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Scientific Articles (ISI)

Godinho F.N., Alexandre C., Almeida, P.R., Martínez-Capel F., Cortes R.M.V., Quintella B.R., Sanz-Ronda J., Santos J.M., Palau A., Pinheiro A.N., Boavida I. (2023)

Hydropeaking impact assessment for Iberian cyprinids and leuciscids: an adaptation of the hydropeaking tool method

River Research and Applications, 39(3), 340‚Äď348.. DOI: https://doi.org/10.1002/rra.3943

Leite, T., Mameri D., Branco P., Vieira I., Oliveira M., Santos J.M. (2023)

Swimming under pressure: the sub-lethal effects of a pesticide on the behaviour of native and non-native Cypriniformes fish

Fishes, 8(9): 462. DOI: https://doi.org/10.3390/fishes8090462

Mameri D., Hayes D., Fuhrer S., Fauchery E., Schmutz S., Monserat A., Hasler T., Graf D.M., Santos J.M., Ferreira M.T., Auer S. (2023)

Cold thermopeaking-induced drift of nase Chondrostoma nasus larvae

Aquatic Sciences, 85(56).. DOI: https://doi.org/10.1007/s00027-023-00955-x

Leite T., Branco P., Ferreira M.T., Santos J.M. (2022)

Activity, boldness and schooling in freshwater fish are affected by river salinization

Science of the Total Environment, 819: 153046. DOI: https://doi.org/10.1016/j.scitotenv.2022.153046

Amaral S.D., Branco P., Rom√£o F., Ferreira M.T., Pinheiro A.N., Santos J.M. (2021)

Evaluation of low-head ramped weirs for a potamodromous cyprinid: effects of substrate addition and discharge on fish passage performance, stress and fatigue

Water, 13(6): 765. DOI: https://doi.org/10.3390/w13060765

Branco P., Segurado P., Costa M.J., Teixeira A., Santos J.M., Ferreira M.T., Duarte G. (2021)

Knowledge gaps in the definition of threats for the red list assessment of European freshwater-dependent fish species

Biology, 10(7): 680. DOI: https://doi.org/10.3390/biology10070680

Copp G.H., …, Ferreira M.T., Santos J.M. et al. (2021)

Speaking their language – Development of a multilingual decision-support tool for communicating invasive species risks to decision makers and stakeholders

Environmental Modelling & Software, 135: 104900. DOI: https://doi.org/10.1016/j.envsoft.2020.104900

Mameri D., Rivaes R., Ferreira M.T., Schmutz S., Santos J.M. (2021)

Climate change effects on fish passability across a rock weir in a Mediterranean river

Water, 13(19): 2758. DOI: https://doi.org/10.3390/w13192758

Ribeiro P.P.C.F., Lima Santos J.M.O.B., Canadas M.J.P.R., Novais A.M.C.V., Moreira F.M.R.F., Lomba A.C.A.R. (2021)

Explaining farming systems spatial patterns: a farm-level choice model based on socioeconomic and biophysical drivers

Agricultural Systems, 191: 103140. DOI: https://doi.org/10.1016/j.agsy.2021.103140

Rom√£o F., Quaresma A.L., Santos J.M., Amaral S.D., Branco P., Pinheiro A.N. (2021)

Multislot fishway improves entrance performance and fish transit time over vertical slots

Water, 13(3): 275. DOI: https://doi.org/10.3390/w13030275

Santos J.M., Amaral S.D., Padua J. (2021)

Can fish lifts aid upstream dispersal of the invasive red swamp crayfish (Procambarus clarkii) past high-head hydropower plants?

