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Year Published: 2016

State-dependent resource harvesting with lagged information about system states

Markov decision processes (MDPs), which involve a temporal sequence of actions conditioned on the state of the managed system, are increasingly being applied in natural resource management. This study focuses on the modification of a traditional MDP to account for those cases in which an action must be chosen after a significant time lag in...

Johnson, Fred A.; Fackler, Paul L.; Boomer, G Scott; Zimmerman, Guthrie S.; Williams, Byron K.; Nichols, James D.; Dorazio, Robert
Johnson, F.A., Fackler, P.L., Boomer, G.S., Zimmerman, G.S., Williams, B.K., Nichols, J.D., and Dorazio, R.M., 2016, State-dependent resource harvesting with lagged information about system states: PlosOne, v. 11, no. 6, art. e0157373, http://dx.doi.org/10.1371/journal.pone.0157373.

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Year Published: 2016

Estimating species – area relationships by modeling abundance and frequency subject to incomplete sampling

Models and data used to describe species–area relationships confound sampling with ecological process as they fail to acknowledge that estimates of species richness arise due to sampling. This compromises our ability to make ecological inferences from and about species–area relationships. We develop and illustrate hierarchical...

Yamaura, Yuichi; Connor, Edward F.; Royle, Andy; Itoh, Katsuo; Sato, Kiyoshi; Taki, Hisatomo; Mishima, Yoshio

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Year Published: 2016

Estimating juvenile Chinook salmon (Oncorhynchus tshawytscha) abundance from beach seine data collected in the Sacramento–San Joaquin Delta and San Francisco Bay, California

Resource managers rely on abundance or density metrics derived from beach seine surveys to make vital decisions that affect fish population dynamics and assemblage structure. However, abundance and density metrics may be biased by imperfect capture and lack of geographic closure during sampling. Currently, there is considerable uncertainty about...

Perry, Russell W.; Kirsch, Joseph E.; Hendrix, A. Noble
Perry, R.W., Kirsch, J.E., and Hendrix, A.N., 2016, Estimating juvenile Chinook salmon (Oncorhynchus tshawytscha) abundance from beach seine data collected in the Sacramento–San Joaquin Delta and San Francisco Bay, California: U.S. Geological Survey Open-File Report 2016–1099, 21 p., http://dx.doi.org/10.3133/ofr20161099.

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Year Published: 2016

Trade-offs between energy maximization and parental care in a central place forager, the sea otter

Between 1999 and 2014, 126 archival time–depth recorders (TDRs) were used to examine the foraging behavior of southern sea otters (Enhydra lutris nereis) off the coast of California, in both resource-abundant (recently occupied, low sea otter density) and resource-limited (long-occupied, high sea otter density) locations. Following predictions of...

Thometz, N M; Staedler, M.M.; Tomoleoni, Joseph; Bodkin, James L.; Bentall, G.B.; Tinker, M. Tim
Thometz, NM, MM Staedler, JA Tomoleoni, JL Bodkin, GB Bentall, MT Tinker. 2016. Trade-offs between energy maximization and parental care in a central place forager, the sea otter. Behavioral Ecology. doi: 10.1093/beheco/arw089

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Year Published: 2016

Taxonomy of the order Mononegavirales: update 2016

In 2016, the order Mononegavirales was emended through the addition of two new families (Mymonaviridae and Sunviridae), the elevation of the paramyxoviral subfamily Pneumovirinae to family status (Pneumoviridae), the addition of five free-floating genera (Anphevirus, Arlivirus, Chengtivirus, Crustavirus, and Wastrivirus), and several other changes...

Afonso, C.L.; Kurath, Gael; 82 Additional Authors
Afonso, C.L., G.K. Amarasinghe, K. Bányai, Y. Bào, C.F. Basler, S. Bavari, N. Bejerman, K.R. Blasdell, F.-X. Briand, T. Briese, A. Bukreyev, C.H. Calisher, K. Chandran, J. Chéng, A.N. Clawson, P.L. Collins, R.G. Dietzgen, O. Dolnik, L.L. Domier, R. Dürrwald, J.M. Dye, A.J. Easton, H. Ebihara, S.L. Farkas, J. Freitas-Astúa, P. Formenty, R.A.M. Fouchier, Y. Fù, E. Ghedin, M.M. Goodin, R. Hewson, M. Horie, T.H. Hyndman, D. Jiāng, E.W. Kitajima, G.P. Kobinger, H. Kondo, J.H. Kuhn, G. Kurath, R.A. Lamb, S. Lenardon, E.M. Leroy, C.-X. Li, X.-D. Lin, L. Liú, B. Longdon, S. Marton, A. Maisner, E. Mühlberger, S.V. Netesov, N. Nowotny, J.L. Patterson, S.L. Payne, J.T. Paweska, R.E. Randall, B.K. Rima, P. Rota, D. Rubbenstroth, M. Schwemmle, M. Shi, S.J. Smither, M.D. Stenglein, D.M. Stone, A. Takada, C. Terregino, R.B. Tesh, J.-H. Tian, K. Tomonaga, N. Tordo, J.S. Towner, N. Vasilakis, M. Verbeek, V.E. Volchkov, V. Wahl-Jensen, J.A. Walsh, P.J. Walker, D. Wang, L.-F. Wang, T. Wetzel, A.E. Whitfield, J. Xiè, K.-Y. Yuen, Y.-Z. Zhang. 2016. Taxonomy of the order Mononegavirales: update 2016. Arch. Virol. (Published online).

