Recent Publications

2023 Publications

Brown RE, Su XA, Fair S, Wu K, Verra L, Jong R, Andrykovich K, Freudenreich CH. The RNA export and RNA decay complexes THO and TRAMP prevent transcription-replication conflicts, DNA breaks, and CAG repeat contractions. PLoS Biol. 2022 Dec 27;20(12):e3001940. doi: 10.1371/journal.pbio.3001940. PMID: 36574440; PMCID: PMC9829180.

Polleys EJ, Del Priore I, Haber JE, Freudenreich CH. Structure-forming CAG/CTG repeats interfere with gap repair to cause repeat expansions and chromosome breaks. Nat Commun. 2023 Apr 29;14(1):2469. doi: 10.1038/s41467-023-37901-2. PMID: 37120647; PMCID: PMC10148874.

Masnovo C, Lobo A, Mirkin SM (2022) Replication dependent and independent mechanisms of GAA repeat instability. DNA Repair, 118:103385.

Rouse, AA, Patel, AD, Wainapel, S, and Kao, MH. (in press) Sex differences in vocal learning ability in songbirds are linked with differences in flexible rhythm pattern perception. Animal Behaviour

Tytell, E. D., Cooper, L., Lin, Y. L. and Reis, P. M. (2023). Regulation of the swimming kinematics of lampreys Petromyzon marinus across changes in viscosity. Journal of Experimental Biology 226, jeb245457. doi: 10.1242/jeb.245457.

2022 Publications

Adam Thomas, Julie Cox, Kelly Wolfe, Carrie Mingalone, Haleigh Yaspan, and Mitch McVey. (2022) Division of labor by the HELQ, BLM, and FANCM helicases during homologous recombination repair in Drosophila melanogaster. Genes 13: 474.

Beattie, U.K., Ysrael, M.C., Lok, S.E., Romero, L.M.  (2022) The effect of a combined fast and chronic stress on body mass, blood metabolites, corticosterone, and behavior in house sparrows (Passer domesticus).  Yale J. Biol Med.  95:19-31.

Landis, EA, E Fogarty, JC Edwards, O Popa, A Murat Eren, BE Wolfe. (2022) Microbial diversity and interaction specificity in kombucha tea fermentations. mSystems e00157-22

Mekdara, P. J., Tirmizi, S., Schwalbe, M. A. B. and Tytell, E. D. (2022). Comparison of aminoglycoside antibiotics and cobalt chloride for ablation of the lateral line system in giant danios. Integrative Organismal Biology 4, obac012.

Scibelli, A.E., Donatelli, C.M., Tidswell, B.K., Payton, M.R.,Tytell, E.D. and Trimmer, B.A. (2022) MONOLITh: A soft non-pneumatic foam robot with a functional mesh skin for use in delicate and unpredictable environments. Advanced Robotics https://doi.org/10.1080/01691864.2022.2029764.

2021 Publications

Christopher L. Reyes-Giler1, Brooke E. Benson1, Morgan Levy2, Xuqing Chen1, Anthony Pires3, Jan A. Pechenik2 and Sarah W. Davies1. (2021) The Marine Gastropod Crepidula fornicata Remains Resilient to Ocean Acidification Across Two Life History Stages. Front. Physiol., 25 August 2021 | https://doi.org/10.3389/fphys.2021.702864

Donatelli, C. M., Roberts, A. S., Scott, E., DeSmith, K., Summers, D., Abu-Bader, L., Baxter, D., Standen, E. M., Porter, M. E., Summers, A. P., and Tytell, E. D. (2021). Foretelling the flex—vertebral shape predicts behavior and ecology of fishes. Integrative and Comparative Biology 61, 414–426.

Gormally, B.M.G., van Rees, C.B., Bowers, E., Reed, J.M., Romero, L.M.  2021.  Feather corticosterone does not correlate with environmental stressors or body condition in an endangered waterbird.  Conserv. Physiol.  8:coaa125. Doi: 10.1093/conphys/coaa125

Landis, EA, AM Oliverio, EA McKenny, LM Nichols, N Kfoury, M Biango-Daniels, LK Shell, AA Madden, LR Shapiro, SK Sakunala, K Drake, A Robbat, M Booker, RR Dunn, N Fierer, BE Wolfe. 2021. The structure and function of sourdough starter microbiomes. eLife, 10: e61644 

Mekdara, P. J., Nasimi, F., Schwalbe, M. A. B. and Tytell, E. D. (2021). Tail beat synchronization during schooling requires a functional lateral line system in giant danios, Devario aequipinnatus. Integrative and Comparative Biology 61, 427–441.

