Scientific Publications

As of August 1, 2022

Bruce, H., & Patel, N. (2022). The Daphnia carapace and other novel structures evolved via the cryptic persistence of serial homologs. Current Biology, 21, 1-8. https://doi.org/10.1016/j.cub.2022.06.073

Darras, H., De Souza Araujo, N., Baudry, L., Guiglielmoni, N., Lorite, P., Marbouty, M., Rodriguez, F., Arkhipova, I., Koszul, R., Flot, J.-F., & Aron, S. (2022). Chromosome-level genome assembly and annotation of two lineages of the ant Cataglyphis hispanica: Stepping stones towards genomic studies of hybridogenesis and thermal adaptation in desert ants. Peer Community Journal, 2, e40. https://doi.org/10.24072/pcjournal.140

Kumar, A., Kerr, L., Shribak, M., Oldenbourg, R., & Patel, N. (2022). Reflecting on the Past and Building the Future of Imaging at MBL: Carrying Forward Shinya Inoué’s Legacy. Microscopy and Microanalysis, 28(S1), 1554–1556. https://doi.org/10.1017/s1431927622006249

Oldenbourg, R. (2022). Elevating Polarized Light Microscopy to the Third Dimension. Microscopy and Microanalysis, 28(S1), 1550–1552. https://doi.org/10.1017/s1431927622006237

Orvis, J., Albertin, C., Shrestha, P., Chen, S., Zheng, M., Rodriguez, C., Tallon, L., Mahurkar, A., Zimin, A., Kim, M., Liu, K., Kandel, E., Fraser, C., Sossin, W., & Abrams, T. (2022). The evolution of synaptic and cognitive capacity: Insights from the nervous system transcriptome of Aplysia. Proceedings of the National Academy of Sciences of the United States of America, 119(28), e2122301119. https://doi.org/10.1073/pnas.2122301119

Zahn, N., James-Zorn, C., Ponferrada, V., Adams, D., Grzymkowski, J., Buchholz, D., Nascone-Yoder, N., Horb, M., Moody, S., Vize, P., & Zorn, A. (2022). Normal Table of Xenopus development: A new graphical resource. Development, 149(14). https://doi.org/10.1242/dev.200356

Moroishi, Y., Gui, J., Hoen, A., Morrison, H., Baker, E., Nadeau, K., Li, H., Li, Z., Madan, J., & Karagas, M. (2022). The relationship between the gut microbiome and the risk of respiratory infections among newborns. Communications Medicine, 2(1), 87. https://doi.org/10.1038/s43856-022-00152-1

Rogers, L., Van Wert, J., & Mensinger, A. (2022). Response of toadfish (Opsanus tau) utricular afferents to multimodal inputs. Journal of Neurophysiology. https://doi.org/10.1152/jn.00483.2021

Gorbsky, G. J., Daum, J. R., Sapkota, H., Summala, K., Yoshida, H., Georgescu, C., Wren, J. D., Peshkin, L., & Horb, M. E. (2022). Developing immortal cell lines from Xenopus embryos, four novel cell lines derived from Xenopus tropicalis. Open Biology, 12(7). https://doi.org/10.1098/rsob.220089

Pold, G., Kwiatkowski, B. L., Rastetter, E. B., & Sistla, S. A. (2022). Sporadic P limitation constrains microbial growth and facilitates SOM accumulation in the stoichiometrically coupled, acclimating microbe-plant-soil model. Soil Biology & Biochemistry, 165. https://doi.org/10.1016/j.soilbio.2021.108489

Schrieke, H., Maignien, L., Constancias, F., Trigodet, F., Chakloute, S., Rakotoarivony, I., Marie, A., L’Ambert, G., Makoundou, P., Pages, N., Eren, A. M., Weill, M., Sicard, M., & Reveillaud, J. (2022). The mosquito microbiome includes habitat-specific but rare symbionts. Computational and Structural Biotechnology Journal, 20, 410–420. https://doi.org/10.1016/j.csbj.2021.12.019

Thiruppathy, M., Fabian, P., Gillis, J. A., & Crump, J. G. (2022). Gill developmental program in the teleost mandibular arch. eLife, 11. https://doi.org/10.7554/eLife.78170

Tsakalakis, I., Follows, M. J., Dutkiewicz, S., Follett, C. L., & Vallino, J. J. (2022). Diel light cycles affect phytoplankton competition in the global ocean. Global Ecology and Biogeography. https://doi.org/10.1111/geb.13562

Kim, D., Buresch, K., Hanlon, R., & Kampff, A. (2022). An experimental method for evoking and characterizing dynamic color patterning of cuttlefish during prey capture. Journal of Biological Methods, 9(2), e161. https://doi.org/10.14440/jbm.2022.386