River Research and Applications, 112115. DOI: https://doi.org/10.1002/rra.3856

Vilizzi L., …, Branco P., …, Ferreira M.T., …, Santos J.M., …, Segurado P. et al. (2021)

A global-scale screening of non-native aquatic organisms to identify potentially invasive species under current and future climate conditions

Science of the Total Environment, 788: 147868. DOI: https://doi.org/10.1016/j.scitotenv.2021.147868

Mameri D., Branco P., Ferreira M.T., Santos J.M. (2020)

Heatwave effects on the swimming behaviour of a Mediterranean freshwater fish, the Iberian barbel Luciobarbus bocagei

Science of the Total Environment, 730: 139152. DOI: https://doi.org/10.1016/j.scitotenv.2020.139152

Mameri D., Rivaes R., Oliveira J.M., Padua J., Ferreira M.T., Santos J.M. (2020)

Passability of potamodromous species through a fish lift at a large hydropower plant (Touvedo, Portugal)

Sustainability, 12(1): 172. DOI: https://doi.org/10.3390/su12010172

Mitsopoulos G., Theodoropoulos C., Papadaki C., Dimitriou E., Santos J.M., Zogaris S., Stamou A. (2020)

Model-based ecological optimization of vertical slot fishways using macroinvertebrates and multispecies fish indicators

Ecological Engineering, 158: 106081. DOI: https://doi.org/10.1016/j.ecoleng.2020.106081

Santos J.M., Ferreira M.T. (2020)

Use of aquatic biota to detect ecological changes in freshwater: current status and future directions

Water, 12(6): 1611. DOI: https://doi.org/10.3390/w12061611

Silva A.T., Bermudez M., Santos J.M., Rabunal J.R., Puertas J. (2020)

Pool-type fishway design for a potamodromous cyprinid in the Iberian Peninsula: the Iberian barbel-synthesis and future directions

Sustainability, 12(8): 3387. DOI: https://doi.org/10.3390/su12083387

Amaral S.D., Branco P., Katopodis C., Ferreira M.T., Pinheiro A.N., Santos J.M. (2019)

Passage performance of potamodromous cyprinids over an experimental low-head ramped weir: the effect of ramp length and slope.

Sustainability, 11(5): 1456. DOI: https://doi.org/10.3390/su11051456

Amaral S.D., Quaresma A.L., Branco P., Rom√£o F., Katopodis C., Ferreira M.T., Pinheiro A.N., Santos J.M. (2019)

Assessment of retrofitted ramped weirs to improve passage of potamodromous fish

Water, 11(12): 2441.

Gamito T.M., Madureira L., Lima Santos J.M. (2019)

Unveiling and typifying rural resources underpinned by innovation dynamics in rural areas.

Regional Science Policy and Practice, 13(3) 457-477. DOI: https://doi.org/10.1111/rsp3.12228

Gonino G., Branco P., Benedito E., Ferreira M.T., Santos J.M. (2019)

Short-term effects of wildfire ash exposure on behaviour and hepatosomatic condition of a potamodromous cyprinid fish, the Iberian barbel Luciobarbus bocagei (Steindachner, 1864).

Science of the Total Environment, 665: 226-234. DOI: https://doi.org/10.1016/j.scitotenv.2019.02.108

Hayes D., Branco P., Santos J.M., Ferreira M.T. (2019)

Oxygen depletion affects kinematics and shoaling cohesion of cyprinid fish.

Water, 11(4): 642. DOI: https://doi.org/10.3390/w11040642

Leite T., Santos J.M., Ferreira M.T., Canhoto C., Branco P. (2019)

Does short-term salinization of freshwater alter the behaviour of the Iberian barbel (Luciobarbus bocagei, Steindachner 1864)?

Science of The Total Environment, 651(1): 648-655. DOI: https://doi.org/10.1016/j.scitotenv.2018.09.191

Rom√£o F., Quaresma A.L., Santos J.M., Branco P., Pinheiro A.N. (2019)

Cyprinid passage performance in an experimental multislot fishway across distinct seasons.

Marine and Freshwater Research, 70(6) 881-890. DOI: https://doi.org/10.1071/MF18232

Amaral S.D., Branco P., Katopodis C., Ferreira M.T., Pinheiro A.N., Santos J.M. (2018)

To swim or to jump? Passage behaviour of a potamodromous cyprinid over an experimental broad-crested weir.

River Research and Applications, 34(2): 174-182. DOI: http://dx.doi.org/10.1002/rra.3232

Amaral S.D., Branco P., Rom√£o F., Viseu T., Ferreira M.T., Pinheiro A.N., Santos J.M. (2018)

The effect of weir crest width and discharge on passage performance of a potamodromous cyprinid.

Marine and Freshwater Research, 9(12): 1795-1804.

