Microhabitat competition between Iberian fish species and the endangered Júcar nase (Parachondrostoma arrigonis; Steindachner, 1866)

References

• Alcaraz C, Carmona-Catot G, Risueño P, Perea S, Pérez C, Doadrio I, Aparicio E. 2014. Assessing population status of Parachondrostoma arrigonis (Steindachner, 1866), threats and conservation perspectives. Environ Biol Fishes. 98:443–455.
   Web of Science ®Google Scholar
• Almeida D, Grossman GD. 2012. Utility of direct observational methods for assessing competitive interactions between non-native and native freshwater fishes. Fish Manag Ecol. 19:157–166.
   Web of Science ®Google Scholar
• Almeida D, Merino-Aguirre R, Vilizzi L, Copp GH. 2014. Interspecific aggressive behaviour of invasive pumpkinseed Lepomis gibbosus in Iberian fresh waters. PLoS One. 9:e88038.doi:10.1371/journal.pone.0088038
   Google Scholar
• Anderson DR, Burnham KP, Thompson WL. 2000. Null hypothesis testing: Problems, prevalence, and an alternative. J Wildl Manag. 64:912–923.
   Web of Science ®Google Scholar
• Aparicio E, Vargas MJ, Olmo JM, De Sostoa A. 2000. Decline of native freshwater fishes in a Mediterranean watershed on the Iberian Peninsula: a quantitative assessment. Environ Biol Fishes. 59:11–19.
   Web of Science ®Google Scholar
• Arlot S, Celisse A. 2010. A survey of cross-validation procedures for model selection. Stat Surv. 4:40–79.
   Google Scholar
• Austin M. 2007. Species distribution models and ecological theory: A critical assessment and some possible new approaches. Ecol Modelling. 200:1–19.
   Web of Science ®Google Scholar
• Baltz DM, Vondracek B, Brown LR, Moyle PB. 1991. Seasonal changes in microhabitat selection by rainbow trout in a small stream. Trans Am Fish Soc. 120:166–176.
   Web of Science ®Google Scholar
• Barbet-Massin M, Jiguet F, Albert CH, Thuiller W. 2012. Selecting pseudo-absences for species distribution models: how, where and how many? Methods Ecol Evol. 3:327–338.
   Web of Science ®Google Scholar
• Beakes MP, Moore JW, Retford N, Brown R, Merz JE, Sogard SM. 2014. Evaluating statistical approaches to quantifying juvenile Chinook salmon habitat in a regulated California river. River Res Appl. 30:180–191.
   Web of Science ®Google Scholar
• Bossard M, Feranec J, Otahel J. 2000. CORINE land cover technical guide – Addendum 2000. Copenhagen: European Environment Agency.
   Google Scholar
• Bovee KD, Lamb BL, Bartholow JM, Stalnaker CB, Taylor J, Henriksen J. 1998. Stream habitat analysis using the instream flow incremental methodology. Fort Collins (CO): U.S. Geological Survey Information and Technology.
   Google Scholar
• Brook BW, Sodhi NS, Bradshaw CJA. 2008. Synergies among extinction drivers under global change. Trends Ecol Evol. 23:453–460.
   PubMed Web of Science ®Google Scholar
• Brosse S, Laffaille P, Gabas S, Lek S. 2001. Is scuba sampling a relevant method to study fish microhabitat in lakes? Examples and comparisons for three European species. Ecol Freshw Fish. 10:138–146.
   Web of Science ®Google Scholar
• Clavero M. 2011. Assessing the risk of freshwater fish introductions into the Iberian Peninsula. Freshw Biol. 56:2145–2155.
   Web of Science ®Google Scholar
• Collares-Pereira MJ, Coelho MM. 1983. Biometrical analysis of Chondrostoma polylepis × Rutilus arcasi natural hybrids (Osteichthyes-Cypriniformes-Cyprinidae). J Fish Biol. 23:495–509.
   Web of Science ®Google Scholar
• Costa RMS, Martínez-Capel F, Muñoz-Mas R, Alcaraz-Hernández JD, Garófano-Gómez V. 2012. Habitat suitability modelling at mesohabitat scale and effects of dam operation on the endangered Júcar nase, Parachondrostoma arrigonis (River Cabriel, Spain). River Res Appl. 28:740–752.
   Web of Science ®Google Scholar
• Dal Pozzolo A, Caelen O, Bontempi G. 2015. unbalanced: Racing for unbalanced methods selection. R package version 2.0.