Roguet, A., Newton, R., Eren, A., & McLellan, S. (2022). Guts of the Urban Ecosystem: Microbial Ecology of Sewer Infrastructure. MSystems, e00118–e00122. https://doi.org/10.1128/msystems.00118-22

Liguori, A. (2022). Limited evidence for local adaptation to salinity and temperature variability in San Juan Island populations of the copepod Tigriopus californicus (Baker). Journal of Experimental Marine Biology and Ecology, 554. https://doi.org/10.1016/j.jembe.2022.151752

McCarthy, J., Kelly, S., VanHook, A., Marques-Souza, H., Serano, J., & Patel, N. (2022). Expression of Abdominal-B in the brine shrimp, Artemia franciscana, expands our evolutionary understanding of the crustacean abdomen. Developmental Biology. https://doi.org/10.1016/j.ydbio.2022.06.011

Moroishi, Y., Gui, J., Nadeau, K. C., Morrison, H. G., Madan, J., & Karagas, M. R. (n.d.). A prospective study of the infant gut microbiome in relation to vaccine response. Pediatric Research. https://doi.org/10.1038/s41390-022-02154-0

Tran, M. T., & Oldenbourg, R. (2022). Point spread function of the polarized light field microscope. Journal of the Optical Society of America A-Optics Image Science and Vision, 39(6), 1095–1103. https://doi.org/10.1364/JOSAA.458034

Martin, P., Moynihan, M. A., Chen, S., Woo, O. Y., Zhou, Y., Nichols, R. S., Chang, K. Y. W., Tan, A. S. Y., Chen, Y.-H., Ren, H., & Chen, M. (2022). Monsoon-driven biogeochemical dynamics in an equatorial shelf sea: Time-series observations in the Singapore Strait. Estuarine Coastal and Shelf Science, 270. https://doi.org/10.1016/j.ecss.2022.107855

Thomsen, E., Herbeck, L., Teichberg, M., Wang, D. R., Chen, S.-Q., & Jennerjahn, T. C. (2022). Species-specific phenotypic plasticity of two tropical seagrass species in response to in situ fertilisation under different trophic conditions. Estuarine, Coastal and Shelf Science, 270. https://doi.org/10.1016/j.ecss.2022.107837

Chaouni, B., Idrissi Azami, A., Essayeh, S., Arrafiqui, E., Bailal, A., Raoui, S., Amzazi, S., Twaddle, A., El Hamouti, C., Boukhatem, N., Timinouni, M., El Otmani, F., Chahboune, R., Barrijal, S., El Homani, A., Nejjari, C., Zaid, E., Hamamouch, N., Bakkali, F., Amaral-Zettler, L., Ghazal, H. (2022). Moroccan Lagoon Microbiomes. Water, 14(11), 1715. https://doi.org/10.3390/w14111715

Pattanayak, R., Underwood, R., Crowley, M. R., Crossman, D. K., Morgan, J. R., & Yacoubian, T. A. (2022). Deletion in chromosome 6 spanning alpha-synuclein and multimerin1 loci in the Rab27a/b double knockout mouse. Scientific Reports, 12(1), 9837. https://doi.org/10.1038/s41598-022-13557-8

Vanni, C., Schechter, M. S., Acinas, S. G., Barberan, A., Buttigieg, P. L., Casamayor, E. O., Delmont, T. O., Duarte, C. M., Eren, A. M., Finn, R. D., Kottmann, R., Mitchell, A., Sanchez, P., Siren, K., Steinegger, M., Gloeckner, F. O., & Fernandez-Guerra, A. (2022). Unifying the known and unknown microbial coding sequence space. ELIFE, 11. https://doi.org/10.7554/eLife.67667

Bachy, C., Wittmers, F., Muschiol, J., Hamilton, M., Henrissat, B., & Worden, A. Z. (2022). The land-sea connection: insights into the plant lineage from a green algal perspective. Annual Review Plant Biology, 73, 585–616. https://doi.org/10.1146/annurev-arplant-071921-100530

Rastetter, E., Kwiatkowski, B., Kicklighter, D., Plotkin, A., Genet, H., Nippert, J., O’Keefe, K., Perakis, S., Porder, S., Roley, S., Ruess, R., Thompson, J., Wieder, W., Wilcox, K., & Yanai, R. (2022). N and P constrain C in ecosystems under climate change: role of nutrient redistribution, accumulation, and stoichiometry. Ecological Applications, e2684. https://doi.org/10.1002/eap.2684 

Bachy, C., Sudek, L., Choi, C. J., Eckmann, C. A., Nöthig, E.-M., Metfies, K., & Worden, A. Z. (2022). Phytoplankton surveys in the Arctic Fram Strait demonstrate the tiny eukaryotic alga Micromonas and other picoprasinophytes contribute to deep sea export. Microorganisms, 10(5), 961. https://doi.org/10.3390/microorganisms10050961 

