1. personal data
2. academic degree
3. area of scientific activity
4. research projects
5. membership in scientific societies
6. referee and editor of scientific journals
7. publications
8. supervising theses
9. language skills
10. other information
1. personal data
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name
João M. Neto
address
MARE - Marine and Environmental Sciences Centre, Fac. Sci and Technology, University of Coimbra, Largo Marquês de Pombal, 3004-517 Coimbra, Portugal
contact data
tel. +351 239240700 (ext.262286) | +351 911144566
fax. +351 239823603
email jneto@ci.uc.pt
Orcid http://orcid.org/0000-0002-9033-3671
 
2. academic degree
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year academic degree scientific area institution
1995 Graduation Biology University of Coimbra
1999 MSc Marine Ecology University of Coimbra
2004 PhD Biology University of Coimbra
 
3. area of scientific activity
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domain of specialization
Marine and estuarine ecology
 
present investigation interests
Research in Biological and Ecological processes in aquatic ecosystems, with emphasis to estuaries and coastal areas:
- Evaluation of water and environmental quality (development of assessment indices for WFD implementation);
- Marine biodiversity assessment (development of assessment tools for MSFD implementation);
- Environmental quality and habitat recuperation (saltmarsh and seagrass beds) in coastal systems;
- Ecological modelling, eutrophication processes in estuaries, nutrient dynamics, and their effects on estuarine populations;
- Communities structure and functioning; Populations biology and dynamics of benthic macroinvertebrates and primary producers (macroalgae and seagrasses);
- Invasive species.

Secondary
Research on Molluscs, taxonomy, ecology and biogeography.
 
other skills/activities
Profissional activity.
2014
Coordination, from 2014, of the Sub-Biological Quality Element - Angiosperms (Seagrass and Saltmarsh plants)- in the NEA-GIG (EU Intercalibration exercise phase II-continuation);

2009-2012
Coordination, from 2009-2012, of the Biological Quality Element - Macroalgae and Angiosperms-, in the NEA-GIG (EU Intercalibration exercise phase II).

2015
Researcher (special regime) at the Fundação da Faculdade de Ciências da Universidade de Lisboa (2015).

2014
Invited Scientist in the University of Coimbra (2014).

2009-2014
Associate researcher at IMAR – Institute of Marine Research, July 2009 to June 2014, under the scope of the ‘Ciência 2008’ initiative from FCT (Fundação para a Ciência e a Tecnologia), in the area of Ecological Quality Status (EQS) Assessment.

Under-graduation teaching
Coordination
2013/2014.
Coordinator and lecturer of theoretical and practical classes of the discipline of “Biodiversity and Global Changes” (Biodiversidade e Alterações Globais), integrated in graduation courses of “Biologia Aplicada”, “Biologia – Geologia” and “Ciências Ambientais”, offered in the 2nd semester by the School of Sciences, University of Minho.

Lecturer
2014/2015.
Practical classes of the discipline “Animal Diversity” (Introduction to Diversity Indices. Study and analysis of benthic macroinvertebrate communities from the Buarcos Bay rocky shores: disturbance pressure and quality indices results) integrated in the Biology graduation of the Department of Life Sciences, University of Coimbra.

2009.
Theoretical and practical classes of the discipline “Algae and Fungi” (The use of macroalgae in quality assessment: the Marine Macroalgae Assessment Tool – MarMAT), integrated in the Biology graduation of the Department of Botany, University of Coimbra.

2009/2010.
Practical classes of the discipline “Marine Biology and Ecology, integrated in the Biology graduation of the Department of Zoology, University of Coimbra.

1999/2008.
Practical classes of the discipline “Hidrobiologia”, integrated in the Biology graduation of the Department of Zoology, University of Coimbra (Portugal), 1999/2000 until 2003/2004, 2006/2007, 2007/2008.

Pos-graduation teaching
2013.
“Ecologia de Estuários (II curso avançado)”, promoted by the pos-graduation program of Ecologia e Conservação from the Universidade Estadual de Paraíba, from the 11 – 22 March, João Pessoa-PB, Brazil.