Scibelli, A.E., Caron, D.P., Aonuma, H. and Trimmer, B.A. (2021) Proleg retractor muscles in Manduca sexta larvae are segmentally different suggesting anteroposterior specialization. Journal of Experimental Biology. 224, 1-7.10.1242/jeb.242508

2020 Publications

Bonoan RE, Feliciano PM, Chang, and Starks PT. 2020. Social benefits require a community: the influence of colony size on behavioral immunity in honey bees. Journal of Apicultural Research. DOI: 10.1007/s13592-020-00754-5

Bonoan RE, Gonzalez J, and Starks PT. 2020. The perils of forcing a generalist to be a specialist: lack of dietary essential amino acids impacts honey bee pollen foraging and colony growth. Journal of Apicultural Research. 59: 95-103.

Caron, D.P, Rimniceanu, M. Scibelli, A.E. and Trimmer, B.A. (2020) Nociceptive neurons respond to multimodal stimuli in Manduca sexta. Journal of Experimental Biology. jeb.218859 doi:10.1242/jeb.218859

Estrada, R.S., Gormally, B.M.G., Romero, L.M. 2020. Assessing background DNA damage across tissues in house sparrows. Soc. Integ. Comp. Biol.

Gormally, B.M.G., Macy, R., Martin, K., Wright-Lichter, J.X., Romero, L.M. 2020. Expanding the dexamethasone suppression test: assessing multiple synthetic glucocorticoids in house sparrows (Passer domesticus). Soc. Integ. Comp. Biol.

Gormally, B.M.G., Estrada, R., McVey, M., Romero, L.M. 2020. Expanding the acute stress phenotype: DNA damage rapidly increases in house sparrows. Soc. Integ. Comp. Biol.

Khristich AN, Armenia JF, Matera RM, Kolchinski AA, Mirkin SM. (2020) Large-scale contractions of Friedreich's ataxia GAA repeats in yeast occur during DNA replication due to their triplex-forming ability. Proc Natl Acad Sci USA 117:1628-1637

Jajoo, A., Donlon, C., Shnayder, S., Levin, M., and McVey, M., (2020), "Sertraline induces DNA damage and cellular toxicity in Drosophila that can be ameliorated by antioxidants", Scientific Reports, 10: 4512

Mukherjee, R., Caron D., Edson, T. and Trimmer, B. A. The neuromechanics of strike response in the caterpillar Manduca sexta. Revised submission 4/09/2020 Journal of Experimental Biology

Nealia C.M. House, Erica J. Polleys, Ishtiaque Quasem, Marjorie De la Rosa Mejia, Cailin E. Joyce, Oliver Takacsi- Nagy, Jocelyn E. Krebs, Stephen M. Fuchs, and Catherine H. Freudenreich. 2020. Distinct roles for S. cerevisiae H2A copies in recombination and repeat stability, with a role for H2A.1 threonine 126. Elife 2019;8:e53362 doi: 10.7554/eLife.53362

Pai, V., Cervera, J., Mafe, S., Willocq, V., Lederer, E., and Levin, M., (2020), "HCN2 Channel-induced Rescue of Brain Teratogenesis via local and long-range bioelectric repair", Frontiers in Cellular Neuroscience, in press

Reed, J. M., A. Nguyen, A. C. S. Owens, and S. M. Lewis. 2020. Linking the seven forms of rarity to extinction threats and risk factors: an assessment of North American fireflies. Biodiversity and Conservation 29:57-75.

Sarabeth Buckley, Selena Ahmed, Timothy Griffin & Colin Orians (2020) Extreme precipitation enhances phenolic concentrations of spinach (Spinacia oleracea), Journal of Crop Improvement.

van Rees, C. B., G. Surya, and J. M. Reed. 2020. Multiple sources of evidence for density dependence in the endangered Hawaiian stilt (Himantopus mexicanus knudsenii). Population Ecology 62:207-219.

Wadsworth, C. B., Okada, Y., & Dopman, E. B. (2020). Phenology-dependent cold exposure and thermal performance of Ostrinia nubilalis ecotypes. BMC evolutionary biology, 20(1), 1-14.
 

