Publications

Google Scholar Profile

Books

• Allendorf FW, Funk WC, Aitken SN, Byrne M, Luikart G (2022) Conservation and the Genomics of Populations, 3rd edition. Oxford University Press, Oxford.

Book reviews:

• Segelbacher G (2022) Conservation and the genomics of populations, 3rd edition, Allendorf F. W., Funk W. C., Aitken S. N., Byrne M., Luikart G. Evolutionary Applications 15, 1965-1966.

• Driscoll C (2023) Book Review: Conservation and the Genomics of Populations: Third edition. Journal of Heredity 114, 195-197. 

• Galla SJ, Mittan-Moreau CS, Barbosa S (2023) Capturing conservation in the post-genomics era: a book review of “Conservation and the Genomics of Populations”. Conservation Genetics 24, 1-5.

• Sramkó G (2023) A deep dive into evolutionary genomics and its use in conservation science. Conservation Biology 37:e14111.

Refereed Journal Articles and Book Chapters Published or In Press

Symbols indicate postdoctoral (‡), graduate (*), and undergraduate (†) co-authors

2024

• Mastretta-Yanes A, da Silva JM, Grueber CE, Castillo-Reina L, Köppä V, Forester BR, Funk WC, Heuertz M, Ishihama F, Jordan R, Mergeay J, Paz-Vinas I, Julio Rincon-Parra V, Rodriguez-Morales MA, Arredondo-Amezcua L, Brahy G, DeSaix M*, Durkee L*, Hamilton A*, Hunter ME, Koontz A*, Iris Lang, Latorre MC, Latty T, Llanes-Quevedo A, MacDonald AJ, Mahoney M, Miller C*, Ornelas JF, Ramírez-Barahona S, Robertson E*, Russo I-RM, Arcila Santiago M, Shaw RE, Shea GM, Sjögren-Gulve P, Suzuki Spence E, Stack T, Suárez S, Takenaka A, Thurfjell H, Turbek S‡, van der Merwe M, Visser F, Wegier A, Wood G, Zarza E, Laikre L, Hoban S (2024) Multinational evaluation of genetic diversity indicators for the Kunming-Montreal Global Biodiversity Monitoring Framework. Ecology Letters, in press.

• Leigh DM‡, Vandergast A, Hunter ME, Crandall E, Funk WC, Garroway CJ, Hoban S, Oyler-McCance SJ, Rellstab C, Segelbacher G, Schmidt C‡, Vázquez-Domínguez E, Paz-Vinas I‡ (2024) Don’t make genetic data disposable: Best practices for genetic and genomic data archiving. Nature Ecology and Evolution, https://doi.org/10.1038/s41559-024-02423-7.

• Hardy B*, Muths E, Funk WC, Bailey L (2024) Quantifying intraspecific variation in host resistance and tolerance to a lethal pathogen. Journal of Animal Ecology, in press.

• Erwin JE‡, Logan KA, Trumbo DR‡, Funk WC, Culver M (2024) Effects of hunting on mating, relatedness, and genetic diversity in a puma population. Molecular Ecology, in press.

• Páez-Vacas M*, Funk WC (2024) Thermal limits along tropical elevation gradients: poison frog tadpoles show plasticity but maintain divergence across elevation. Journal of Thermal Biology 120, 103815.

• Clancey E‡, MacPherson A, Cheek RG*, Mouton JC‡, Sillett TS, Ghalambor CK, Funk WC, Hohenlohe PA (2024) Unraveling adaptive evolutionary divergence at microgeographic scales. The American Naturalist 203, E35-E49.

2023

• Trumbo D‡, Hardy B*, Crockett H, Muths E, Forester BR, Cheek RG*, Zimmerman S, Corey-Rivas S, Bailey L, Funk WC (2023) Conservation genomics of an endangered montane amphibian reveals low population structure, low genomic diversity, and selection pressure from disease. Molecular Ecology 32, 6777-6795. 

• Cicchino AS*, Shah AA, Forester BR, Dunham JB, Poff NL, Ghalambor CK, Funk WC (2023) Acclimation capacity of critical thermal maximum varies among populations: consequences for estimates of physiological vulnerability. Ecosphere 14, e4691.

• Cicchino AS*, Martinez CM†, Funk WC, Forester BR‡ (2023) Temperature and development drive variation in oral morphology among tailed frog (Ascaphus spp.) populations. Ichthyology and Herpetology 111, 448-455.

• Cicchino AS*, Shah AA, Forester BR, Dunham JB, Ghalambor CK, Funk WC (2023) Multi-scale relationships in thermal limits within and between two cold-water frog specialists uncover different trends in physiological vulnerability. Freshwater Biology 68, 1267-1278.

• Cicchino AS*, Ghalambor CK, Funk WC (2023) Linking critical thermal maximum to mortality from thermal stress in a cold-water frog. Biology Letters 19, 20230106.

• Turbek SP, Funk WC, Ruegg KC (2023) Where to draw the line? Expanding the delineation of conservation units to highly mobile taxa. Journal of Heredity 114, 300-311. 

• Hoban S, Bruford MW, da Silva JM, Funk WC, Frankham R, Gill MJ, Grueber CE, Heuertz M, Hunter ME, Kershaw F, Lacy RC, Lees C, Lopes-Fernandes M, MacDonald AJ, Mastretta-Yanes A, McGowan PJK, Meek MH, Mergeay J, Millette KL, Mittan-Moreau CS, Navarro LM, O’Brien D, Ogden R, Segelbacher G, Paz-Vinas I, Vernesi C, Laikre L (2023) Genetic diversity Goals and Targets have improved, but remain insufficient for clear implementation of the post-2020 global biodiversity framework. Conservation Genetics 24, 181-191. 