2012
“Aquatic primary producers: Environmental monitoring, ecotoxicity testing and toxic blooms”, to be held in Coimbra, from the 18 – 22 June, in cooperation Maria João Feio (IMAR-CMA, University of Coimbra, Portugal), Salomé Almeida, (University of Aveiro, Portugal), Leonel Pereira (University of Coimbra, Portugal), Gertie Arts (Alterra, University of Wageningen, The Netherlands), Ignácio Moreno-Garrido (ICMAN-CSIC, Spain), Matilde Moreira-Santos (IMAR-CMA, University of Coimbra, Portugal), Rui Ribeiro (University of Coimbra, Portugal), Margarida Reis (University of Algarve, Portugal), Vitor Vasconcelos (University of Porto, Portugal).

2010
“Environmental quality assessment and management”. Coimbra (Portugal), from 3rd to 14th May, in cooperation with Professor João Carlos Marques (University of Coimbra, Portugal), Professor Soren N. Nielsen (Royal School of Pharmacy, Copenhagen, Denmark), Professor Brian Fath (University of Towson, USA), Ph.D. Joana Patrício (IMAR–CMA, University of Coimbra, Portugal), Ph.D. Heliana Teixeira (IMAR–CMA, University of Coimbra, Portugal), Ph.D. Irene Martins (IMAR–CMA, University of Coimbra, Portugal)

2008
“Environmental management of ecosystems”. Coimbra (Portugal), from 28th April to 9th May, in cooperation with Professor João Carlos Marques (University of Coimbra, Portugal), Professor Sven Erik Jørgensen (Royal School of Pharmacy, Copenhagen, Denmark), Professor Pattern (University of Towson, USA), Professor Brian Path (University of Towson, USA), Ph.D. Joana Patrício (IMAR – CIC, Portugal)

2006
“Feedback mechanisms and nutrient dynamics. The use of mass balances in aquatic systems management”. Coimbra (Portugal), from 5th to 16th June, in cooperation with Professor Miguel Ângelo Pardal (University of Coimbra, Portugal), Professor Mogens Rene Flindt (University of Southern Denmark, Denmark), Ph.D. Ana Isabel Lillebø (IMAR – CIC, Portugal) and Ph.D. Irene Martins (IMAR – CIC, Portugal).

2005
“Feedback mechanisms and nutrient dynamics. The use of mass balances in aquatic systems management”. Coimbra (Portugal), from 23rd May to 3rd June, in cooperation with Professor Miguel Ângelo Pardal (University of Coimbra, Portugal), Professor Mogens Rene Flindt (University of Southern Denmark, Denmark), Ph.D. Ana Isabel Lillebø (IMAR – CIC, Portugal) and Ph.D. Irene Martins (IMAR – CIC, Portugal).

2004
“Introduction to ecological modelling concepts.” Integrated in project MEDCORE (ICA3 2002-10003) - From river catchement areas to the sea: a comparative and integrated approach to the ecology of Mediterranean coastal zones for sustainable management. Tunis (Tunisia), from 30th September to 3rd October, in cooperation with Professor Sven Erik Jørgensen (Royal School of Pharmacy, Copenhagen, Denmark) and Professor João Carlos Marques (University of Coimbra, Portugal).

2002
“Feedback mechanisms and nutrient dynamics. The use of mass balances in aquatic systems management”. Coimbra (Portugal), from 10th to 22nd June, in cooperation with Professor Miguel Ângelo Pardal (University of Coimbra, Portugal), Professor Mogens Rene Flindt (University of Southern Denmark, Denmark), Ph.D. Ana Isabel Lillebø (IMAR – CIC, Portugal) and Ph.D. Irene Martins (IMAR – CIC, Portugal) (Laboratory and technical support).