Klasek, S., Brock, M., Calder, W., Morrison, H., Weinig, C., & Maïgnien, L. (2022). Spatiotemporal heterogeneity and intragenus variability in rhizobacterial associations with Brassica rapa growth. MSystems, e00060–e00022. https://doi.org/10.1128/msystems.00060-22 

Petrosino, G., Ponte, G., Volpe, M., Zarrella, I., Ansaloni, F., Langella, C., Di Cristina, G., Finaurini, S., Russo, M., Basu, S., Musacchia, F., Ristoratore, F., Pavlinic, D., Benes, V., Ferrante, M., Albertin, C., Simakov, O., Gustincich, S., Fiorito, G., & Sanges, R. (2022). Identification of LINE retrotransposons and long non-coding RNAs expressed in the octopus brain. BMC Biology, 20(1) 116. https://doi.org/10.1186/s12915-022-01303-5 

Sanders‐DeMott, R., Eagle, M., Kroeger, K., Wang, F., Brooks, T., Suttles, J., Nick, S., Mann, A., & Tang, J. (2022). Impoundment increases methane emissions in Phragmites‐invaded coastal wetlands. Global Change Biology. https://doi.org/10.1111/gcb.16217 

Walker, S. E., & Echeverri, K. (2022). Spinal cord regeneration—The origins of progenitor cells for functional rebuilding. Current Opinion in Genetics & Development, 75, 101917. https://doi.org/10.1016/j.gde.2022.101917 

Aymonnier, K., Ng, J., Fredenburgh, L. E., Zambrano-Vera, K., Muenzer, P., Gutch, S., Fukui, S., Desjardins, M., Subramaniam, M., Baron, R. M., Raby, B. A., Perrella, M. A., Lederer, J. A., & Wagner, D. D. (2022). Inflammasome activation in neutrophils of patients with severe COVID-19. Blood Advances, 6(7), 2001–2013. https://doi.org/10.1182/bloodadvances.2021005949

Cardon, Z. G., Peredo, E. L., Enloe, C. M., Oakey, J. S., Wu, S.-Z., & Bezanilla, M. (2022). Slip slidin’ away: bristle-driven gliding by Tetradesmus deserticola (chlorophyta) in microfluidic chambers(1). Journal of Phycology. https://doi.org/10.1111/jpy.13271

Kalia, N., Hauser, K., Burton, S., Hossainey, M., Zelle, M., Horb, M., & Grayfer, L. (2022). Endogenous retroviruses augment amphibian (Xenopus laevis) tadpole antiviral protection. Journal of Virology, e00634–e00622. https://doi.org/10.1128/jvi.00634-22 

Lebeaux, R., Madan, J., Nguyen, Q., Coker, M., Dade, E., Moroishi, Y., Palys, T., Ross, B., Pettigrew, M., Morrison, H., Karagas, M., & Hoen, A. (2022). Impact of antibiotics on off-target infant gut microbiota and resistance genes in cohort studies. Pediatric Research, 1–10. https://doi.org/10.1038/s41390-022-02104-w  CC

Sun, D., Bredeson, J., Bruce, H., & Patel, N. (2022). Identification and classification of cis-regulatory elements in the amphipod crustacean Parhyale hawaiensis. Development. https://doi.org/10.1242/dev.200793 

Winters, G., Teichberg, M., Reuter, H., Viana, I. G., & Willette, D. A. (2022). Editorial: Seagrasses under times of change. Frontiers in Plant Science, 13, 870478. https://doi.org/10.3389/fpls.2022.870478 

Albertin, C. B., Medina-Ruiz, S., Mitros, T., Schmidbaur, H., Sanchez, G., Wang, Z. Y., Grimwood, J., Rosenthal, J. J. C., Ragsdale, C. W., Simakov, O., & Rokhsar, D. S. (2022). Genome and transcriptome mechanisms driving cephalopod evolution. Nature Communications, 13(1), 2427. https://doi.org/10.1038/s41467-022-29748-w

Richter, N., Russell, J., Amaral-Zettler, L., DeGroff, W., Raposeiro, P., Gonçalves, V., de Boer, E., Pla-Rabes, S., Hernández, A., Benavente, M., Ritter, C., Sáez, A., Bao, R., Trigo, R., Prego, R., & Giralt, S. (2022). Long-term hydroclimate variability in the sub-tropical North Atlantic and anthropogenic impacts on lake ecosystems: a case study from Flores Island, the Azores. Quaternary Science Reviews, 285, 107525. https://doi.org/10.1016/j.quascirev.2022.107525

DeGiorgis, J., Jang, M., & Bearer, E. (2022). The giant axon of the squid: s simple system for axonal transport studies. Axonal Transport 2431, 3–22. https://doi.org/10.1007/978-1-0716-1990-2_1

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