PUBLICATIONS | Dubouelab

2025

Padmanaban, N, Ambosie, R, Choy, S, Marcus, S, Nilsson, SRO, Keene, AC, Kowalko, JE, and Duboué, E.R. (2025). Automated behavioral profiling using neural networks reveals differences in stress-like behavior between cave and surface-dwelling Astyanax mexicanus. bioRxiv, doi.org/10.1101/2025.01.30.635725

2024

Gallman K, Rastogi A, North O, O'Gorman M, Hutton P, Lloyd E, Warren W, Kowalko JE, Duboué ER, Rohner N, Keene AC. (2024) Postprandial sleep in short-sleeping Mexican cavefish. Journal of Experimental Zoology Part A, 341(10):1084-1096

Kozol, RA, Canavan, A, Tolentino, B, Keene, A.C., Kowalko, JE, Duboué, E.R. (2024) Evolution of a central dopamine circuit underlies adaptation of light-evoked sensorimotor response in the blind cavefish, Astyanax mexicanus. bioRxiv

Lloyd, E, Xia, F, Moore, K, Zertuche, C, Rastogi, A, Kozol, RA, Kensior, O, Warren, W, Appelbaum, L, Moran, RL, Zhao, C, Duboué, E.R., Rohner, N, Keene, AC. (2024) Elevated DNA Damage without signs of aging in the short-sleeping Mexican Cavefish. bioRxiv. doi:10.1101/2024.04.18.590174

Shennard, D, Sifunetes-Romero, I, Amboise, R, Abdelaziz, J, Duboué, E.R., and Kowalko, JE. (2004). The rx3 gene contributes to the evolution of eye loss in the cavefish Astyanax mexicanus, bioRxiv, doi.org/10.1101/2024.12.11.628050

2023

Paz A, Holt KJ, Clarke A, Aviles A, Abraham B, Keene AC, Duboué ER, Fily Y, Kowalko JE. (2023) Changes in local interaction rules during ontogeny underlie the evolution of collective behavior. iScience. 2023 Jul 20;26(9):107431.

Kozol, R. A., Conith, A. J., Yuiska, A., Cree-Newman, A., Tolentino, B., Banesh, K., Paz, A., Lloyd, E., Kowalko, J. E., Keene, A. C., Albertson, R. C., & Duboué, E. R. (2023). A brain-wide analysis maps structural evolution to distinct anatomical modules. Elife. Jul 27;12:e80777

Kozol, R.A., et al. (2023) Standardized Husbandry Protocols for Astyanax. Zebrafish. Apr;20(2):86-94.

Lloyd E, Privat M, Sumbre G, Duboué ER, Keene AC. (2023) A protocol for whole-brain Ca2+ imaging in Astyanax mexicanus, a model of comparative evolution. STAR Protoc. 2023 Dec 15;4(4):102517.

2022

Coffman, J. A., Burman, M. A., & Duboué, E. R. (2022). Editorial: Early Life Stress and Developmental Programming of Immune and Nervous System Responsivity. Front Cell Dev Biol, 10, 897251.

Chin, J. S. R., Phan, T.-A. N., Albert, L. T., Keene, A. C., & Duboué, E. R. (2022). Long lasting anxiety following early life stress is dependent on glucocorticoid signaling in zebrafish. Sci Rep. Jul 27;12(1):12826.

Lloyd, E., McDole, B., Privat, M., Jaggard, J. B., Duboué, E.R., Sumbre, G., & Keene, A. (2022). Blind cavefish retain functional connectivity in the tectum despite loss of retinal input. Curr Biol. Sep 12;32(17):3720-3730.e3.

Oliva, C., Hinz, N. K., Robinson, W., Barrett Thompson, A. M., Booth, J., Crisostomo, L. M., Zanineli, S., Tanner, M., Lloyd, E., O’Gorman, M., McDole, B., Paz, A., Kozol, R., Brown, E. B., Kowalko, J. E., Fily, Y., Duboué, E. R., & Keene, A. C. (2022). Characterizing the genetic basis of trait evolution in the Mexican cavefish. Evol Dev. Sep;24(5):131-144.