Calapez A.R., Serra S.R.Q., Santos J.M., Branco P., Ferreira M.T., Hein T., Brito A.G., Feio M.J. (2018)

The effect of hypoxia and flow decrease in macroinvertebrate functional responses: a trait-based approach to multiple-stressors in mesocosms.

Science of the Total Environment, 637-638: 647-656. DOI: https://doi.org/10.1016/j.scitotenv.2018.05.071

Rom√£o F., Santos J.M., Katopodis C., Pinheiro A.N., Branco P. (2018)

How does season affect passage performance and fatigue of Potamodromous Cyprinids? An experimental approach in a vertical slot fishway.

Water, 10(4): 395.

Sousa-Santos C., Pereira A.M., Branco P., Costa G.J., Santos J.M., Ferreira M.T., Lima C.S., Doadrio I., Robalo J.I. (2018)

Mito-nuclear sequencing is paramount to correctly identify sympatric hybridizing fishes.

Acta Ichthyologica et Piscatoria, 48(2): 123-141.

Branco P., Amaral S.D., Ferreira M.T., Santos J.M. (2017)

Do small barriers affect the movement of freshwater fish by increasing residency?

Science of the Total Environment, 581: 486-494.

Calapez A.R., Branco P., Santos J.M., Ferreira M.T., Hein T., Brito A.G., Feio M.J. (2017)

Macroinvertebrate short-term responses to flow variation and oxygen depletion: a mesocosm approach.

Science of the Total Environment, 599-600: 1202-1212.

Rivaes R., Boavida I., Santos J.M., Pinheiro A.N., Ferreira M.T. (2017)

Importance of considering riparian vegetation requirements for the long-term efficiency of environmental flows in aquatic microhabitats.

Hydrology and Earth System Sciences, 21(11): 5763-5780. DOI: https://doi.org/10.5194/hess-21-5763-2017

Rom√£o F., Quaresma A.L., Branco P., Santos J.M., Amaral S., Ferreira M.T., Katopodis C., Pinheiro A.N. (2017)

Passage performance of two cyprinids with different ecological traits in a fishway with distinct vertical slot configurations.

Ecological Engineering, 105: 180-188.

Santos J.M., Rivaes R., Boavida I., Branco P. (2017)

Structural microhabitat use by endemic cyprinids in a Mediterranean-type river: implications for restoration practices.

Aquatic Conservation: Marine and Freshwater Ecosystems, 28(1): 26-36.

Amaral S., Branco P., Silva A.T., Katopodis C., Viseu T., Ferreira M.T., Pinheiro A.N., Santos J.M. (2016)

Upstream passage of potamodromous cyprinids over small weirs: the influence of key-hydraulic parameters.

Journal of Ecohydraulics, 1(1-2):79-89.

Branco P., Santos J.M., Amaral S., Rom√£o F., Pinheiro A.N., Ferreira M.T. (2016)

Potamodromous fish movements under multiple stressors: connectivity reduction and oxygen depletion.

Science of the Total Environment, 572: 520-525.

Santos J.M., Rivaes R., Oliveira J.M., Ferreira M.T. (2016)

Improving yellow eel upstream movements with fish lifts.

Journal of Ecohydraulics, 31(4): 791‚Äď803.

Silva A.T., Katopodis C., Tachie M., Santos J.M., Ferreira M.T. (2016)

Downstream swimming behaviour of catadromous and potamodromous fish over spillways.

River Research and Applications, 32(5): 935-945.

Sousa-Santos C., Robalo J.I., Pereira A.M., Branco P., Santos J.M., Ferreira M.T., Sousa M., Doadrio I. (2016)

Broad-scale sampling of primary freshwater fish populations reveals the role of intrinsic traits, inter-basin connectivity, drainage area and latitude on shaping contemporary patterns of genetic diversity.

PeerJ, 4: e1694.

Boavida I., Santos J.M., Ferreira M.T., Pinheiro A.N. (2015)

Barbel habitat alterations due to hydropeaking.

Journal of Hydro-Environment Research, 9(2): 237-247.

Rivaes R., Boavida I., Santos J.M., Pinheiro A.N., Ferreira M.T. (2015)

The inbuilt long-term unfeasibility of environmental flows when disregarding riparian vegetation requirements.