• Kozakiewicz C‡, Burridge CP, Lee JS, Kraberger S, Fountain-Jones NM‡, Fisher RN, Lyren LM, Jennings MK, Riley SPD, Serieys LEK, Craft M, Funk WC, Crooks K, VandeWoude S, Carver S (2023) Habitat connectivity and host relatedness influence virus spread across an urbanising landscape in a fragmentation-sensitive carnivore. Virus Evolution 9, veac122.

• Hardy B*, Muths E, Lambert B, Schneider S, Funk WC, Bailey L (2023) Compensatory recruitment unlikely in high elevation amphibian populations challenged with disease. Journal of Applied Ecology 60, 121-131.

• Salerno P‡, Chan LM, Pauly GB, Funk WC, Robertson JM (2023) Near-shore island lizard fauna shaped by a combination of human-mediated and natural dispersal. Journal of Biogeography 50, 116-129. 

2022

• Gilbertson MLJ*, Fountain-Jones N‡, Malmberg JL, Gagne RB, Lee JS, Kraberger S, Kechejian S, Petch R, Chiu E*, Onorato D, Cunningham MW, Crooks KR, Funk WC, Carver S, VandeWoude S, VandeWoude K, VanderWaal K, Craft ME (2022) Apathogenic proxies for transmission dynamics of a fatal virus. Frontiers in Veterinary Science 9, 940007.

• Forester BR‡, Beever E, Darst C, Szymanski J, Funk WC (2022) Linking evolutionary potential to extinction risk: applications and future directions. Frontiers in Ecology and the Environment 20, 507-515.

• Forester BR‡, Murphy MA, Mellison C, Petersen J, Pilliod D, Van Horne R, Harvey J, Funk WC (2022) Genomics-informed delineation of conservation units in a desert amphibian. Molecular Ecology 31, 5249-5269.

• Cheek R*, Forester BR‡, Salerno PE‡, Trumbo DR‡, Langin KM, Chen N, Sillett TS, Morrison SA, Ghalambor CK, Funk WC (2022) Habitat-linked genetic variation supports microgeographic adaptive divergence in an island-endemic bird species. Molecular Ecology 31, 2830-2846.

• Hoban S, Archer F, Bertola L, Bragg J, Breed M, Bruford M, Coleman M, Ekblom R, Funk WC, Grueber C, Hand B, Jaffé R, Jensen E, Johnson J, Kershaw F, Liggins L, MacDonald A, Mergeay J, Miller J, Muller-Karger F, O'Brien D, Paz-Vinas I, Potter K, Razgour O, Vernesi C, Hunter M (2022) Global genetic diversity status and trends: towards a suite of Essential Biodiversity Variables (EBVs) for genetic composition. Biological Reviews 97, 1511-1538.

• Cayuela H, Dorant Y, Forester BR‡, Jeffries DL, McCaffery RM, Eby L, Hossack B, Gippet JMW, Pilliod DS, Funk WC (2022) Genomic signatures of thermal adaptation are associated with clinal shifts of life history in a broadly distributed frog. Journal of Animal Ecology 91, 1222-1238.

• Kershaw F, Bruford MW, Funk WC, Grueber CE, Hoban S, Hunter ME, Laikre L, MacDonald AJ, Meek MH, Mittan C‡, O’Brien D, Ogden R, Shaw RE, Vernesi C, Segelbacher G (2022) The Coalition for Conservation Genetics—Working across organizations to build capacity and achieve change in policy and practice. Conservation Science and Practice 4, e12635.

• Gagne RB‡, Crooks K, Craft ME, Chiu ES*, Fountain-Jones NM‡, Malmberg JL, Carver S, Funk WC, VandeWoude S (2022) Parasites as conservation tools. Conservation Biology 36, e13719.

• Fountain-Jones NM‡, Kraberger S, Gagne R, Gilbertson MLJ*, Trumbo DR‡, Charleston M, Salerno P, Funk WC, Crooks K, Logan K, Alldredge M, Dellicour S, Baele G, Didelot X, VandeWoude S, Carver S, Craft ME (2022) Hunting alters viral transmission and evolution. Nature Ecology and Evolution 6, 174-182.

• Borges IL*, Gerberich JC†, Angeloni LM, Funk WC, Fitzpatrick SW (2022) Reproductive benefits associated with dispersal in headwater populations of Trinidadian guppies (Poecilia reticulata). Ecology Letters 25, 344-354.

• Páez-Vacas M*, Trumbo DR‡, Funk WC (2022) Contrasting environmental drivers of genetic and phenotypic divergence in an Andean poison frog (Epipedobates anthonyi). Heredity 128, 33-44.

• Gamboa MP, Ghalambor CK, Sillett TS, Morrison SA, Funk WC (2022) Adaptative divergence in bill morphology and other thermoregulatory traits is facilitated by restricted gene flow in song sparrows on the California Channel Islands. Molecular Ecology 31, 603-619.

2021

• Kardos M, Armstrong EE*, Fitzpatrick SW, Hauser S‡, Hedrick PW, Miller J‡, Tallmon DA, Funk WC (2021) The crucial role of genome-wide genetic variation in conservation. Proceedings of the National Academy of Sciences of the United States of America 118, e2104642118.

• Kozakiewicz C, Funk WC (2021) Bat signal (of selection) summons evolutionary hope in face of epidemic disease: an example of the power and promise of genetic monitoring. Molecular Ecology 30, 5624-5627.