Patch, A., Paz, A., Holt, K. J., Duboué, E. R., Keene, A. C., Kowalko, J. E., & Fily, Y. (2022). Kinematic analysis of social interactions deconstructs the evolved loss of schooling behavior in cavefish. PLoS One, 17(4), e0265894.

Duboué E.R., Kowalko J.E., Keene A.C. (2022). Course-based undergraduate research experiences (CURES) as a pathway to diversify science. Evol Dev. Sep;24(5):127-130.

Rodriguez-Morales, R., Gonzalez-Lerma, P., Yuiska, A., Han, J. H., Guerra, Y., Crisostomo, L., Keene, A. C., Duboué, E. R., & Kowalko, J. (2022). Convergence on reduced aggression through shared behavioral traits in multiple populations of Astyanax mexicanus. BMC Ecol Evol. Oct 14;22(1):116

2021

Zaupa, M., Naini, S. M. A., Younes, M. A., Bullier, E., Duboué, E. R., Le Corronc, H., Soula, H., Wolf, S., Candelier, R., Legendre, P., Halpern, M. E., Mangin, J. M., & Hong, E. (2021). Trans-inhibition of axon terminals underlies competition in the habenulo-interpeduncular pathway. Curr Biol, 31(21), 4762-4772.e4765.

O'Gorman, M., Thakur, S., Imrie, G., Moran, R. L., Choy, S., Sifuentes-Romero, I., Bilandžija, H., Renner, K. J., Duboué, E.R., Rohner, N., McGaugh, S. E., Keene, A. C., & Kowalko, J. E. (2021). Pleiotropic function of the oca2 gene underlies the evolution of sleep loss and albinism in cavefish. Curr Biol, 31(16), 3694-3701.e3694.

2020

Chin, J. S. R., Loomis, C. L., Albert, L. T., Medina-Trenche, S., Kowalko, J., Keene, A. C., & Duboué, E. R. (2020). Analysis of stress responses in Astyanax larvae reveals heterogeneity among different populations. J Exp Zool B Mol Dev Evol, 334(7-8), 486-496.

Jaggard, J. B., Lloyd, E., Yuiska, A., Patch, A., Fily, Y., Kowalko, J. E., Appelbaum, L., Duboué, E. R., & Keene, A. C. (2020). Cavefish brain atlases reveal functional and anatomical convergence across independently evolved populations. Sci Adv, 6(38).

Paz, A., McDole, B., Kowalko, J. E., Duboué, E. R., & Keene, A. C. (2020). Evolution of the acoustic startle response of Mexican cavefish. J Exp Zool B Mol Dev Evol, 334(7-8), 474-485.

Choi, J. H., Duboué, E. R., Macurak, M., Chanchu, J. M., & Halpern, M. E. (2021). Specialized neurons in the right habenula mediate response to aversive olfactory cues. Elife. Dec 8;10:e72345

2019

Loomis, C., Pueß, R., Jaggard, J.B., Raftopoulos, S.°, Raftopoulos, A.°, Whu, D.°, Green, M.°, McGaugh, S., Rohner, N, Keene, A.C., and Duboué., E.R.(2019). An adult brain atlas reveals broad neuroanatomical changes in independently evolved populations of Mexican cavefish. bioRxivdoi.org/10.1101/648188

Stahl, B.A., Peuß, R, McDole B, Kenzior A, Jaggard JB, Gaudenz K, Krishnan J, McGaugh SE, Duboué E.R., Keene AC, Rohner N. (2019) Stable transgenesis in Astyanax mexicanus using the Tol2 transposase system. Developmental Dynamics, doi: 10.1002/dvdy.32.

Jaggard, J.B., Lloyd, E., Lopatto, A.°, Duboué, E.R., and Keene, A.C. (2019). Automated measurements of sleep and locomotor activity and Mexican cavefish. Journal of Visualized Experiments (145): doi: 10.3791/59198.