   Google Scholar
• Doadrio I. 2002. Atlas y libro rojo de los peces continentales de España [Atlas and red book of inland fishes of Spain]. Madrid: Dirección General de Conservación de la Naturaleza (Museo Nacional de Ciencias Naturales).
   Google Scholar
• Elith J, Leathwick JR. 2009. Species distribution models: ecological explanation and prediction across space and time. Annu Rev Ecol Evol Syst. 40:677–697.
   Web of Science ®Google Scholar
• Elvira B, Almodóvar A. 2001. Freshwater fish introductions in Spain: facts and figures at the beginning of the 21st century. J Fish Biol. 59:323–331.
   Web of Science ®Google Scholar
• Elvira B, Almodóvar A. 2008. Threatened fishes of the world: Chondrostoma arrigonis (Steindachner, 1866) (Cyprinidae). Environ Biol Fishes. 81:27–28.
   Web of Science ®Google Scholar
• Fernando Alonso, Junta de Cominidades de Castilla-La Mancha, Personal communication, 2016.
   Google Scholar
• Friedman JH. 2001. Greedy function approximation: a gradient boosting machine. Ann Stat. 29:1189–1232.
   Web of Science ®Google Scholar
• Fukuda S, De Baets B, Waegeman W, Verwaeren J, Mouton AM. 2013. Habitat prediction and knowledge extraction for spawning European grayling (Thymallus thymallus L.) using a broad range of species distribution models. Environ Model Softw. 47:1–6.
   Web of Science ®Google Scholar
• Girard V, Monti D, Valade P, Lamouroux N, Mallet J-P, Grondin H. 2014. Hydraulic preferences of shrimps and fishes in tropical insular rivers. River Res Appl. 30:766–779.
   Web of Science ®Google Scholar
• Gozlan RE, Britton JR, Cowx I, Copp GH. 2010. Current knowledge on non-native freshwater fish introductions. J Fish Biol. 76:751–786.
   Web of Science ®Google Scholar
• Guay JC, Boisclair D, Rioux D, Leclerc M, Lapointe M, Legendre P. 2000. Development and validation of numerical habitat models for juveniles of Atlantic salmon (Salmo salar). Can J Fish Aquat Sci. 57:2065–2075.
   Web of Science ®Google Scholar
• Guisan A, Graham CH, Elith J, Huettmann F, Dudik M, Ferrier S, Hijmans R, Lehmann A, Li J, Lohmann LG et al. 2007. Sensitivity of predictive species distribution models to change in grain size. Divers Distrib. 13:332–340.
   Web of Science ®Google Scholar
• Hastie TJ, Tibshirani RJ. 1990. Generalized additive models. London: Chapman & Hall/CRC.
   Google Scholar
• Heggenes J, Brabrand Åg, Saltveit S. 1990. Comparison of three methods for studies of stream habitat use by young brown trout and atlantic salmon. Trans Am Fish Soc. 119:101–111.
   Web of Science ®Google Scholar
• Instituto Nacional de Estadistica (INE). 2013. Proyección de la población de España a corto plazo (2013-2023) [Projection of the population of Spain in the short term (2013–2023)]. Madrid: Instituto Nacional de Estadística (INE).
   Google Scholar
• Jowett IG, Davey AJH. 2007. A comparison of composite habitat suitability indices and generalized additive models of invertebrate abundance and fish presence-habitat availability. Trans Am Fish Soc. 136:428–444.
   Web of Science ®Google Scholar
• Jowett IG, Duncan MJ. 2012. Effectiveness of 1D and 2D hydraulic models for instream habitat analysis in a braided river. Ecol Eng. 48:92–100.
   Web of Science ®Google Scholar
• Kottelat M, Freyhof J. 2007. Handbook of European freshwater fishes. Cornol and Berlin: Kottelat & Freyhof Publishing.
   Google Scholar
• Laurikkala J. 2001. Improving identification of difficult small classes by balancing class distribution. In: Quaglini S, Barahona P, Andreassen S, editors. Artificial intelligence in medicine. Heidelberg: Springer Berlin Heidelberg. p. 63–66.
   Google Scholar
• Leunda PM. 2010. Impacts of non-native fishes on Iberian freshwater ichthyofauna: current knowledge and gaps. Aquat Invasions. 5:239–262.
   Web of Science ®Google Scholar
• Liaw A, Wiener M. 2002. Classification and regression by random forest. R News. 3:18–22.
