vertebrate protaminesFull Text via DOI: 10.1093/molbev/msn121 Web of Science: 000257789200022
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2008H2A.Bbd: a quickly evolving hypervariable mammalian histone that destabilizes nucleosomes in an acetylation-independent wayFull Text via DOI: 10.1096/fj.07-9255com Web of Science: 000252309900033
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2008Insight into ligand diversity and novel biological roles for family 32 carbohydrate-binding modulesFull Text via DOI: 10.1093/molbev/msm243 Web of Science: 000253375900016
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2007The Gene Transformer of Anastrepha Fruit Flies (Diptera, Tephritidae) and Its Evolution in InsectsFull Text via DOI: 10.1371/journal.pone.0001239 Web of Science: 000207459300020
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2007The gene doublesex of Anastrepha fruit flies (Diptera, Tephritidae) and its evolution in insectsFull Text via DOI: 10.1007/s00427-007-0178-8 Web of Science: 000249968700006
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2007H2A.Z-mediated genome-wide chromatin specializationFull Text via DOI: 10.2174/138920207780076965 Web of Science: 000244925700006
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2006A unique vertebrate histone H1-related protamine-like protein results in an unusual sperm chromatin organizationFull Text via DOI: 10.1111/j.1742-4658.2006.05461.x Web of Science: 000240558500018
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2006Common phylogenetic origin of protamine-like (PL) proteins and histone H1: Evidence from bivalve PL genesFull Text via DOI: 10.1093/molbev/msk021 Web of Science: 000237696800022
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2006The characterization of amphibian nucleoplasmins yields new insight into their role in sperm chromatin remodelingFull Text via DOI: 10.1186/1471-2164-7-99 Web of Science: 000238291600001
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2005H2AX: tailoring histone H2A for chromatin-dependent genomic integrityFull Text via DOI: 10.1139/O05-114 Web of Science: 000231466300011
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2004Birth-and-death evolution with strong purifying selection in the histone H1 multigene family and the origin of orphon H1 genesFull Text via DOI: 10.1093/molbev/msh213 Web of Science: 000224013100017
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2004The gene Sex-lethal of the Sciaridae family (order Diptera, suborder Nematocera) and its phylogeny in dipteran insectsFull Text via DOI: 10.1534/genetics.104.031278 Web of Science: 000225063100029
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Book Chapter
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2019Marine Environmental Epigenetics. ANNUAL REVIEW OF MARINE SCIENCE, VOL 11.Full Text via DOI: 10.1146/annurev-marine-010318-095114 Web of Science: 000456386600015
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2018Environmental Epigenomics and Its Applications in Marine Organisms. 325-359.Full Text via DOI: 10.1007/13836_2018_28
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2015Computational Methods in Epigenetics. 153-180.Full Text via DOI: 10.1016/B978-0-12-420135-4.00006-1
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2015Chapter 6 Computational Methods in Epigenetics. 153-180.Full Text via DOI: 10.1016/b978-0-12-420135-4.00006-1
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Conference
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2009Long-Term Evolution of Histone Families: Old Notions and New Insights into Their Mechanisms of Diversification Across Eukaryotes. 139-+.Full Text via DOI: 10.1007/978-3-642-00952-5_8 Web of Science: 000270816600008
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2007
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2006Histone H1 function and distribution in chromatin: what does molecular evolution tell us about it?. 658-658.Full Text via DOI: 10.1139/006-901 Web of Science: 000240053100024
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Meeting Abstract
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2017Characterization of epigenetic marks in marine invertebrates. BIOCHEMISTRY AND CELL BIOLOGY. 181-181.Web of Science: 000399165600012
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2017First in vivo characterization of macroH2A beyond vertebrates: new insights into the functional evolution of histone variants. BIOCHEMISTRY AND CELL BIOLOGY. 180-180.Web of Science: 000399165600010
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2017Framing epigenetic signatures of the Pacific oyster under environmental stress using network analysis. BIOCHEMISTRY AND CELL BIOLOGY. 184-184.Web of Science: 000399165600025
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Proceedings Paper
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2013Clustering of Gene Expression Profiles Applied to Marine Research. ADVANCES IN COMPUTATIONAL INTELLIGENCE, PT I. 453-+.Web of Science: 000324897700045
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Publication
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2021Editorial: Marine Environmental EpigeneticsFull Text via DOI: 10.3389/fmars.2021.685075 Web of Science: 000656143100001
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2011Boule and the Evolutionary Origin of Metazoan Gametogenesis: A Grandpa's Tale.. 972457.Full Text via DOI: 10.4061/2011/972457
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Review
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2021Coral environmental memory: causes, mechanisms, and consequences for future reefs. 1011-1023.Full Text via DOI: 10.1016/j.tree.2021.06.014
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2015Environmental epigenetics: A promising venue for developing next-generation pollution biomonitoring tools in marine invertebrates. MARINE POLLUTION BULLETIN. 5-13.