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Year Published: 2016

Movement patterns of Brook Trout in a restored coastal stream system in southern Massachusetts

Coastal Brook Trout (Salvelinus fontinalis) populations are found from northern Canada to New England. The extent of anadromy generally decreases with latitude, but the ecology and movements of more southern populations are poorly understood. We conducted a 33-month acoustic telemetry study of Brook Trout in Red Brook, MA, and adjacent Buttermilk...

Snook, Erin L.; Letcher, Benjamin H.; Dubreuil, Todd L.; Zydlewski, Joseph D.; O'Donnell, Matthew J.; Whiteley, Andrew R.; Hurley, Stephen T.; Danylchuk, Andy J.

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Year Published: 2016

A new genus and species of blind sleeper (Teleostei: Eleotridae) from Oaxaca, Mexico: First obligate cave gobiiform in the Western Hemisphere

Caecieleotris morrisi, new genus and species of sleeper (family Eleotridae), is described from a submerged freshwater cave in a karst region of the northern portion of the State of Oaxaca, Mexico, Río Papaloapan drainage, Gulf of Mexico basin. The new species represents the first cave-adapted sleeper known from the Western Hemisphere and is...

Walsh, Stephen J.; Chakrabarty, Prosanta

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Year Published: 2016

Head-started Kemp’s ridley turtle (Lepidochelys kempii) nest recorded in Florida: Possible implications

A head-started Kemp’s ridley sea turtle (Lepidochelys kempii) was documented nesting on South Walton Beach, Florida on 25 May 2015. This record supports the possibility that exposure to Florida waters after being held in captivity through 1–3 yrs of age during the head-starting process may have influenced future nest site selection of...

Shaver, Donna J.; Lamont, Margaret M.; Maxwell, Sharon; Walker, Jennifer Shelby; Dillingham, Ted
Shaver, D.J., Lamont, M.M., Maxwell, S., Walker, J.S., and Dillingham, T., 2016, Head-started Kemp’s ridley turtle (Lepidochelys kempii) nest recorded in Florida: possible implications: Chelonian Conservation and Biology, v. 15, no. 1, p. 138-143, http://dx.doi.org/10.2744/CCB-1192.1.

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Year Published: 2016

Historical baselines and the future of shell calcification for a foundation species in a changing ocean

Seawater pH and the availability of carbonate ions are decreasing due to anthropogenic carbon dioxide emissions, posing challenges for calcifying marine species. Marine mussels are of particular concern given their role as foundation species worldwide. Here, we document shell growth and calcification patterns in Mytilus californianus, the...

Pfister, Catherine A.; Roy, Kaustuv; Wootton, Timothy J.; McCoy, Sophie J.; Paine, Robert T.; Suchanek, Tom; Sanford, Eric
Pfister, CA, K Roy, JT Wootton, SJ McCoy, RT Paine, TH Suchanek, E Sanford. 2016. Historical baselines and the future of shell calcification for a foundation species in a changing ocean. Proceedings of the Royal Society B 283(1832): 20160392. doi: 10.1098/rspb.2016.0392

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Year Published: 2016

Physiology of the invasive apple snail Pomacea maculata: tolerance to low temperatures

Apple snails of the genus Pomacea native to South America have invaded and become established in Europe, Asia, and the United States. Both the channeled apple snail Pomacea canaliculata and the island apple snail Pomacea maculata have been reported in the United States. The two species are difficult to distinguish using morphological characters,...

Deaton, Lewis E.; Schmidt, William ; Leblanc, Brody ; Carter, Jacoby; Mueck, Kristy ; Merino, Sergio
Deaton, L.E., Schmidt, W., LeBlanc, B., Carter, J., Mueck, K., and Merino, S., 2016, Physiology of the invasive apple snail Pomacea maculata: tolerance to low temperatures: Journal of Shellfish Research, v. 35, no. 1, p. 207-210, http://dx.doi.org/10.2983/035.035.0122.

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Year Published: 2016

Identification of landscape features influencing gene flow: How useful are habitat selection models?

Understanding how dispersal patterns are influenced by landscape heterogeneity is critical for modeling species connectivity. Resource selection function (RSF) models are increasingly used in landscape genetics approaches. However, because the ecological factors that drive habitat selection may be different from those influencing dispersal and...

Roffler, Gretchen H.; Schwartz, Michael K.; Pilgrim, Kristy L.; Talbot, Sandra L.; Sage, George K.; Adams, Layne G.; Luikart, Gordon
Roffler, G.H., Schwartz, M.K., Pilgrim, K.L., Talbot, S.L., Sage, G.K., Adams, L.G., Luikart, G., 2016. Identification of landscape features influencing gene flow: How useful are habitat selection models?

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Year Published: 2016

And the first one now will later be last: Time-reversal in cormack-jolly-seber models

The models of Cormack, Jolly and Seber (CJS) are remarkable in providing a rich set of inferences about population survival, recruitment, abundance and even sampling probabilities from a seemingly limited data source: a matrix of 1's and 0's reflecting animal captures and recaptures at multiple sampling occasions. Survival and sampling...

Nichols, James D.
Nichols, J. D., 2016, And the first one now will later be last: Time-reversal in cormack-jolly-seber models: Statistical Science, v. 31, no. 2, p. 175-190.