2019 Publications

Bodinaku, IA, J Shaffer, AB Connors, JL Steenwyk, MN Biango-Daniels, EK Kastman, A Rokas, A Robbat, and BE Wolfe. 2019. Rapid phenotypic and metabolomic domestication of wild Penicillium molds on cheese. mBio

Durant, F., Bischof, J., Fields, C., LaPalme, J., Hoi, A., and Levin, M., (2019), "The role of early bioelectric signals in the regeneration of planarian anterior/posterior polarity", Biophysical Journal, 116: 948-961

Glassman, L.W., Hagmann, C.E., Qadri, M.A., Cook, R.G., Romero, L.M. 2019. The effect of learning on heart rate and behavior of European starlings (Sturnus vulgaris). J. Exp. Zool-A. 331:506-516.

Gormally, B.M.G., Estrada, R., Yin, H., Romero, L.M. 2019. Recovery from repeated stressors: physiology and behavior are affected on different timescales in house sparrows. Gen. Comp. Endocrinol. In Press.

Gormally, B.M.G., Ramos, S., Yin, H., Romero, L.M.  2019.  Recovery periods during repeated stress impact

corticosterone and behavioral responses differently in house sparrows.  Horm. Behav112:81-88.

Jan A. Pechenik, Morgan Levy, Jonathan Allen.2019. Instant Ocean versus natural seawater: impacts on aspects of reproduction and development in three marine invertebrates.  Biological Bulletin.

Kaushal S, Wollmuth CE, Das Kohal, Hile SE, Regan SB, Barnes RP, Haouzi A, Lee, Soo Mi, House NCM, Guyumdzhyan M, Eckert KA & Freudenreich C. 2019.Sequence and Nuclease Requirements for Breakage and Healing of a Structure-Forming (AT)n Sequence within Fragile Site FRA16D. Cell Rep. 2019 Apr 23;27(4):1151-1164.e5. doi: 10.1016/j.celrep.2019.03.103.

Kocak E, Dykstra S, Nemeth A, Coughlin CG, Rodgers K, McVey M. (2019). The Drosophila melanogaster PIF1 helicase promotes survival during replication stress and processive DNA synthesis during double-strand gap repair. In revision at Genetics.

Kozak, G. M., Wadsworth, C. B., Kahne, S. C., Bogdanowicz, S. M., Harrison, R. G., Coates, B. S., & Dopman, E. B. (2019). Genomic basis of circannual rhythm in the european corn borer moth. Current Biology, 29(20), 3501-3509.

Miller, EA, PJ Kearns, BA Niccum, J O'Mara Schwartz, A Ornstein, EK Kastman, BE Wolfe. 2019. Establishment limitation constrains the abundance of lactic acid bacteria in the Napa cabbage phyllosphere. Applied and Environmental Microbiology 85:e00269-19

Pinet, K., Deolankar, M.*, Leung, B.*, and McLaughlin, K.A. (2019) Tissue remodeling: adaptive correction of craniofacial defects in pre-metamorphic Xenopus laevis tadpoles. Development. doi: 10.1242/dev.175893. (Selected for Research Highlights).

Pechenik, J.A., M. Levy, and J.D. Allen. 2019. Instant Ocean versus natural seawater: Impacts on aspects of reproduction and development in three marine invertebrates. Biological Bulletin 237: 16-25. (Selected as "Editor's Choice" for this issue).

Pechenik, J.A., A. Pires, J. Trudel, M. Levy T. Dooley, A. Resnikoff, and R. E. Taylor. 2019. Impact of ocean acidification on growth, onset of competence, and perception of cues for metamorphosis in larvae of the slippershell snail, Crepidula fornicata. Marine Biology 166:128

Rozen-Levy, S., Messner, W. and Trimmer, B. A. (2019) The design and development of Branch Bot: a branch- crawling, caterpillar-inspired, soft robot. The International Journal of Robotics Research.
Doi.org/10.1177/0278364919846358

Schwalbe, M. A. B., Boden, A. L., Wise, T. N. and Tytell, E. D. (2019). Red muscle activity in bluegill sunfish Lepomis macrochirus during forward accelerations. Scientific Reports 9, 8088.

Vigran, H. J., Kapral, A. G., Tytell, E. D. and Kao, M. H. (2019). Manipulating the perception of time affects voluntary breath-holding duration. Physiological Reports 7, e14309.

