Scientific Publications

As of May 9, 2022

Echeverri, K., Fei, J., & Tanaka, E. (2022). Chapter Twenty-Two The Axolotl’s journey to the modern molecular era. In Emerging Model Systems in Developmental Biology (Vol. 147, pp. 631–658). https://doi.org/10.1016/bs.ctdb.2021.12.010 

Loescher, H., Vargas, R., Mirtl, M., Morris, B., Pauw, J., Yu, X., Kutsch, W., Mabee, P., Tang, J., Ruddell, B., Pulsifer, P., Bäck, J., Zacharias, S., Grant, M., Feig, G., Zheng, L., Waldmann, C., & Genazzio, M. (2022). Building a global ecosystem research infrastructure to address global grand challenges for macrosystem ecology. Earth’s Future, 10, e2020EF001696. https://doi.org/10.1029/2020ef001696

Lyons, D., & Henry, J. (2022). Slipper snail tales: how Crepidula fornicata and Crepidula atrasolea became model molluscs. Emerging Model Systems in Developmental Biology, 147, 375–399. https://doi.org/10.1016/bs.ctdb.2021.12.013 

Schmidbaur, H., Kawaguchi, A., Clarence, T., Fu, X., Hoang, O. P., Zimmermann, B., Ritschard, E. A., Weissenbacher, A., Foster, J. S., Nyholm, S., Bates, P. A., Albertin, C. B., Tanaka, E., & Simakov, O. (2022). Emergence of novel cephalopod gene regulation and expression through large-scale genome reorganization. Nature Communications, 13(1), 2172. https://doi.org/10.1038/s41467-022-29694-7

Buresch, K. C., Sklar, K., Chen, J. Y., Madden, S. R., Mongil, A. S., Wise, G. V., Boal, J. G., & Hanlon, R. T. (2022). Contact chemoreception in multi-modal sensing of prey by Octopus. Journal of Comparative Physiology. A, Neuroethology, Sensory, Neural, and Behavioral Physiology. https://doi.org/10.1007/s00359-022-01549-y  

Pomerantz, A., Sahlin, K., Vasiljevic, N., Seah, A., Lim, M., Humble, E., Kennedy, S., Krehenwinkel, H., Winter, S., Ogden, R., & Prost, S. (2022). Rapid in situ identification of biological specimens via DNA amplicon sequencing using miniaturized laboratory equipment. Nature Protocols. https://doi.org/10.1038/s41596-022-00682-x  

van Daalen, S. F., Hernandez, C. M., Caswell, H., Neubert, M. G., & Gribble, K. E. (2022). The contributions of maternal age heterogeneity to variance in lifetime reproductive output. American Naturalist,199(5). https://doi.org/10.1086/718716  

Katz, H. R., Arcese, A. A., Bloom, O., & Morgan, J. R. (2022). Activating transcription factor 3 (ATF3) is a highly conserved pro-regenerative transcription factor in the vertebrate nervous system. Frontiers in Cell and Developmental Biology, 10, 824036. https://doi.org/10.3389/fcell.2022.824036 

Stolp, Z. D., Kulkarni, M., Liu, Y., Zhu, C., Jalisi, A., Lin, S., Casadevall, A., Cunningham, K. W., Pineda, F. J., Teng, X., & Hardwick, J. M. (2022). Yeast cell death pathway requiring AP-3 vesicle trafficking leads to vacuole/lysosome membrane permeabilization. Cell Reports, 39(2), 110647. https://doi.org/10.1016/j.celrep.2022.110647 

Stunz, E., Fetcher, N., Lavretsky, P., Mohl, J., Tang, J., & Moody, M. (2022). Landscape genomics provides evidence of ecotypic adaptation and a barrier to gene flow at treeline for the arctic foundation species Eriophorum vaginatum. Frontiers in Plant Science, 13, 860439. https://doi.org/10.3389/fpls.2022.860439 

Moran, M., Kujawinski, E., Schroer, W., Amin, S., Bates, N., Bertrand, E., Braakman, R., Brown, C., Covert, M., Doney, S., Dyhrman, S., Edison, A., Eren, A. M., Levine, N., Li, L., Ross, A., Saito, M., Santoro, A., Segrè, D., Shade, A., Sullivan, M. B., & Vardi, A. (2022). Microbial metabolites in the marine carbon cycle. Nature Microbiology, 7(4), 508–523. https://doi.org/10.1038/s41564-022-01090-3;