Stahl, B.A., Jaggard, J.B., Chin, J.S.R., Kowalko, J.E., Keene, A.C., and Duboué, E.R.(2019) Manipulation of gene function in Mexican cavefish. Journal of Visualized Experiments (146): doi: 10.3791/59093.

Chin, J.S.R., Albert, L.T.°, Loomis, C.L., Keene, A.C., and Duboué, E.R.(2019) Behavioral approaches to studying innate stress in zebrafish. Journal of Visualized Experiments(147): doi: 10.3791/59092.

2017

Duboué, E.R., Hong, E, Eldred, K.C., Halpern, M.E. (2017) Left Habenular Activity Attenuates Fear Responses in Larval Zebrafish. Curr Biol, 27(14): 2154-2162.e3.

Duboué, E.R.and Halpern M.E. (2017) Genetic and transgenic approaches to study laterality in zebrafish. In Lateralized Brain Functions, Eds. Lesley Rogers and Giorgio Vallortigara, pp. 553-589. New York, NY: Humna Press, Springer.

2018

Keene, A.C. and Duboué, E.R.(2018) The origins and evolution of sleep. J Exp Biol. 221(Pt 11) pii: jeb159533

Chin, J.S.R., Gassant, C.E.°, Amaral, P.M., Lloyd, E.,Stahl, B.A., Jaggard, J.B., Keene, A.C., Duboué, E.R.(2018) Convergence on reduced stress behavior in the Mexican blind cavefish. Dev Biol. Pii: s0012-1606(18)30124-6.

Lloyd, E., Olive, C°, Stahl, BA, Jaggard, J.B., Amaral, P., Duboué, E.R.,Keene, A.C. (2018) Evolutionary shift towards lateral line dependent prey capture behavior in the bind Mexican cavefish. Dev Biol. Pii: s0012-1606(18)30119-2.

Jaggard, J.B., StahlB.A., Lloyd, E., Prober, D.A., Duboué, E.R., and Keene, A.C. (2018) Hypocretin underlies the evolution of sleep loss in the Mexican cavefish. eLife. 7: pii: 32637, doi: 10.7554/eLife32637

2016

Duboué, E.R.and Keene A.C. (2016) Investigating the Evolution of Sleep in the Mexican Cavefish. In Biology and Evolution of the Mexican Cavefish, Academic Press, pages 291-308, ISBN 9780128021484

2015

Facchin, L*, Duboué, E.R.*, Halpern, M.E. (2015) Disruption of epithalamic left-right asymmetry increasesanxiety in zebrafish. J Neurosci, 35(48): 15847-59

Yoshizawa M., Robinson B.G., Duboué E.R., Masek P., Jaggard J.B., O'Quin K.E., Borowsky R.L., Jeffery W.R., Keene A.C. (2015) Distinct genetic architecture underlies the emergence of sleep loss and prey-seeking behavior in the Mexican cavefish. BMC Biology, 13-15.

2012

Duboué, E.R., Borowsky, R.L., and Keene, A.C. (2012) b-adrenergic signaling regulates evolutionarily derived sleep loss in the Mexican Cavefish. Brain Behavior and Evolution,80(4): 233-43.

Duboué, E.R.and Borowsky, R.L. (2012) Altered Rest-Activity patterns evolve via circadian independent mechanisms in cave adapted balitorid loaches. PLoS One, 7(2):e30868.

2011

Duboué, E.R., Keene, A.C., and Borowsky, R. (2011) Evolutionary convergence on sleep lose in Cavefish Populations. Curr Biol21: 671-6.

2010

Keene A. C,Duboué, E. R, McDonald D. M, Dus M, Suh G. S, et al. (2010) Clock and cycle limit starvation-induced sleep loss in Drosophila. Curr Biol20: 1209–1215.

° = undergraduate student as author

* = equal contribution author