Hydrology and Earth System Sciences Discussion, 12: 10701-10737.

Boavida I., Dias V., Ferreira M.T., Santos J.M. (2014)

Univariate functions versus fuzzy logic: implications for fish habitat modeling.

Ecological Engineering, 71: 533-538.

Branco P., Segurado P., Santos J.M., Ferreira M.T. (2014)

Prioritizing barrier removal to improve functional connectivity of rivers.

Journal of Applied Ecology, 51(5): 1197-1206.

Santos J.M., Branco P., Katopodis C., Ferreira M.T., Pinheiro A.N. (2014)

Retrofitting pool-and-weir fishways to improve passage performance of benthic fishes: effect of boulder density and fishway discharge.

Ecological Engineering, 73: 335-344.

Boavida I., Santos J.M., Katopodis C., Ferreira M.T., Pinheiro A.N. (2013)

Uncertainty in predicting the fish response to two-dimensional habitat modeling using field data.

River Research and Applications, 29: 1164-1174.

Branco P., Boavida I, Santos J.M., Pinheiro A.N., Ferreira M.T. (2013)

Boulders as building blocks: improving habitat and river.

Ecohydrology, 6(4): 627-634.

Branco P., Santos J.M., Katopodis C., Pinheiro A., Ferreira M.T. (2013)

Pool-type fishways: two different morpho-ecological cyprinid species facing plunging and streaming flows.

PLoS ONE, 8(5): e65089.

Branco P., Santos J.M., Katopodis C., Pinheiro A.N., Ferreira M.T. (2013)

Effect of flow regime hydraulics on passage performance of Iberian chub (Squalius pyrenaicus) (Gunther, 1868) in an experimental pool-and-weir fishway.

Hydrobiologia, 714(1): 145-154.

Santos J.M., Branco P., Silva A.S., Katopodis C., Pinheiro A., Viseu T., Ferreira M.T. (2013)

Effect of two flow regimes on the upstream movements of the Iberian barbel (Luciobarbus bocagei) in an experimental pool-type fishway.

Journal of Applied Ichthyology, 29: 425-430.

Santos J.M., Encina L., Oliveira J.M., Teixeira A. (2013)

Feeding ecology of the Ruivaco achondrostoma oligolepis, a Portuguese endemic cyprinid fish.

Limnetica, 32: 27-38.

Boavida I., Santos J.M., Cortes R.V., Pinheiro A.N., Ferreira M.T. (2012)

Benchmarking river habitat improvement.

River Research and Applications, 28(10):1768-1779.

Branco P.J., Segurado P., Santos J.M., Pinheiro P.J., Ferreira M.T. (2012)

Does longitudinal connectivity loss affect the distribution of freshwater fish?

Ecological Engineering,48: 70-78.

Oliveira J.M.,Segurado P., Santos J.M., Teixeira A., Ferreira M.T., Cortes R.V. (2012)

Modelling stream-fish functional traits in reference conditions: Regional and local environmental correlates.

PLoS ONE, 7(9): e45787.

Santos J.M., Silva A.T., Katopodis C., Pinheiro P.J.,. Pinheiro A.N, Bochechas J., Ferreira M.T. (2012)

Ecohydraulics of pool-type fishways: getting past the barriers

Ecological Engineering, 48: 38-50.

Silva A.T., Katopodis C., Santos J.M., Ferreira M.T., Pinheiro N.A (2012)

Cyprinid swimming behaviour in response to turbulent flow.

Ecological Engineering, 44: 314-328.

Silva A.T., Santos J.M., Ferreira M.T., Pinheiro A.N., Katopodis C. (2012)

Passage efficiency of offset and straight orifices for upstream movements of Iberian barbel in a pool-type fishway.

River Research and Applications, 28(5): 529-542.

Boavida I., Santos J.M., Cortes R.V., Pinheiro A.N., Ferreira M.T. (2011)

Assessment of instream structures for habitat improvement for two critically endangered fish species

Aquatic Ecology, 45(1): 113-124.

Boavida I., Santos J.M., Pinheiro A.N, Ferreira M.T. (2011)

Fish habitat availability simulations using different morphological variables

Limnetica, 30(2): 393-404.