• Hoban S, Campbell CD, da Silva J, Ekblom R, Funk WC, Garner BA, Godoy JA, Kershaw F, MacDonald AJ, Mergeay J, Minter M, O’Brien D, Paz-Vinas I, Pearson SK, Pérez-Espona S, Potter KM, Russo I-RM, Segelbacher G, Vernesi C, Hunter ME (2021) Genetic diversity is considered important but interpreted narrowly in country reports to the Convention on Biological Diversity: current actions and indicators are insufficient. Biological Conservation 261, 109233.

• Larson EI*, Poff NL, Funk WC, Harrington RA*, Kondratieff BC, Morton SG*, Flecker AS (2021) A unifying framework for analyzing temporal changes in functional and taxonomic diversity along disturbance gradients. Ecology 102, e03503.

• Desrosiers MA*, Langin KM, Funk WC, Sillett TS, Ghalambor CK, Morrison SA, Angeloni LA (2021) Body size is associated with yearling breeding and extra-pair mating in the Island Scrub-Jay. Ornithology 138, ukab045.

• Schweizer RM‡, Saarman N, Ramstad KM, Forester BR‡, Kelley JL, Hand BK, Malison RL, Ackiss AS‡, Watsa M, Nelson T, Beja-Pereira A, Waples RS, Funk WC, Luikart G (2021) Big data in conservation genomics: boosting skills, hedging bets, and staying current in the field. Journal of Heredity 112, 313-327.

• Hoban S, Bruford M, Lopes-Fernandes M, Funk WC, Galbusera P, Griffith P, Grueber C, Heuertz M, Hunter M, Hvilsom C, Kershaw F, Kalamujic Stroil B, Khoury C, Laikre L, MacDonald A, Mergeay J, Meek M, Mittan C*, Mukassabi T, O’Brien D, Ogden R, Palma da Silva C, Ramakrishnan U, Segelbacher G, Shaw R, Sjogren-Gulve P, Velickovic N, Vernesi C (2021) Global commitments to conserving genetic diversity are now necessary and feasible. BioScience 71, 964-976.

• Laikre L, Hohenlohe PA, Allendorf FW, Bertola LD, Breed MF, Bruford MW, Funk WC, Gajardo G, González-Rodríguez A, Grueber CE, Hedrick PW, Heuertz M, Hunter ME, Johannesson K, Liggins L, MacDonald AJ, Mergeay J, Moharrek F, O’Brien D, Ogden R, Orozco-terWengel P, Palma-Silva C, Pierson J, Paz-Vinas I, Russo I-RM, Ryman N, Segelbacher G, Sjögren-Gulve P, Waits LP, Vernesi C, Hoban S (2021) Continued improvement to genetic diversity indicator for CBD. Conservation Genetics  22, 533-536.

• Trumbo DR‡, Funk WC, Pauly GB, Robertson JM (2021) Conservation genetics of an island-endemic lizard: low Ne and the critical role of intermediate temperatures for genetic connectivity. Conservation Genetics 22, 783-797.

• Hohenlohe PA, Funk WC, Rajora OP (2021) Population genomics for wildlife conservation and management. Molecular Ecology 30, 62-82.

• Hoban S, Paz-Vinas I, Aitken S, Bertola LD, Breed M, Bruford M, Funk WC, Grueber CE, Heuertz M, Hohenlohe P, Hunter ME, Jaffé R, Lopes Fernandes M, Mergeay J, Moharrek F, O’Brien D, Segelbacher G, Vernesi C, Waits L, Laikre L (2021) Effective population size remains a suitable, pragmatic indicator of genetic diversity for all species, including forest trees. Biological Conservation 253, 108906.

• Shah AA*, Woods HA, Havird JC‡, Encalada AC, Flecker AS, Funk WC, Guayasamin JM, Kondratieff BC, Poff NL, Thomas SA, Zamudio KR, Ghalambor CK (2021) Temperature-dependence of metabolic rate in tropical and temperate aquatic insects: support for the Climate Variability Hypothesis in mayflies but not stoneflies. Global Change Biology 27, 297-311.

• Fountain-Jones NM‡, Kraberger S‡, Gagne RB‡, Trumbo DR‡, Salerno PE‡, Funk WC, Crooks KR, Biek R, Alldredge M, Logan K, Baele G, Dellicour S, Ernest HB, VandeWoude S, Carver S, Craft ME (2021) Host relatedness and landscape connectivity shape pathogen spread in the puma, a large secretive carnivore. Communications Biology 4, 12.

• Doak DF, Waddle E, Langendorf RE, Louthan AM, Chardon NI, Dibner R, Keinath D, Lombardi E, Steenbock C, Shriver RK, Linares C, Garcia MB, Funk WC, Fitzpatrick SW, Morris WF, Peterson M (2021) A critical comparison of integral projection and matrix projection models for demographic analysis. Ecological Monographs 91, e01447.

2020

• Hoban S, Bruford M, D’Urban Jackson J, Fernandes-Lopes M, Heuertz M, Hohenlohe PA, Sjögren-Gulve P, Segelbacher G, Vernesi C, Aitken S, Bertola LD, Bloomer P, Breed M, Rodríguez-Correa H, Funk WC, Grueber CE, Hunter ME, Jaffe R, Liggins L, Mergeay J, Moharrek F, O’Brien D, Ogden R, Palma-Silva C, Paz-Vinas I, Pierson J, Ramakrishnan U, Simo-Droissart M, Tani N, Waits L, Laikre L (2020) Genetic diversity targets and indicators in the CBD post-2020 Global Biodiversity Framework must be improved. Biological Conservation 248, 108654.