2001
“Feedback mechanisms and nutrient dynamics. The use of mass balances in aquatic systems management”. Coimbra (Portugal), from 2nd to 14th July, in cooperation with Professor Miguel Ângelo Pardal (University of Coimbra, Portugal), Professor Mogens Rene Flindt (University of Southern Denmark, Denmark), Ph.D. Ana Isabel Lillebø (IMAR – CIC, Portugal) and Ph.D. Irene Martins (IMAR – CIC, Portugal) (Laboratory and technical support).

2000
“Feedback mechanisms between autotrophic/heterotrophic processes and nutrient dynamics. The use of mass balances in aquatic ecosystems”. Coimbra (Portugal), from 3rd to 15th July, , in cooperation with Professor Miguel Ângelo Pardal (University of Coimbra, Portugal), Professor Mogens Rene Flindt (University of Southern Denmark, Denmark), Ph.D. Ana Isabel Lillebø (IMAR – CIC, Portugal) and Ph.D. Irene Martins (IMAR – CIC, Portugal) (Laboratory and technical support).

Oral presentations - Invitations.
2014.
“Avaliação da Qualidade da Água: os desafios Europeus", integrated in the activities of the Department of Biology (DBio Seminars), School of Sciences of University of Minho. 30th April, Minho, Portugal.

2013.
“Dinâmica de nutrientes e seus efeitos sobre populações estuarinas”, integrated in the 1º workshop sobre conectividade e Monitoramento de Ecossistemas Estuarinos, promoted by the pos-graduation program of Ecologia e Conservação from the Universidade Estadual de Paraíba, from the 15 – 16 March, João Pessoa-PB, Brazil.

“Assessing the Ecological Quality Status of estuaries under the European WFD: The case of the Mondego estuary (Portugal)." J.C. Marques, H. Teixeira, J. Patrício, J.M. Neto. In: Implementación de la Directiva Marco de Aguas en el estuario del Río Miño Condiciones de referencia y evaluación de estado ecológico, 11th January, Vigo, Spain.

2010.
“Avaliação do Estado Ecológico das Massas de Água Costeiras e de Transição e do Potencial Ecológico das Massas de Água Fortemente Modificadas. Sistemas de classificação e resultados provisórios de estado de qualidade ecológica das massas de água Portuguesas" 3rd December, INAG, Lisboa, Portugal.

Workshops.
2006
“Funcionamento hidrológico do estuário do Mondego. Bases para um programa de restauração ecológica." J.C. Marques, J.M. Neto, J. Patrício, H. Teixeira, R. Pinto, H. Veríssimo. 15th December, INAG, Lisboa, Portugal.

2004
“Amostragem de macro-bentos sub-tidal no Estuário do Mondego.” – VIII Encontro Nacional de Estudantes de Biologia (‘Sampling subtidal macrobenthos in the Mondego estuary’ – VIII Biology students national meeting), from 3rd to 5th April.

2001, 2002, 2003
“Os organismos dos estuários - Das algas às Aves.” (‘The organisms from estuaries – From algae to birds’), Ciência Viva, Biologia no Verão.


Special licenses.
2014.
Professional Training Certificate (Dec. Reg. no. 35/2002) for Laboratory Animal Sciences – Aquatic Organisms, given by the Aquatic Organisms Bioterium (BOGA) from CIIMAR – Interdisciplinary Centre for Marine and Environmental Research, University of Porto, Portugal.
 
4. coordination/participation of research projects
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With Portuguese national financial support
Researcher
With National Financial Support
2011/2014.
Title: ESTUÁRIOS DO MINHO, MONDEGO E MIRA, observatórios: Variações do estado ecológico a longo prazo originadas por pressões naturais e humanas. implicações na gestão e recuperação - 3M_RECITAL
Support: FCT, Portugal (Proposal/Contract nº LTER/BIA-BEC/0019/2009). Funding: 199.932,00 €.
Coordinator: João Carlos Sousa Marques (University of Coimbra, Portugal)

2011/2014
Title: INPACTAR - Long-term effects of intersexuality and other impacts on populations of
Echinogammarus marinus
Funding: FCT, Portugal (PTDC/MAR/111537/2009; 168 287€)
Coordinator: Irene Martins (IMAR-CMA)

2008/2011.
Title: System dynamic response to an ample artificial RE-establishment of the upstream CONNECTion between the two arms of the Mondego estuary (Portugal): Implications for recovery, ecological quality status, and management – RECONNECT
Support: FCT, Portugal (Proposal/contract:: PTDC/MAR/64627/2006). Funding: 25000 € .
Coordinator: João Carlos Marques (University of Coimbra, Portugal).