Paris, M., Wolff, C., Patel, N., & Averof, M. (2022). The crustacean model Parhyale hawaiensis. Current Topics in Developmental Biology, 147, 199–230. https://doi.org/10.1016/bs.ctdb.2022.02.001

Snead, W., Jalihal, A., Gerbich, T., Seim, I., Hu, Z., & Gladfelter, A. (2022). Membrane surfaces regulate assembly of ribonucleoprotein condensates. Nature Cell Biology. https://doi.org/10.1038/s41556-022-00882-3

Tarrés, M., Cerdà-Domènech, M., Pedrosa-Pàmies, R., Rumín-Caparrós, A., Calafat, A., Canals, M., & Sanchez-Vidal, A. (2022). Particle fluxes in submarine canyons along a sediment-starved continental margin and in the adjacent open slope and basin in the SW Mediterranean Sea. Progress in Oceanography, 203, 102783. https://doi.org/10.1016/j.pocean.2022.102783

Weidner, E. (2022). The Spraguea Parasitism in Anglerfishes of the Genus Lophius. Acta Parasitologica. https://doi.org/10.1007/s11686-022-00546-0

Cronin-Golomb, O., Harringmeyer, J. P., Weiser, M. W., Zhu, X., Ghosh, N., Novak, A. B., Forbrich, I., & Fichot, C. G. (2022). Modeling benthic solar exposure (UV and visible) in dynamic coastal systems to better inform seagrass habitat suitability. Science of the Total Environment, 812, 151481. https://doi.org/10.1016/j.scitotenv.2021.151481 

Horb, M., Abu-Daya, A., Wlizla, M., Noble, A., & Guille, M. (2022). Advances in genome editing tools. In Xenopus (pp. 207–221). https://doi.org/10.1201/9781003050230-16 

Ramirez-Puebla, S. T., Weigel, B. L., Jack, L., Schlundt, C., Pfister, C. A., & Welch, J. L. M. (2022). Spatial organization of the kelp microbiome at micron scales. Microbiome, 10(1), 52. https://doi.org/10.1186/s40168-022-01235-w

Espino, C. M., Lewis, C., Wells, K., O’Neil, D., & Griffith, T. (2022). Na(v)1.1 plays a temperature dependent role in proprioceptor excitability. Biophysical Journal, 121(3), 95–95.  https://doi.org/10.1016/j.bpj.2021.11.2250 

Parent, M. T., Mautino, A. R., & Kumar, A. (2022). A multi-view line scanning confocal microscope for fast imaging of extended samples. Biophysical Journal, 121(3), 411A-411A.  https://doi.org/10.1016/j.bpj.2021.11.710 

Ma, T., Parker, T., Fetcher, N., Unger, S., Gewirtzman, J., Moody, M., & Tang, J. (2022). Leaf and root phenology and biomass of Eriophorum vaginatum in response to warming in the Arctic. Journal of Plant Ecology, rtac010. https://doi.org/10.1093/jpe/rtac010 

Chowdhury, P. R., Golas, S. M., Alteio, L., Stevens, J. T. E., Billings, A. F., Blanchard, J. L., Melillo, J. M., & DeAngelis, K. M. (2021). The transcriptional response of soil bacteria to long-term warming and short-term seasonal fluctuations in a terrestrial forest. Frontiers in Microbiology, 12, 666558. https://doi.org/10.3389/fmicb.2021.666558

Sanchez Trivino, C. A., Landinez, M. P., Duran, S., Gomez, M. del P., & Nasi, E. (2022). Modulation of G(q)/PLC-mediated signaling by acute lithium exposure. Frontiers in Cellular Neuroscience, 16, 838939. https://doi.org/10.3389/fncel.2022.838939 

Molines, A. T., Lemière, J., Gazzola, M., Steinmark, I. E., Edrington, C. H., Hsu, C.-T., Real-Calderon, P., Suhling, K., Goshima, G., Holt, L. J., Thery, M., Brouhard, G. J., & Chang, F. (2022). Physical properties of the cytoplasm modulate the rates of microtubule polymerization and depolymerization. Developmental Cell, 57(4), 466-479.e6. https://doi.org/10.1016/j.devcel.2022.02.001