Santos J.M., Reino L., Ferreira M.T., Oliveira J., Almeida P.R., Cortes R.V. (2011)

Complex size-dependent habitat associations in potamodromous fish species.

Aquatic Sciences, 73(2): 233-245.

Segurado P., Santos J.M., Pont D., Melcher A., Jalon D.G., Hughes R.M., Ferreira M.T. (2011)

Estimating species tolerance to human perturbation: expert judgment versus empirical approaches.

Ecological Indicators, 11(6): 1623-1635.

Silva A.T., Santos J.M., Ferreira M.T., Pinheiro A., Katopodis C. (2011)

Effects of water velocity and turbulence on the behaviour of Iberian barbel (Luciobarbus bocagei, Steindachner 1864) in an experimental pool-type fishway.

River Research and Applications, 27(3): 360-373.

Hughes S.J., Santos J.M., Ferreira M.T., Mendes A. (2010)

Evaluating the response of biological assemblages as potential indicators for restoration measures in an intermittent mediterranean river.

Environmental Management, 46: 285-301.

Hughes S.J., Santos J.M., Ferreira M.T., Caraça R., Mendes A.S. (2009)

Ecological assessment of an intermittent Mediterranean river using community structure and function: evaluating the role of different organism groups

Freshwater Biology, 54: 2383-2400.

Silva A.T., Santos J.M., Franco A.C., Ferreira M.T., Pinheiro A.N. (2009)

Selection of Iberian barbel Barbus bocagei (Steindachner, 1864) for orifices and notches upon different hydraulic configurations in an experimental pool-type fishway.

Journal of Applied Ichthyology, 25(2): 173-177.

Santos J.M., Ferreira M.T. (2008)

Microhabitat use by endangered Iberian cyprinids nase Iberochondrostoma almacai and chub Squalius aradensis.

Aquatic Sciences, 70(3): 272-281.

Santos J.M., Pinheiro P.J., Ferreira M.T., Bochechas J. (2008)

Monitoring fish passes using infrared beaming: a case study in an Iberian river.

Journal of Applied Ichthyology, 24(1): 26-30.

Ferreira M.T., Sousa L., Santos J.M., Reino L., Oliveira J., Almeida P.R., Cortes R.V. (2007)

Regional and local environmental correlates of native Iberian fish fauna.

Ecology of Freshwater Fish, 16: 504-514.

Books

Manual para a avaliação biológica da qualidade da água em sistemas fluviais segundo a directiva quadro da água. Protocolo de amostragem e análise para a fauna piscícola

Bernardo J.M., Ilhéu M., Matono P., Cortes R., Ferreira M.T., Santos J.M., Formigo N., Almeida P.R., Quintella B.R. (2008)

Minist√©rio do Ambiente, do Ordenamento do Territ√≥rio e do Desenvolvimento Regional, Instituto da √Āgua, Lisboa, INAG IP., 15 p. URL: https://www.apambiente.pt/dqa/assets/protocolo-de-amostragem-e-an%C3%A1lise-para-a-fauna-pisc%C3%ADcola.pdf

Projecto Aquariport: programa nacional de monitorização de recursos piscícolas e de avaliação da qualidade ecológica de rios

Oliveira J.M., Santos J.M., Teixeira A., Ferreira M.T., Pinheiro P.J., Geraldes A., Bochechas J. (2007)

Direcção Geral dos Recursos Florestais, Ministério da Agricultura, Desenvolvimento Rural e Pescas, Lisboa, 96 p. ISBN: 978-972-8097-67-7 URL: https://www.icnf.pt/api/file/doc/10b9c356a29f21f4

Book Chapters
No book chapter found.

Projects

MERLIN

Mainstreaming Ecological Restoration of freshwater-related ecosystems in a Landscape context: INnovation, upscaling and transformation

Duration: 2021-2025

CEF Budget: 314¬†437,50 ‚ā¨

ALIENTRADE

Something in the way they move: how global patterns of wildlife trade influence global invasion success

Duration: 2018-2021

CEF Budget: 35.807 ‚ā¨

OPTIMUS PRIME

Optimal Greening of Irrigated farmland to achieve a prime environment

Duration: 2016-2021

CEF Budget: 191.226 ‚ā¨