• Kozakiewicz CP*, Burridge CP, Funk WC, Craft ME, Crooks KR, Fisher RN, Fountain-Jones NM‡, Jennings MK, Kraberger SJ‡, Lee JS, Lyren LM, Riley SPD, Serieys LEK, VandeWoude S, Carver S (2020) Does the virus cross the road? Viral phylogeographic patterns among bobcat populations reflect a history of urban development. Evolutionary Applications 13, 1806-1817.

• Fitzpatrick SW, Bradburd GS, Kremer CT‡, Salerno PE‡, Angeloni LM, Funk WC (2020) Genomic and fitness consequences of genetic rescue in wild populations. Current Biology 30, 517-522.

• Mason N‡, Fletcher N*, Gill BA‡, Funk WC, Zamudio KR (2020) Coalescent-based species delimitation is sensitive to geographic sampling and isolation by distance. Systematics and Biodiversity 18, 269-280.

• Barbosa S‡, Hendricks SA‡, Funk WC, Rajora OP, Hohenlohe PA (2020) Wildlife population genomics: applications and approaches. In: Population Genomics: Wildlife (eds. Hohenlohe PA, Rajora OP), pp. 3-59. Springer, Cham.

• Funk WC, Zamudio KR, Crawford AJ (2020) Advancing understanding of amphibian evolution, ecology, behavior, and conservation with massively-parallel sequencing. In: Population Genomics: Wildlife (eds. Hohenlohe PA, Rajora OP), pp. 211-254. Springer, Cham.

• Fitzpatrick SW, Funk WC (2020) Genomics for genetic rescue. In: Population Genomics: Wildlife (eds. Hohenlohe PA, Rajora OP), pp. 437-471. Springer, Cham.

2019

• Kozakiewicz CP*, Burridge CP, Funk WC, Salerno PE‡, Trumbo DR‡, Gagne RB‡, Boydston EE, Fisher R, Lyren LM, Jennings MK, Riley SPD, Serieys LEK, VandeWoude S, Crooks KR, Carver, S (2019) Urbanization reduces genetic connectivity in bobcats (Lynx rufus) at both intra- and inter-population scales. Molecular Ecology 28, 5068-5065.

• Trumbo DR‡, Salerno PE‡, Logan KA, Alldredge M, Gagne RB‡, Kozakiewicz CP*, Kraberger S‡, Fountain-Jones N‡, Craft ME, Carver S, Ernest HB, Crooks KR, VandeWoude S, Funk WC (2019) Urbanization impacts apex predator gene flow but not genetic diversity across an urban-rural divide. Molecular Ecology 28, 4926-4940.

• Bell DA*, Robinson ZL*, Funk WC, Fitzpatrick SW, Allendorf FW, Tallmon DA, Whiteley AR (2019) The exciting potential and remaining uncertainties of genetic rescue. Trends in Ecology and Evolution 34, 1070-1079.

• Funk WC, Forester BR‡, Converse SJ, Darst C, Morey S (2019) Improving conservation policy with genomics: A guide to integrating adaptive potential into U.S. Endangered Species Act decisions for conservation practitioners and geneticists. Conservation Genetics 20, 115-134.

• Lessmann J, Troya MJ, Flecker AS, Funk WC, Guayasamin JM, Ochoa-Herrera V, Poff NL, Suarez E, Encalada AC (2019) Validating anthropogenic threat maps as a tool for assessing river ecological integrity in Andean-Amazon basins. PeerJ 7, e8060.

• Mensch EL†, Kronenberger JA*, Broder ED*, Fitzpatrick SW*, Funk WC, Angeloni LA (2019) A potential role for immigrant reproductive behavior in the outcome of population augmentations. Animal Conservation 22, 463-471.

• Fitak RR, Antonides JD, Baitchman EJ, Bonaccorso E, Braun J, Kubiski S, Chiu E, Fagre AC, Gagne RB, Lee JS, Malmberg JL, Stenglein MD, Dusek RJ, Forgacs D, Fountain-Jones NM, Gilbertson MLJ, Worsley-Tonks KEL, Funk WC, Trumbo DR, Ghersi BM, Grimaldi W, Heisel SE, Jardine CM, Kamath PL, Karmacharya D, Kozakiewicz CP, Kraberger S, Loisel DA, McDonald C, Miller S, O’Rourke D, Ott-Conn CN, Páez-Vacas M, Peel AJ, Turner WC, VanAcker MC, VandeWoude S, Pecon-Slattery J (2019) The expectations and challenges of wildlife disease research in the era of genomics: forecasting with a horizon scan-like exercise. Journal of Heredity 110, 261-274.

• Billerman SM‡, Jesmer BR‡, Watts AG, Schlichting P‡, Fortin M-J, Funk WC, Hapeman P, Muths E, Murphy MA (2019) Testing theoretical metapopulation conditions with genotypic data from boreal chorus frogs (Pseudacris maculata). Canadian Journal of Zoology 97, 1042-1053.

2018

• Polato NR‡, Gill BA*, Shah AA*, Gray MM, Casner KL, Barthelet A, Messer PW, Simmons MP, Guayasamin JM, Encalada AC, Kondratieff BC, Flecker AS, Thomas SA, Ghalambor CK, Poff NL, Funk WC, Zamudio KR (2018) Narrow thermal tolerance and low dispersal drive higher speciation in tropical mountains. Proceedings of the National Academy of Sciences of the United States of America 49, 12471-12476.