2008/2011.
Title: Integrating molecular approaches into marine biodiversity research in Portugal: Implementing DNA barcoding and investigating phylogeographic patterns - LUSOMARBOL..
Support: FCT (Proposal/Contract nº PTDC/MAR/69892/2006)
Coordinator: Filipe Costa (FCT-UNL).

2008/2010.
Title: Effects of extreme freshwater input fluctuations on the ecological status assessment in estuarine ecosystem: The benthic perspective – EXTREMIS
Support: Instituto de Investigação Interdisciplinar, University of Coimbra.
Coordinator: Joana Patrício (University of Coimbra, Portugal).

2008.
Title: Rede de Competência em Biónica sobre as Ciências do Mar na Região Centro de Portugal – BIOMA
Support Program ICENTRO – Programa Regional de Acções Inovadoras da Região do Centro de Portugal 2006/2007 (n.º CCI 2005 PT 16 0 PP 002, European Comission).
Coordinator: CITEVE – Centro Tecnológico das Indústrias Têxtil e do Vestuário de Portugal

2005/2008.
Title: Effects of natural stress generated by freshwater discharges in the benthic invertebrate estuarine communities and its influence on the assessment of the benthic ecological status – EFICAS
Support: FCT, Portugal (Proposal/contract:: POCI/MAR/61324/2004).
Coordinator: João Carlos Marques (University of Coimbra, Portugal).

2000/2003.
Title: Cross-shore processes on contrasting environments – CROP. (PDCTM/MAR/15265/99).
Support: FCT – PDCTM
Coordinator: João Alveirinho Dias (UCTRA, University of Algarve)

1996/1998.
Title: Caracterização das comunidades bentónicas intertidais e subtidais em substrato rochoso da reserva das Berlengas. (Protocolo IMAR/ICN).
Support: ICN (100%).
Coordinator: Miguel Ângelo Pardal e João Carlos Marques (IMAR – Institute of Marine Research, Univ. of Coimbra, Portugal).

1994/1995.
Estuário do Mondego: Evolução temporal das comunidades bentónicas e impacto da descarga excessiva de nutrientes. (PBIC/C/MAR/1301/92).
Support: JNICT (Programa Base de Investigação Científica e Tecnológica).
Coordinator: João Carlos Marques (FCTUC).
With international financial support
Coordination
2014/2017.
Title: Modelagem ecológica do estuário do Rio Mamanguape, PB: uma ferramenta de gestão e manejo. (MEC/MCTI/CAPES/CNPq/FAPs Nº 03/2014)
Support: Funding programme / agency: Ciência Sem Fronteiras – Pesquisador Visitante Especial Nº 03/2014 (BR). Funding: 363,890 R$.
Coordination: Ierecê Maria de Lucena Rosa / João M. Neto

2014/2016.
Title: Mamanguape Estuary: biological Baseline and Ecological Model - MEBEM (MCTI/CNPq Nº 14/2013 – Proc. 486881/2013-0)
Support: Funding programme / agency: Chamada Pública MCTI/CNPq Nº 14/2013 - Universal (BR). Funding: 119,809 R$.
Coordination: João M. Neto

2009/2012.
Title: EU Intercalibration exercise phase II
Support: 0€
Coordination: João M. Neto (Biological Quality Element - Other Aquatic Plants, NEA-GIG).


Researcher
2012/2016.
Title: DEVelopment Of innovative Tools for understanding marine biodiversity and assessing good Environmental Status - DEVOTES
Support: EU, FP7-ENV-2012-two-stage (100%), (Proposal/Contract nº FP7-ENV-2008-1). Funding: 8,998 X 103 € (total).
Coordination: Ángel Borja (AZTI- Tecnalia / Marine Research Division, Spain).