Paul, B., & Eren, A. (2022). Eco-evolutionary significance of domesticated retroelements in microbial genomes. Mobile DNA, 13(1), 6. https://doi.org/10.1186/s13100-022-00262-6

Rodriguez, F., Yushenova, I. A., DiCorpo, D., & Arkhipova, I. R. (2022). Bacterial N4-methylcytosine as an epigenetic mark in eukaryotic DNA. Nature Communications, 13(1), 1072. https://doi.org/10.1038/s41467-022-28471-w

Wallace, J., Chang, C., Kegawa, Y., Feigen, E., Ralowicz, A., Humphrey, G., Petersen, J., Blank, P., & Zimmerberg, J. (2022). Identification of endogenous amyloid-like bodies in the CNS of Doryteuthis pealeii. Biophysical Journal, 121(3), 353a. https://doi.org/10.1016/j.bpj.2021.11.1002 

Wallace, J., Parent, M., Raut, P., Waters, H., Zimmerberg, J., & Hess, S. (2022). The primary structure of the cytoplasmic tail domain of influenza hemagglutinin regulates its co-clustering with phosphatidylinositol 4,5-bisphosphate. Biophysical Journal, 121(3), 76a. https://doi.org/10.1016/j.bpj.2021.11.2301 

Aguado, M. T., Ponz-Segrelles, G., Glasby, C. J., Ribeiro, R. P., Nakamura, M., Oguchi, K., Omori, A., Kohtsuka, H., Fischer, C., Ise, Y., Jimi, N., & Miura, T. (2022). Ramisyllis kingghidorahi n. Sp., a new branching annelid from Japan. Organisms Diversity & Evolution. https://doi.org/10.1007/s13127-022-00545-z

Cesare, B., Campomenosi, N., & Shribak, M. (2022). Polychromatic polarization: Boosting the capabilities of the good old petrographic microscope. Geology, 50(2), 137–141. https://doi.org/10.1130/G49303.1

Haviland, K. A., Howarth, R. W., Marino, R., & Hayn, M. (2022). Variation in sediment and seagrass characteristics reflect multiple stressors along a nitrogen-enrichment gradient in a New England lagoon. Limnology and Oceanography. https://doi.org/10.1002/lno.12025

Lagache, T., Hanson, A., Perez-Ortega, J. E., Fairhall, A., & Yuste, R. (2021). Tracking calcium dynamics from individual neurons in behaving animals. Plos Computational Biology, 17(10), e1009432. https://doi.org/10.1371/journal.pcbi.1009432

Mäthger, L. M., Bok, M. J., Liebich, J., Sicius, L., & Nilsson, D.-E. (2022). Pupil dilation and constriction in the skate Leucoraja erinacea in a simulated natural light field. The Journal of Experimental Biology, 225(4). https://doi.org/10.1242/jeb.243221

Sengupta, T., Koonce, N. L., Vazquez-Martinez, N., Moyle, M. W., Duncan, L. H., Emerson, S. E., Han, X., Shao, L., Wu, Y., Santella, A., Fan, L., Bao, Z., Mohler, W. A., Shroff, H., & Colon-Ramos, D. A. (2021). Differential adhesion regulates neurite placement via a retrograde zippering mechanism. Elife, 10, e71171. https://doi.org/10.7554/eLife.71171

Walker, S. E., Sabin, K. Z., Gearhart, M. D., Yamamoto, K., & Echeverri, K. (2022). Regulation of stem cell identity by miR-200a during spinal cord regeneration. Development, 149(3), dev200033. https://doi.org/10.1242/dev.200033

Zhao, S., Zettler, E. R., Bos, R. P., Lin, P., Amaral-Zettler, L. A., & Mincer, T. J. (2022). Large quantities of small microplastics permeate the surface ocean to abyssal depths in the South Atlantic Gyre. Global Change Biology. https://doi.org/10.1111/gcb.16089

Zhang, W., Foo, M., Eren, A. M., & Pan, T. (2022). tRNA modification dynamics from individual organisms to metaepitranscriptomics of microbiomes. Mol Cell. doi: 10.1016/j.molcel.2021.12.007

Dellaert, Z., Vargas, P. A., La Riviere, P. J., & Roberson, L. M. (2022). Uncovering the Effects of Symbiosis and Temperature on Coral Calcification. Biological Bulletin, 000-000. doi: 10.1086/716711