Wilson-Rich N, Bonoan RE, Taylor E, Lwanga L, and Starks PT. 2019. An improved method for testing invertebrate immune function as shown in the honey bee. Insectes Sociaux.  66: 91-105
 

2018 Publications

Bonoan RE, O'Connor LD & Starks PT. 2018. Seasonality of honey bees (Apis mellifera) micronutrient supplementation and environmental limitation. Journal of Insect Physiology. 107: 23-28

Boyden SD, Pott M & Starks PT. 2018. An Evolutionary Perspective on Night Terrors. Evolution, Medicine, and Public Health. 2018: 100–105

Busse SM, McMillen PT & Levin M. 2018. Cross-limb Communication During Xenopus Hind-limb Regenerative Response: Non-Local Bioelectric Injury Signals. Development. 145(19). doi: 10.1242/dev.164210

Graham KK, Eaton K, Obrien I, and Starks PT. 2018. Anthidium manicatum, an invasive bee, excludes a native bumble bee, Bombus impatiens, from floral resources. Biological Invasions. DOI: 10.1007/s10530-018-1889-7

Gormally, B.M., Wright-Lichter, J., Reed, J.M., Romero, L.M.  2018.  Physiological and behavioral responses to repeated stressors.  Peer J.  6:e4961.

Gormally, B., Ramos, S., Romero, L.M.  2018.  Examining how recovery periods during chronic stress impact physiology and behavior in Passer domesticus.  Soc. Integ. Comp. Biol.

Koch MR, House NCM, Cosetta CM, Jong RM, Salomon CG, Joyce CE, Philips EA, Su Xiaofeng A, Freudenreich CH. The Chromatin Remodeler Isw1 Prevents CAG Repeat Expansions During Transcription in Saccharomyces cerevisiae. Genetics (2018) Mar;208(3):963-976. doi: 10.1534/genetics.117.300529. Epub 2018 Jan 5.  PMID:29305386

Mekdara, P. J., Schwalbe, M. A. B., Coughlin, L. L. and Tytell, E. D. (2018). The effects of lateral line ablation and regeneration in schooling giant danios. J. Exp. Biol. online, jeb.175166.

Mukherjee, R., Vaughan, S. and Trimmer, B.A. (2018) The neuromechanics of proleg grip release. Journal of Experimental Biology, online, 10.1242/jeb.173856

Neil AJ, Liang MU, Khristich AN, Shah KA, Mirkin SM. (2018) RNA-DNA hybrids promote the expansion of Friedreich's ataxia (GAA)n repeats via break-induced replication. Nucleic Acids Res 46: 3487–3497

Orians, C.M., S. Gómez, and T. Korpita. 2018. Does mycorrhizal status alter herbivore-induced changes in whole- plant resource partitioning? AoB PLANTS, 10(1) doi.org/10.1093/aobpla/plx071

Pai, V. P, Pietak, A.,Willocq, V., Ye, B., Shi, N-Q., and Levin, M., (2018), "HCN2 Rescues brain defects by enforcing endogenous voltage pre-patterns", Nature Communications, 9 (998): doi:10.1038/s41467-018-03334-5

Parker Fischer, C., Wright-Lichter, J., Romero, L.M.  2018.  Chronic stress and the introduction to captivity: how wild house sparrows (Passer domesticus) adjust to laboratory conditions.  Gen. Comp. Endocrinol.  259:85-92.

Tytell, E. D., Carr, J. A., Danos, N., Wagenbach, C. O., Sullivan, C. M., Kiemel, T., Cowan, N. J. and Ankarali, M. M. (2018). Body stiffness and damping depend sensitively on the timing of muscle activation in lampreys. Integr. Comp. Biol. in press,.

Vaughan, S., H.-t. Lin, and Trimmer, B.A. (2018) Caterpillar climbing: robust, tension-based omni-directional locomotion. Journal of Insect Science, online.10.1093/jisesa/iey055

Wilson, C.M., R.N. Schaeffer, M. Hickin, C.M. Rigsby, A. Sommi, C.S. Thornber, C.M. Orians, E.L. Preisser. 2018. Chronic impacts of invasive herbivores on a foundational forest species: a whole-tree perspective. Ecology, 99:1783–1791. doi 10.1002/ecy.2384

Zhang, Y., Kastman, E. K., Guasto, J. S., & Wolfe, B. E. (2018). Fungal networks shape dynamics of bacterial dispersal and community assembly in cheese rind microbiomes. Nature communications, 9(1), 336.