2012/2013
Title: Desenvolvimento de metodologias rápidas para a classificação do estado das massas de água de transição da Galiza e do Norte de Portugal, no âmbito do projecto Team-Miño – Transferencia de herramientas para la evaluatión, ordenatión, gestión y educación anbiental en estuarios.
Support: EU - Programa Operativo de Cooperacíon Transfronteiriza España-Portugal (POCTEP) 2007-2013 (Team-Miño, project code: 0543_TEAM_MINO_1_E). Funding: 1,032 x 103€ (total); IMAR-CMA 39,999 €.
Coordinator: Ricardo Beiras (Univ. Vigo, Spain)

2009/2012.
Title: Water bodies in Europe: Integrative Systems to assess Ecological status and Recovery – WISER
Support: EU, INCO programme (100%), (Proposal/Contract nº FP7-ENV-2008-1). Funding: 8833 X 103 € (total); IMAR-CIC 194.8 X 103 €.
Coordinator: Daniel Hering, University of Duisburg-Essen (UDE), Germany).

2009/2012.
Title: EU Intercalibration exercise phase II
Support: 0€
Participation in Working Groups of Biological Quality Elements Benthic macroinvertebrates (Ángel Borja, AZTI, Spain) and Fish Fauna (Mario Lepage, IRSTEA, France).

2008/2012
Title: MODERN (MObility, Development and Energy use ReductioN)
Support: Grant Agreement no.: 219041 (SEVENTH FRAMEWORK PROGRAMME, THEME 7 - TRANSPORT) (EU financial support of 9 310 451.00€)
Coordinator: Local Council of Craiova Municipality, Romania

2005/2008.
Title: Sustainable management of Mediterranean coastal fresh and transitional water bodies: a socioeconomic and environmental analysis of changes and trends to enhance and sustain stakeholders benefits - WADI.
Support: EU - INCO programme (100%) (Proposal/Contract nº 015226). Funding: 1820 X 103 € (total); IMAR-CIC 145 X 103 €.
Coordinator: Felicita Scapini (University of Florence, Italy).

2003/2005.
Title: From river catchement areas to the sea: a comparative and integrated approach to the ecology of Mediterranean coastal zones for sustainable management.
Support: UE - MEDCORE (ICA3 2002-10003)
Coordinator: Felicita Scapini (University of Florence, Italy)

1998/2000.
Title: Bases for the integrated sustainable management of Mediterranean sensitive coastal ecosystems. (ERB3514PL972762).
Support: UE, INCO Programme (100%)
Coordinator: Felicita Scapini (University of Florence, Italy)

1998/1999.
Title: Marine Science and Technology Programe: Feed-backs of estuarine circulation and transport of sediments on phytobenthos. (MAS 3 - CT97 - 0145).
Financiamento: UE, Programa DG XII MAST
Coordenador: HR Wallingford

1997/2000.
Wetland Ecology and Technology. (TMR) (ERB 4061 PL 95-0832)
Financiamento: UE, Programa TMR (100%).
Coordenador: Klaus Dieren Widmoser (Christian-Albrechts - University of Kiel, Germany).

1994/1995.
Marine Universal STructural Model. (MUST) (MAS2-CT92-0036).
Financiamento: UE, Programa MAST II (100%).
Coordenador: Sven Erik Jørgensen (Royal School of Pharmacy, Denmark).
Services rendered
Coorditation
2015
Title: Characterisation of macroinvertebrate communities of subtidal soft bottoms from the western coast of Algarve (Portugal). Species list and quality status assessment.
Support: SAGREMARISCO – VIVEIROS DE MARISCO, LDA., Portugal. Funding: 7.995,00 €.
Coordinator: João M. Neto (IMAR, University of Coimbra, Portugal)