Upreti, K., Rivera-Monroy, V. H., Maiti, K., Giblin, A. E., & Castañeda-Moya, E. (2022). Dissimilatory nitrate reduction to ammonium (DNRA) is marginal relative to denitrification in emerging-eroding wetlands in a subtropical oligohaline and eutrophic coastal delta. The Science of The Total Environment, 152942. doi: 10.1016/j.scitotenv.2022.152942

Amaral-Zettler, L. A. (2021). LATITUDINAL DIVERSITY GRADIENTS (LDGS) AND MACROALGAL MICROBIOMES: A CHIMERA OF BIOTIC AND ABIOTIC EFFECTS? Journal of Phycology, 57(6), 1679-1680. http://doi.org/10.1111/jpy.13208

Criswell, K. E., Roberts, L. E., Koo, E. T., Head, J. J., & Gillis, J. A. (2021). hox gene expression predicts tetrapod-like axial regionalization in the skate, Leucoraja erinacea. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 118(51), e2114563118. http://doi.org/10.1073/pnas.2114563118

Duarte Moreno, H., Reuter, H., Kase, A., & Teichberg, M. (2021). Seaweed farming and land-use impacts on seagrass meadows in the region of Rote Island, Indonesia. Estuarine, Coastal and Shelf Science, 263, 107635. http://doi.org/10.1016/j.ecss.2021.107635

Echeverri, K., & Kyba, M. (2021). Editorial overview – Differentiation: the driver of development Karen Echeverri and Michael Kyba. CURRENT OPINION IN CELL BIOLOGY, 73, III-V. http://doi.org/10.1016/j.ceb.2021.11.001

Fouke, K. E., Wegman, M. E., Weber, S. A., Brady, E. B., Román-Vendrell, C., & Morgan, J. R. (2021). Synuclein Regulates Synaptic Vesicle Clustering and Docking at a Vertebrate Synapse. Frontiers in Cell and Developmental Biology, 9, 774650. http://doi.org/10.3389/fcell.2021.774650

Klein, S., Frazier, V., Readdean, T., Lucas, E., Diaz-Jimenez, E. P., Sogin, M., Ruff, E. S., & Echeverri, K. (2021). Common Environmental Pollutants Negatively Affect Development and Regeneration in the Sea Anemone Nematostella vectensis Holobiont. Frontiers in Ecology and Evolution, 9, 786037. http://doi.org/10.3389/fevo.2021.786037

Ponz-Segrelles, G., Ribeiro, R. P., & Aguado, M. T. (2021). Monsters reveal patterns: bifurcated annelids and their implications for the study of development and evolution. Biological Reviews. http://doi.org/10.1111/brv.12826

Ruff, S. E. (2021). Editorial: Microbial Communities and Metabolisms Involved in the Degradation of Cellular and Extracellular Organic Biopolymers. FRONTIERS IN MICROBIOLOGY, 12. http://doi.org/10.3389/fmicb.2021.802619

Xie, L., Liu, X., Caratenuto, A., Tian, Y., Chen, F., DeGiorgis, J. A., Wan, Y., & Zheng, Y. (2021). Environmentally Friendly and Efficient Hornet Nest Envelope-Based Photothermal Absorbers. ACS OMEGA. http://doi.org/10.1021/acsomega.1c04851

Mayorova, T. D., Hammar, K., Jung, J. H., Aronova, M. A., Zhang, G., Winters, C. A., Reese, T. S., & Smith, C. L. (2021). Placozoan fiber cells: mediators of innate immunity and participants in wound healing. Sci Rep, 11(1), 23343. doi: 10.1038/s41598-021-02735-9

Zottoli, S. J., Faber, D. S., Hering, J., Dannhauer, A. C., & Northen, S. (2021). Survival and Axonal Outgrowth of the Mauthner Cell Following Spinal Cord Crush Does Not Drive Post-injury Startle Responses. Frontiers in Cell and Developmental Biology, 9, 744191. doi: 10.3389/fcell.2021.744191

Pold, G., Kwiatkowski, B. L., Rastetter, E. B., & Sistla, S. A. (2021). Sporadic P limitation constrains microbial growth and facilitates SOM accumulation in the stoichiometrically coupled, acclimating microbe–plant–soil model. Soil Biology and Biochemistry, 108489. doi: 10.1016/j.soilbio.2021.108489