The following are selected publications from CODEX:
Methods & Tools
Bierlich, K.C., Schick, R.S., Hewitt, J., Dale, J., Goldbogen, J.A., Friedlaender, A.S., Johnston D.J. (2021). A Bayesian approach for predicting photogrammetric uncertainty in morphometric measurements derived from UAS. Marine Ecology Progress Series. DOI: https://doi.org/10.3354/meps13814
Bierlich, K.C., Hewitt, J., Bird, C.N., Schick R.S., Friedlaender, A.S., Torres, L.G., Dale, J., Goldbogen, J.A., Read, A., Calambokidis J., Johnston, D.W. (2021). Comparing uncertainty associated with 1-, 2-, and 3D aerial photogrammetry-based body condition measurements of baleen whales. Frontiers in Marine Science. 8:749943. doi: 10.3389/fmars.2021.749943
Torres, W.I., & Bierlich, K.C. (2020). MorphoMetriX: a photogrammetric measurement GUI for morphometric analysis of megafauna. Journal of Open Source Software, 5(45), 1825. https://doi.org/10.21105/joss.01825
Bird, C.N., and Bierlich, K.C. (2020). CollatriX: A GUI to collate MorphoMetriX outputs. Journal of Open Source Software, 5(51), 2328. https://doi.org/10.21105/joss.02328
Bierlich, K.C., Wengrove, D., Bird, C. N., Davidson, R., Chandler, T., Torres, L. G., Cantor, M. (2024). LidarBoX: a 3D-printed, open-source altimeter system to improve photogrammetric accuracy for off-the-shelf drones. Drone Systems and Applications. DOI: 10.1139/dsa-2023-0051. http://dx.doi.org/10.1139/dsa-2023-0051
Bierlich, K.C. & Karki, S., Bird, C.N., Fern, A., Torres, L.G. (2024). Automated body length and body condition measurements of whales from drone videos for rapid assessment of population health. Marine Mammal Science, e13137. https://doi.org/10.1111/mms.13137
Morphology and body condition
Barlow, Dawn; Bierlich, K.C.; Oestreich, William; Chiang, Gustavo; Durban, John; Goldbogen, Jeremy; Johnston, David; Leslie, Matthew; Moore, Michael; Ryan, John; Torres, Leigh (2024). Shaped by their environment: variation in blue whale morphology across three productive coastal ecosystems. Integrative Organismal Biology, obad039, https://doi.org/10.1093/iob/obad039
Bierlich, K.C., Hewitt, J., Schick R.S., Pallin, L., Dale, J., Friedlaender, A.S., Christiansen, F., Sprogis K.R., Dawn, A.H., Bird, C.N., Larsen, G., Nichols, R., Shero, M., Goldbogen, J.A., Read, A., Johnston, D.W. (2022). Seasonal gain in body condition of foraging humpback whales along the Western Antarctic Peninsula. Frontiers in Marine Science. 9, 1–16. doi:10.3389/fmars.2022.1036860 https://www.frontiersin.org/articles/10.3389/fmars.2022.1036860/full
Torres, L.G., Bird, C., Rodrigues-Gonzáles, F., Christiansen F., Bejder, L., Lemos, L., Urbán Ramírez, J., Swartz, S., Willoughby, A., Hewitt., J., Bierlich, K.C. (2022). Range-wide comparison of gray whale body condition reveals contrasting sub-population health characteristics and vulnerability to environmental change. Frontiers in Marine Science. 9:867258. https://doi.org/10.3389/fmars.2022.867258
Morphology and growth
Pirotta, E. & Bierlich, K. C. New, L., Hildebrand, L., Bird, C. N., Fernandez Ajó, A., & Torres, L. G. (2024). Modeling individual growth reveals decreasing gray whale body length and correlations with ocean climate indices at multiple scales. Global Change Biology, 30(6). https://doi.org/10.1111/gcb.17366
Bierlich, K. C., Kane, A., Hildebrand, L., Bird, C. N., Fernandez Ajo, A., Stewart, J. D., Hewitt, J., Hildebrand, I., Sumich, J., & Torres, L. G. (2023). Downsized: gray whales using an alternative foraging ground have smaller morphology. Biology Letters, 19(8). https://doi.org/10.1098/rsbl.2023.0043
Morphology to assess pregnancy
Fernandez Ajo, A, Pirotta, E., Bierlich, K.C., Hildebrand, L., Bird, C.N., Hunt, K.E., Buck, C.L., New, L., Dillon, D., Torres, L.G. (2023). Assessment of a noninvasive approach to pregnancy diagnosis in gray whales though drone-based photogrammetry and faecal hormone analysis. Royal Society Open Science. https://doi.org/10.1098/rsos.230452
Morphology and behavior
Bird, C., Pirotta, E., New, L., Bierlich, K.C., Hildebrand, L., Fernandez-Ajo, A., & Torres, L. (2024). Bubble blasts! An adaptation for buoyancy regulation in shallow foraging gray whales. Ecology and Evolution. https://doi.org/10.1002/ece3.70093
Bird, C. N., Pirotta, E., New, L., Bierlich, K.C., Donnelly, M., Hildebrand, L., Fernandez Ajó, A., & Torres, L. G. (2024). Growing into it: evidence of an ontogenetic shift in grey whale use of foraging tactics. Animal Behaviour, 214, 121–135. https://doi.org/10.1016/j.anbehav.2024.06.004
Morphology and demography
Pallin, L., Bierlich, KC, Durban, J. Fearnbach, H., Savenko, O., C.S. Baker, E. Bell, Double, M.C., de la Mare, W. , Goldbogen, J. , Johnston, D., Kellar, N., Nichols, R., Nowacek, D., Read, A.J., Steel, D., Friedlaender, A. (2022) Demography of an ice-obligate mysticete in a region of rapid environmental change. Royal Society of Open Science. 9(11). https://doi.org/10.1098/rsos.220724
Morphology and foraging
Cade, D.E., Kahane-Rapport, S.R., Gough, W.T., Bierlich, K.C., Linksy, J.M.J., Johnston, D.W., Goldbogen, J.A., Friedlaender, A.S. (2023). Ultra-high feeding rates of Antarctic minke whales imply a lower limit for body size in engulfment filtration feeders. Nature Ecology and Evolution. https://www.nature.com/articles/s41559-023-01993-2