• Poff NL, Larson EI*, Salerno PE‡, Morton SG*, Kondratieff BC, Flecker AS, Zamudio KR, Funk WC (2018) Extreme streams: Species persistence mechanisms and evolutionary change in montane stream insect populations across a flood disturbance gradient. Ecology Letters 21, 425-525.

• Kronenberger JA*, Gerberich JC†, Fitzpatrick SW*, Broder ED*, Angeloni LM, Funk WC (2018) An experimental test of alternative population augmentation scenarios. Conservation Biology 32, 838-848.

• Robertson JM‡, Murphy MA‡, Pearl CA, Adams MJ, Páez-Vacas MI*, Haig SM, Pilliod DS, Storfer A, Funk WC (2018) Regional variation in drivers of connectivity for two frog species (Rana pretiosa and R. luteiventris) from the U.S. Pacific Northwest. Molecular Ecology 27, 3242-3256.

• Kozakiewicz C*, Burridge C, Funk WC, VandeWoude S, Craft M, Crooks K, Ernest H, Fount-Jones  N‡, Carver S (2018) Pathogens in space: advancing understanding of pathogen dynamics and disease ecology through landscape genetics. Evolutionary Applications 11, 1763-1778.

• Morrison SA, Sillett TS, Funk WC, Ghalambor CK, Rick TC (2018) California Island Rediscovery: building an archive to improve conservation today and equip the historical ecologist of tomorrow. Western North American Naturalist 78, 837-851.

• Boser CL, Sillett TS, Beissinger S, Collins P, Faulkner KR, Funk WC, Ghalambor CK, Guilliams M, Holway DA, Laughrin L, Pauly G, Robertson J, Shea R, Vickers W (2018) Equipping tomorrow’s historical ecologist: Priorities for documenting conditions of the terrestrial fauna of Santa Cruz Island, California. Western North American Naturalist 78, 879-887.

2017

• Fountain-Jones NM‡, Craft ME, Funk WC, Kozakiewicz C*, Trumbo DR, Boydston EE, Lyren LM, Crooks KR, Lee JS‡, Vandewoude S, Carver S (2017) Urban landscapes can change virus gene flow and evolution in a fragmentation-sensitive carnivore. Molecular Ecology 26, 6487-6498.

• Shah AA*, Funk WC, Ghalambor CK (2017) Thermal acclimation ability varies in temperate and tropical aquatic insects from different elevations. Integrative and Comparative Biology 57, 977-987.

• Shah A*, Gill B*, Encalada A, Flecker A, Funk WC, Guayasamin JM, Kondratieff B, Poff N, Thomas S, Zamudio KR, Ghalambor CK (2017) Climate variability predicts thermal limits of aquatic insects across elevation and latitude. Functional Ecology 31, 2118-2127.

• Morrison SA, Sillett TS, Funk WC, Ghalambor CK, Rick TC (2017) Equipping the 22nd Century Historical Ecologist. Trends in Ecology and Evolution 32, 578-588.

• Fitzpatrick SW*, Handelsman CA*, Torres-Dowdall J*, Ruell EW, Broder ED*, Kronenberger JA*, Reznick DN, Ghalambor CK, Angeloni LM, Funk WC (2017) Gene flow constrains and facilitates genetically based divergence in quantitative traits. Copeia 105, 462-474.

• Polato NR‡, Gray MM, Gill BA*, Becker CG, Casner KL, Flecker AS, Kondratief BC, Encalada AC, Poff NL, Funk WC, Zamudio KR (2017) Genetic diversity and gene flow decline with elevation in montane mayflies. Heredity 119, 107-116.

• Langin KM*, TS Sillett, WC Funk, SA Morrison, CK Ghalambor (2017) Partial support for the central-marginal hypothesis within a population: reduced diversity but not increased differentiation at the range edge of an island endemic bird. Heredity 119, 8-15.

• Catchen J, Hohenlohe P, Bernatchez L, Funk WC, Andrews K, Allendorf FW (2017) Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations. Molecular Ecology Resources 17, 362-365.

• Guayasamin JM, Hutter C, Tapia E, Coloma LA, Culebras J, Peñafiel N, Morochz C, Funk WC, Arteaga A (2017) Diversification of the rainfrog Pristimantis ornatissimus in the lowlands and Andean foothills of Ecuador. PLoS ONE 12, e0172615.

• Kronenberger JA*, Fitzpatrick SW*, Angeloni LM, Broder ED*, Ruell EW, Funk WC (2017) Playing God with guppies—informing tough conservation decisions using a model experimental system. Animal Conservation 20, 18-19.

• Kronenberger JA*, Funk WC, Smith JW†, Fitzpatrick SW*, Angeloni LM, Broder ED*, Ruell EW (2017) Testing the demographic effects of divergent immigrants on small populations of Trinidadian guppies. Animal Conservation 20, 3-11.

• Lanier WE*, Bestgen KR, Funk WC, Bailey LL (2017) Unpalatable, yet unprotected: trout reduce survival and development rate of rare toad tadpoles despite chemical defense. Canadian Journal of Fisheries and Aquatic Sciences 74, 494-502.

• Converse SJ, Bailey LL, Mosher BA*, Funk WC, Gerber BD‡, Muths E (2017) A model to inform management actions as a response to chytridiomycosis-associated decline. EcoHealth 14, S144-S155.