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2013Bivalve Omics: State of the Art and Potential Applications for the Biomonitoring of Harmful Marine Compounds. MARINE DRUGS. 4370-4389.
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2012Vertebrate nucleoplasmin and NASP: egg histone storage proteins with multiple chaperone activities. 4788-4804.Full Text via DOI: 10.1096/fj.12-216663 Web of Science: 000311838300003
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2012A unified phylogeny-based nomenclature for histone variantsFull Text via DOI: 10.1186/1756-8935-5-7 Web of Science: 000305622000001
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2012Chromatin specialization in bivalve molluscs: A leap forward for the evaluation of Okadaic Acid genotoxicity in the marine environment. 175-181.Full Text via DOI: 10.1016/j.cbpc.2011.09.003 Web of Science: 000299580200001
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2009Origin and evolution of chromosomal sperm proteins. 1062-1070.Full Text via DOI: 10.1002/bies.200900050 Web of Science: 000270769400007
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2008Quickly evolving histones, nucleosome stability and chromatin folding: All about histone H2A.Bbd. 1-7.Full Text via DOI: 10.1016/j.gene.2008.02.003 Web of Science: 000255625000001
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2007New insights into the nucleophosmin/nucleoplasmin family of nuclear chaperones. 49-59.Full Text via DOI: 10.1002/bies.20512 Web of Science: 000243336700007
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2006Protamines, in the footsteps of linker histone evolution. 1-4.Full Text via DOI: 10.1074/jbc.R500018200 Web of Science: 000234307200001
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chaired theses and dissertations
- Ulloa, Maria Victoria Suarez, Transcriptomic and Epigenetic Responses to Environmental Stress in Marine Bivalves with a Focus on Harmful Algal Blooms 2017
advised honors theses
Research
research interests
- The central goal of our research program is to study the links between Global Change stressors and the epigenetic mechanisms modulating acclimatory and adaptive physiological responses in organisms across different marine ecosystems. We use a multidisciplinary and highly collaborative approach to study Environmental Epigenetics, integrating knowledge and discovery across different levels from Molecular Biology to Physiology, from Genetics to Ecology and from Epigenetics to Evolution. We are pioneering the development of epigenetic toolkits in non model organisms, paving the way for expanding environmental epigenetic analyses and their application to management and conservation of diverse ecologically and commercially relevant species
principal investigator on
Teaching
teaching activities
- BSC3941-B55: Biological Sciences Research Internship Fall Term 2019
- BSC3941-B55: Biological Sciences Research Internship Spring Term 2019
- BSC5935-B51: Topics In Biology Spring Term 2019
- BSC5935-U01: Topics In Biology Spring Term 2019
- BSC6913-B54: Student Research Lab Fall Term 2019
- BSC6913-B54: Student Research Lab Spring Term 2019
- PCB4674-BHA: Evolution Fall Term 2019
Contact
full name
- Jose Eirin Lopez
Identifiers
ORCID iD
- https://orcid.org/0000-0002-8041-9770 (confirmed)
visualizations
Recent publications and grants in Scholars@FIU
publication subject areas
- Biochemistry & Molecular Biology
- Biodiversity & Conservation
- Biophysics
- Cell Biology
- Developmental Biology
- Education & Educational Research
- Environmental Sciences & Ecology
- Evolutionary Biology
- Food Science & Technology
- Genetics & Heredity
- Marine & Freshwater Biology
- Pharmacology & Pharmacy
- Physiology
- Public, Environmental & Occupational Health
- Science & Technology - Other Topics
- Toxicology