   Google Scholar
• Lin X, Zhang D. 1999. Inference in generalized additive mixed models by using smoothing splines. J R Stat Soc B Stat Methodol. 61:381–400.
   Google Scholar
• Liu C, Berry PM, Dawson TP, Pearson RG. 2005. Selecting thresholds of occurrence in the prediction of species distributions. Ecography (Cop). 28:385–393.
   Web of Science ®Google Scholar
• Maceda-Veiga A. 2013. Towards the conservation of freshwater fish: Iberian Rivers as an example of threats and management practices. Rev Fish Biol Fish. 23:1–22.
   Web of Science ®Google Scholar
• Maggini R, Lehmann A, Zimmermann NE, Guisan A. 2006. Improving generalized regression analysis for the spatial prediction of forest communities. J Biogeogr. 33:1729–1749.
   Web of Science ®Google Scholar
• Marr SM, Olden JD, Leprieur F, Arismendi I, Ćaleta M, Morgan DL, Nocita A, Šanda R, Serhan Tarkan A, García-Berthou E. 2013. A global assessment of freshwater fish introductions in mediterranean-climate regions. Hydrobiologia. 719:317–329.
   Web of Science ®Google Scholar
• Martínez-Capel F, García De Jalón D, Werenitzky D, Baeza D, Rodilla-Alamá M. 2009. Microhabitat use by three endemic Iberian cyprinids in Mediterranean rivers (Tagus River Basin, Spain). Fish Manag Ecol. 16:52–60.
   Web of Science ®Google Scholar
• Milhous RT, Bartholow JM, Updike MA, Moos AR. 1990. Reference manual for generation and analysis of Habitat Time Series – Version II. Fort Collins (CO): U.S. Fish and Wildlife Service.
   Google Scholar
• Mouton AM, Alcaraz-Hernández JD, De Baets B, Goethals PLM, Martínez-Capel F. 2011. Data-driven fuzzy habitat suitability models for brown trout in Spanish Mediterranean rivers. Environ Model Softw. 26:615–622.
   Web of Science ®Google Scholar
• Mouton AM, De Baets B, Goethals PLM. 2010. Ecological relevance of performance criteria for species distribution models. Ecol Modelling. 221:1995–2002.
   Web of Science ®Google Scholar
• Munoz-Mas R, Alcaraz-Hernandez JD, Martinez-Capel F. 2014a. Multilayer Perceptron Ensembles (MLP Ensembles) in modelling microhabitat suitability for freshwater fish. In: Bobillo F, Bustince H, Fernandez FJ, Herrera-Viedma E editors. XVII Congreso Español sobre Tecnologias y Logica Fuzzy [Spanish Congress on Fuzzy Logic and Technologies] (ESTYLF 2014). Zaragoza: Departamento de Informatica e Ingenieria de Sistemas, Universidad de Zaragoza. p. 609–614.
   Google Scholar
• Muñoz-Mas R, Fukuda S, Vezza P, Martínez-Capel F. 2016a. Comparing four methods for decision-tree induction: a case study on the invasive Iberian gudgeon (Gobio lozanoi; Doadrio and Madeira, 2004). Ecol Inform. 34:22–34.
   Web of Science ®Google Scholar
• Muñoz-Mas R, Lopez-Nicolas A, Martínez-Capel F, Pulido-Velazquez M. 2016b. Shifts in the suitable habitat available for brown trout (Salmo trutta L.) under short-term climate change scenarios. Sci Total Environ. 544:686–700.
   Web of Science ®Google Scholar
• Muñoz-Mas R, Martínez-Capel F, Garófano-Gómez V, Mouton AM. 2014b. Application of probabilistic neural networks to microhabitat suitability modelling for adult brown trout (Salmo trutta L.) in Iberian rivers. Environ Model Softw. 59:30–43.
   Web of Science ®Google Scholar
• Muñoz-Mas R, Martínez-Capel F, Schneider M, Mouton AM. 2012. Assessment of brown trout habitat suitability in the Jucar River Basin (Spain): comparison of data-driven approaches with fuzzy-logic models and univariate suitability curves. Sci Total Environ. 440:123–131.
   PubMed Web of Science ®Google Scholar
• Muñoz-Mas R, Papadaki C, Martínez-Capel F, Zogaris S, Ntoanidis L, Dimitriou E. 2016c. Generalized additive and fuzzy models in environmental flow assessment: A comparison employing the West Balkan trout (Salmo farioides; Karaman, 1938). Ecol Eng. 91:365–377.