2016

• Lessmann J, Guayasamin JM, Casner KL, Flecker AS, Funk WC, Ghalambor CK, Gill BA, Jácome-Negrete I, Kondratieff BC, Poff LN, Schreckinger J, Thomas SA, Toral-Contreras E, Zamudio KR, Encalada AC (2016) Freshwater vertebrate and invertebrate diversity patterns in an Andean-Amazon basin: implications for conservation efforts. Neotropical Biodiversity 2, 99-114.

• Gill BA*, Kondratieff BC, Casner KL, Encalada AC, Flecker AS, Gannon DG†, Ghalambor CK, Guayasamin JM, Poff NL, Simmons MP, Thomas SA, Zamudio KR, Funk WC (2016) Cryptic species diversity reveals biogeographic support for the ‘Mountain Passes are Higher in the Tropics” hypothesis. Proceedings of the Royal Society B: Biological Sciences 283, 20160553.

• Amburgey SA*, Murphy MA, Funk WC (2016) Phenotypic plasticity in developmental rate is insufficient to offset high tadpole mortality in rapidly drying ponds. Ecosphere 7, e01386.

• Funk WC, Lovich RE, Hohenlohe PA, Hofman CA*, Morrison SA, Sillett TS, Ghalambor CK, Maldonado JE, Rick TC, Day MD, Polato NR‡, Fitzpatrick SW‡, Coonan TJ, Crooks KR, Dillon A, Garcelon DK, King JL, Boser CL, Gould N*, Andelt WF (2016) Adaptive divergence despite strong genetic drift: genomic analysis of the evolutionary mechanisms causing genetic differentiation in the island fox (Urocyon littoralis). Molecular Ecology 25, 2176-2194.

• Fitzpatrick SW*, Gerberich JC†, Angeloni LM, Bailey LL, Broder ED*, Torres-Dowdall J‡, Handelsman CA*, López-Sepulcre A, Reznick DN, Ghalambor CK, Funk WC (2016) Gene flow from an adaptively divergent source causes rescue through genetic and demographic factors in two wild populations of Trinidadian guppies. Evolutionary Applications 9, 879-891.

• Havird JC‡, Fitzpatrick SW‡, Funk WC, Kronenberger J*, Angeloni LM, Sloan DB (2016) Sex, mitochondria, and genetic rescue. Trends in Ecology and Evolution 31, 96-99.

• Funk WC, Murphy MA, Hoke KL, Muths E, Amburgey SA*, Lemmon EM, Lemmon AR (2016) Elevational speciation in action? Restricted gene flow associated with adaptive divergence across an altitudinal gradient. Journal of Evolutionary Biology 29, 241-252.

2015

• Pilliod DS, Arkle RS, Robertson JM, Murphy MA, Funk WC (2015) Effects of changing climate on aquatic habitat and connectivity for remnant populations of a wide-ranging frog species in an arid landscape. Ecology and Evolution 5, 3979-3994.

• Watts AG*, Schlichting P*, Billerman S*, Jesmer B*, Micheletti S*, Fortin M-J, Funk WC, Hapeman P, Muths EL, Murphy MA (2015) How spatio-temporal habitat connectivity affects amphibian genetic structure. Frontiers in Genetics 6, 275.

• Langin KM*, Sillett TS, Funk WC, Morrison SA, Desrosiers MA*, Ghalambor CK (2015) Islands within an island: Repeated adaptive divergence in a single population. Evolution 69, 653-665.

• Hofman CA*, Rick TC, Hawkins MTR, Funk WC, Ralls K, Boser C, Collins PW, Coonan T, King J, Morrison SA, Newsome SD, Sillett TS, Fleischer R, Maldonado JE (2015) Mitochondrial genomes reveal rapid evolution of dwarf California Channel Islands foxes (Urocyon littoralis). PLoS ONE 10, e0118240.

• Whiteley AR, Fitzpatrick SW*, Funk WC, Tallmon DA (2015) Genetic rescue to the rescue. Trends in Ecology and Evolution 30, 42-49.

• Fitzpatrick SW*, Gerberich JC†, Kronenberger J*, Angeloni LM, Funk WC (2015) Locally adapted traits maintained in the face of high gene flow. Ecology Letters 18, 37-47.

2014

• Morrison SA, Parker KA, Collins PW, Funk WC, Sillett TS (2014) Re-introduction of historically extirpated taxa on the California Channel Islands. Monographs of the Western North American Naturalist 7, 531-542.

• Robertson JM‡, Langin KM*, Sillett TS, Morrison SA, Ghalambor CK, Funk WC (2014) Identifying Evolutionarily Significant Units and prioritizing populations for management on islands. Monographs of the Western North American Naturalist 7, 397-411.

• Amburgey SA*, Bailey LL, Murphy MA, Muths E, Funk WC (2014) The effects of hydropattern and predator communities on amphibian occupancy. Canadian Journal of Zoology 92, 927-937.

• Cole EM*, Bustamante MR, Almeida-Reinoso D, Funk WC (2014) Spatial and temporal variation in population dynamics of Andean frogs: Effects of forest disturbance and evidence for declines. Global Ecology and Conservation 1, 60-70.

• Rick T, Sillett TS, Ghalambor CK, Hofman C, Ralls K, Anderson R, Boser C, Braje T, Cayan D, Chesser T, Collins P, Erlandson J, Faulkner K, Fleischer R, Funk WC, Galipeau R, Huston A, King J, Laughrin L, Maldonado J, McEachern K, Muhs D, Newsome S, Reeder-Myers L, Morrison S (2014) Ecological change on California’s Channel Islands from the Pleistocene to the Anthropocene. BioScience 64, 680-692.

• Fitzpatrick SW*, Crockett H, and Funk WC (2014) Water availability strongly impacts genetic patterns of an imperiled Great Plains stream fish. Conservation Genetics 15, 771-788.

• Gill BA*, Harrington RA*, Kondratieff BC, Zamudio KR, Poff NL, Funk WC (2014) Morphological taxonomy, DNA barcoding, and species diversity in Southern Rocky Mountain headwater streams. Freshwater Science 33, 288-301.

• Fitzpatrick FW*, Torres-Dowdall J*, Reznick DN, Ghalambor CK, Funk WC (2014) Parallelism isn’t perfect: Could disease and flooding drive a life history anomaly in Trinidadian guppies? American Naturalist 183, 290-300.

2013

• Swanson JE†, Bailey LL, Muths E, Funk WC (2013) Factors influencing survival and mark retention in postmetamorphic boreal chorus frogs. Copeia 2013, 670-675.

• Fairman CM*, Bailey LL, Chambers RM, Russell TM, Funk WC (2013) Species-specific effects of acidity on pond occupancy in Ambystoma salamanders. Journal of Herpetology 47, 346-353.

• Matthews JH, Funk WC, Ghalambor CK (2013) Demographic approaches to assessing climate change impact: an application to pond-breeding frogs and shifting hydropatterns. In: Wildlife Conservation in a Changing Climate (eds. Brodie JF, Post E, Doak D), pp. 58-85. University of Chicago Press, Chicago.

• Trillo PA‡, Athanas KA*, Goldhill DH*, Hoke KL, Funk WC (2013) The influence of geographic heterogeneity in predation pressure on sexual signal divergence in an Amazonian frog species complex. Journal of Evolutionary Biology 26, 216-222.

2012

• Funk WC, McKay JK, Hohenlohe PA, Allendorf FW (2012) Harnessing genomics for delineating conservation units. Trends in Ecology and Evolution 27, 489-496.

• Amburgey SA†, Funk WC, Murphy MA, Muths E (2012) Effects of hydroperiod duration on survival, developmental rate, and size at metamorphosis in boreal chorus frog tadpoles (Pseudacris maculata). Herpetologica 68, 456-467.

• Safran R, Flaxman S, Kopp M, Irwin D, Evans MR, Funk WC, Gray D, Seddon N, Scordato E, Symes L, Uy A (2012) A robust, new metric of phenotypic distance to estimate and compare multiple trait differences among populations. Current Zoology 58, 423-436.

• Funk WC, Caminer M†, Ron SR (2012) High levels of cryptic species diversity uncovered in Amazonian frogs. Proceedings of the Royal Society B: Biological Sciences 279, 1806–1814.

2011

• Phillipsen IC*, Funk WC, Hoffman E, Monsen K, Blouin M (2011) Comparative analyses of effective population size within and among species: ranid frogs as a case study. Evolution 65, 2927-2945.

• Funk WC, Garcia TS, Cortina GA†, Hill RH* (2011) Population genetics of introduced bullfrogs, Rana (Lithobates) catesbeianus, in the Willamette Valley, Oregon, USA. Biological Invasions 13, 651-658.

• Cadena CD, Cheviron ZA, Funk WC (2011) Testing the molecular and evolutionary causes of a ‘leapfrog’ pattern of geographical variation in coloration. Journal of Evolutionary Biology 24, 402-414.

2010

• Funk WC, Murphy MA‡ (2010) Testing evolutionary hypotheses for phenotypic divergence using landscape genetics. Molecular Ecology 19, 427-430.

• Funk WC, Forsman ED, Johnson M, Mullins TD, Haig SM (2010) Evidence for recent population bottlenecks in Northern Spotted Owls (Strix occidentalis caurina). Conservation Genetics 11, 1013-1021.

2009

• Funk WC, Cannatella DC, Ryan MJ (2009) Genetic divergence is more tightly related to call variation than landscape features in the Amazonian frogs Physalaemus petersi and P. freibergi. Journal of Evolutionary Biology 22, 1839-1853.

• Funk WC, Cannatella DC (2009) A new, large species of Chiasmocleis Mehely 1904 (Anura: Microhylidae) from the Iquitos region, Amazonian Peru. Zootaxa 2247, 37-50.

• Guayasamin JM, Funk WC (2009) The amphibian community at Yanayacu Biological Station, Ecuador, with a comparison of vertical microhabitat use among Pristimantis species and the description of a new species of the Pristimantis myersi group. Zootaxa 2220, 41-66.

• Greene AE†, Funk WC (2009) Sexual selection on morphology in an explosive breeding amphibian, the Columbia spotted frog (Rana luteiventris). Journal of Herpetology 43, 244-251.

2008

• Funk WC, Pearl CA, Draheim HM*, Adams MJ, Mullins TD, Haig SM (2008) Range-wide phylogeographic analysis of the spotted frog complex (Rana luteiventris and Rana pretiosa) in northwestern North America. Molecular Phylogenetics and Evolution 49, 198-210.

• Funk WC, Angulo A, Caldwell JP, Ryan MJ, Cannatella DC (2008) Comparison of morphology and calls of two cryptic species of Physalaemus (Anura: Leiuperidae). Herpetologica 64, 290-304.

• Greeney HF, Gelis RA, Funk WC (2008) Predation on caecilians (Caecilia orientalis) by Barred Hawks (Leucopternis princeps) depends on rainfall. Herpetological Review 39, 162-164.