   Web of Science ®Google Scholar
• Olaya-Marín EJ, Martínez-Capel F, Soares Costa RM, Alcaraz-Hernández JD. 2012. Modelling native fish richness to evaluate the effects of hydromorphological changes and river restoration (Júcar River Basin, Spain). Sci Total Environ. 440:95–105.
   PubMed Web of Science ®Google Scholar
• Oscoz J, Leunda PM, Miranda R, Escala MC. 2006. Summer feeding relationships of the co-occurring Phoxinus phoxinus and Gobio lozanoi (Cyprinidae) in an Iberian river. Folia Zool. 55:418–432.
   Web of Science ®Google Scholar
• Paredes-Arquiola J, Solera A, Martinez-Capel F, Momblanch A, Andreu J. 2014. Integrating water management, habitat modelling and water quality at the basin scale and environmental flow assessment: case study of the Tormes River, Spain. Hydrol Sci J. 59:878–889.
   Web of Science ®Google Scholar
• Platts PJ, McClean CJ, Lovett JC, Marchant R. 2008. Predicting tree distributions in an East African biodiversity hotspot: model selection, data bias and envelope uncertainty. Ecol Modell. 218:121–134.
   Web of Science ®Google Scholar
• R Core Team. 2015. R: a language and environment for statistical computing. Version 3. Vienna (Austria): R Foundation for Statistical Computing.
   Google Scholar
• Reyjol Y, Hugueny B, Pont D, Bianco PG, Beier U, Caiola N, Casals F, Cowx I, Economou A, Ferreira T, et al. 2007. Patterns in species richness and endemism of European freshwater fish. Glob Ecol Biogeogr. 16:65–75.
   Web of Science ®Google Scholar
• Ribeiro F, Elvira B, Collares-Pereira MJ, Moyle PB. 2008. Life-history traits of non-native fishes in Iberian watersheds across several invasion stages: a first approach. Biol Invasions. 10:89–102.
   Web of Science ®Google Scholar
• Ribeiro F, Leunda PM. 2012. Non-native fish impacts on Mediterranean freshwater ecosystems: current knowledge and research needs. Fish Manag Ecol. 19:142–156.
   Web of Science ®Google Scholar
• Rincón PA, Correas AM, Morcillo F, Risueño P, Lobón-Cerviá J. 2002. Interaction between the introduced eastern mosquitofish and two autochthonous Spanish toothcarps. J Fish Biol. 61:1560–1585.
   Web of Science ®Google Scholar
• Robalo JI, Almada VC, Levy A, Doadrio I. 2007. Re-examination and phylogeny of the genus Chondrostoma based on mitochondrial and nuclear data and the definition of 5 new genera. Mol Phylogenet Evol. 42:362–372.
   PubMed Web of Science ®Google Scholar
• Romão F, Quintella BR, Pereira TJ, Almeida PR. 2012. Swimming performance of two Iberian cyprinids: the Tagus nase Pseudochondrostoma polylepis (Steindachner, 1864) and the bordallo Squalius carolitertii (Doadrio, 1988). J Appl Ichthyol. 28:26–30.
   Web of Science ®Google Scholar
• Shiroyama R, Yoshimura C. 2016. Assessing bluegill (Lepomis macrochirus) habitat suitability using partial dependence function combined with classification approaches. Ecol Inform. 35:9–18.
   Web of Science ®Google Scholar
• Thomas JA, Bovee KD. 1993. Application and testing of a procedure to evaluate transferability of habitat suitability criteria. Regul Rivers Res Manag. 8:285–294.
   Google Scholar
• Vezza P, Muñoz-Mas R, Martínez-Capel F, Mouton A. 2015. Random forests to evaluate biotic interactions in fish distribution models. Environ Model Softw. 67:173–183.
   Web of Science ®Google Scholar
• Vilizzi L, Copp GH, Roussel J-M. 2004. Assessing variation in suitability curves and electivity profiles in temporal studies of fish habitat use. River Res Appl. 20:605–618.
   Web of Science ®Google Scholar
• Wood SN. 2004. Stable and efficient multiple smoothing parameter estimation for generalized additive models. J Am Stat Assoc. 99:673–686.
   Web of Science ®Google Scholar
• Wood SN. 2006. Generalized additive models: an introduction with R. London: Chapman and Hall/CRC Press.
   Google Scholar
• Zuur AF, Ieno EN, Walker N, Saveliev AA, Smith GM. 2009. Mixed effects models and extensions in ecology with R. New York (NY): Springer.
   Google Scholar