• Funk WC, Forsman ED, Mullins TD, Haig SM (2008) Introgression and dispersal among Spotted Owl (Strix occidentalis) subspecies. Evolutionary Applications 1, 161-171.

2007 and earlier (prior to arriving at CSU)

• Boul KE, Funk WC (joint first author), Darst CR, Cannatella DC, Ryan MJ (2007) Sexual selection drives speciation in an Amazonian frog. Proceedings of the Royal Society B:  Biological Sciences 274, 399-406.

• Funk WC, Caldwell JP, Peden CE*, Padial JM, de la Riva I, Cannatella DC (2007) Tests of biogeographic hypotheses for diversification in the Amazonian forest frog, Physalaemus petersi. Molecular Phylogenetics and Evolution 44, 825-837.

• Funk WC, Mullins TD, Haig SM (2007) Conservation genetics of Snowy Plovers (Charadrius alexandrinus) in the Western Hemisphere: population genetic structure and delineation of subspecies. Conservation Genetics 8, 1287-1309.

• Funk WC, Mullins TD, Forsman ED, Haig SM (2007) Microsatellite loci for distinguishing Spotted Owls (Strix occidentalis), Barred Owls (Strix varia), and their hybrids. Molecular Ecology Notes 7, 284-286.

• Guayasamin JM, Bustamante MR*, Almeida-Reinoso D*, Funk WC (2006) Glass frogs (Centrolenidae) of Yanayacu Biological Station, Ecuador, with the description of a new species and comments on centrolenid systematics. Zoological Journal of the Linnean Society 147, 489-513.

• Funk WC, Blouin MS, Corn PS, Maxell BA, Pilliod DS, Amish S*, Allendorf FW (2005) Population structure of Columbia spotted frogs (Rana luteiventris) is strongly affected by the landscape. Molecular Ecology 14, 483-496.

• Funk WC, Greene AE†, Corn PS, Allendorf FW (2005) High dispersal in a frog species suggests that it is vulnerable to habitat fragmentation. Biology Letters 1, 13-16.

• Funk WC, Tyburczy JA†, Knudsen KL, Lindner KR, Allendorf FW (2005) Genetic basis of variation in morphological and life-history traits of a wild population of pink salmon. Journal of Heredity 96, 24-31.

• Funk WC, Fletcher-Lazo G, Nogales-Sornosa F*, Almeida-Reinoso D* (2004) First description of a clutch and nest site for the genus Caecilia (Gymnophiona: Caeciliidae). Herpetological Review 35, 128-130.

• Greeney HF, Krabbe N, Lysinger M, Funk WC (2004) Observations on the breeding and vocalizations of the Fulvous-breasted Flatbill (Rhynchocyclus fulvipectus) in eastern Ecuador. Ornitologia Neotropical 15, 365-370.

• Funk WC, Mills LS (2003) Potential causes of population declines in forest fragments in an Amazonian frog. Biological Conservation 111, 205-214.

• Funk WC, Almeida-Reinoso D*, Nogales-Sornosa F*, Bustamante MR* (2003) Monitoring population trends of Eleutherodactylus frogs. Journal of Herpetology 37, 245-256.

• Biek R, Funk WC, Maxell BA, Mills LS (2002) What is missing in amphibian decline research: Insights from ecological sensitivity analysis. Conservation Biology 16, 728-734.

• Tallmon DA, Funk WC, Dunlap WW, Allendorf FW (2000) Genetic differentiation among long-toed salamander (Ambystoma macrodactylum) populations. Copeia 2000, 27-35.

• Funk WC, Tallmon DA, Allendorf FW (1999) Small effective population size in the long-toed salamander. Molecular Ecology 8, 1633-1640.

• Funk WC, Dunlap WW (1999) Colonization of high-elevation lakes by long-toed salamanders (Ambystoma macrodactylum) after the extinction of introduced trout populations. Canadian Journal of Zoology 77, 1759-1767.

• Danilchik MV, Funk WC, Brown EE, Larkin K (1998) Requirement for microtubules in new membrane formation during cytokinesis of Xenopus embryos. Developmental Biology 194, 47-60.

Non-refereed Journal Articles/Chapters

• Doak DF, Begoña Garcia M, Linares C, Fitzpatrick SW, Funk WC, Peterson ML, Waddle E, Shriver RK, Morris WF (2021) Testing demographic methods using field studies of five dissimilar species. Bulletin of the Ecological Society of America 102, e01870.

• Blackman RC, Bruder A, Burdon FJ, Convey P, Funk WC, Jähnig SC, Kishe MA, Moretti MS, Natugonza V, Pawlowski J, Stubbington R, Zhang X, Seehausen O, Altermatt F (2020) A meeting framework for inclusive and sustainable science. Nature Ecology and Evolution 4, 668-671.

• Funk WC, Caminer M*, Ron SR (2012) In Amazonian frogs there is much more diversity than meets the eye. Froglog 100, 73.

• Lannoo M, Funk WC, Gadd M, Halliday T, Mitchell J (2007) Freshwater resources and associated terrestrial landscapes. In: Amphibian Conservation Action Plan (eds. Gascon C, Collins JP, Moore RD, et al.), pp. 16-18. IUCN/SSC Amphibian Specialist Group, Gland, Switzerland and Cambridge, UK.

• Angulo A, Funk WC (2006) Hyla calcarata (Rana de espolones) and Hyla fasciata (NCN). Defensive behavior. Herpetological Review 37, 203-204.

• Funk WC, Donnelly MA, Lips KR (2005) Alternative views of amphibian toe-clipping. Nature 433, 193-193.

Photo credit: W. Chris Funk