2014.
Title: Estabelecimento de Sistemas de Classificação, Avaliação do Estado das Massas de Água Costeira e de Transição, desenvolvimento de metodologias para a identificação de Pressões significativas e acompanhamento do Exercício de Intercalibração – Elemento Biológico Macroinvertebrados Bentónicos (No âmbito do projeto EEMA - Avaliação do estado ecológico das massas de água costeiras e de transição adjacentes e do potencial ecológico das massas de água fortemente modificadas - POVT-12-0133-FCOES-00017)
Support: APA – Agência Portuguesa do Ambiente, Portugal. Funding: 42.520,00 €.
Coordinator: João M. Neto (IMAR, University of Coimbra, Portugal)


Researcher
2011/2012
Title: Monitorização das comunidades biológicas costeiras e estuarinas, no pós-obra do prolongamento do molhe norte do Porto da Figueira da Foz.
Funding: IPTM - Instituto Portuário e dos Transportes Marítimos (IPTM)
Coordinator: João Carlos Marques

2010/2012.
Title: Avaliação do Estado Ecológico das Massas de Água Costeiras e de Transição e do Potencial Ecológico das Massas de Água Fortemente Modificadas – EEMA.
Support: INAG – Instituto da Água (Portugal) (POVT-03-0133-FCOES-000017)
Coordinator: INAG – Instituto da Água (Portugal)

2009/2010
Title: Monitorização das comunidades biológicas do estuário do Mondego, associada à intervenção do prolongamento do molhe Norte do Porto da Figueira da Foz na fase de obra.
Funding: IPTM - Instituto Portuário e dos Transportes Marítimos
Coordinator: João Carlos Marques

2005/2008.
Title: Reference conditions and intercalibration of Portuguese coastal and transition waters - RECITAL
Support: INAG – Instituto da Água (Portugal); Funding: INAG (contract nº 2005/056/INAG)
Coordinator: Alice Newton, IMAR, University of Algarve)

2004/2006.
Title: Estudo piloto do estuário do Mondego no âmbito da implementação do Programa Objectivos de Qualidade Ambiental Eutrofização (EcoQOs-Eutro-OSPAR) Harmonização dos critérios OSPAR com a Directiva Quadro da Água Europeia.
Support: INAG – Instituto da Água (Portugal); Contract nº 2004/067/INAG (100%)
Coordinator: João Carlos Marques (Institute of Marine Research, Centro Interdisciplinar de Coimbra, Faculty of Sciences and Technology, University of Coimbra (Portugal);

2002/2004.
Title: Caracterização do estuário do rio Mondego e estabelecimento de cenários de gestão em termos da qualidade da água e da integridade do ecossistema.
Support: INAG – Institute of Water (Portugal); (100%)
Coordinator: João Carlos Marques (Institute of Marine Research, Centro Interdisciplinar de Coimbra, Faculty of Sciences and Technology, University of Coimbra (Portugal);
 
5. membership in scientific societies
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6. referee and editor of scientific journals
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Revision of papers submitted to the following scientific
journals:
Acta Oecologica;
Aquatic Botany;
Brazilian Journal of Biology;
Brazilian Journal of Oceanography;
Deep Shelf Research 2;
Desalination;
Ecological Indicators;
Environmental Pollution;
Environmental Science & Policy;
Estuaries and Coasts;
Estuarine Coastal and Shelf Science;
Hydrobiology;
Journal of Applied Ecology;
Journal of Sea Research;
Marine Environmental Research;
Marine Ecology;
Marine Ecology Progress Series;
Marine Pollution Bulletin;
Mediterranean Marine Science;
Ocean & Coastal Management.
 
7. publications
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|books| |book chapters| |book reviews| |proceedings (int)|
|proceedings (nat)| |national journals| |technical reports| |oral presentations| |posters|
papers in international scientific periodicals with referee (ISI)
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ISI Web of Knowledge Citation Report (March 2015).
[1] Web of Science: Articles with Citation Data 64; Sum of the Times Cited 1240; Average Citations per Item 19.38; h-index 21 (search by #AND#: NETO, J.; NETO, João; NETO, J.M; NETO, Joao M.; NETO, João M.; NETO, João Magalhães; NETO, Joao Magalhaes; MAGALHÃES NETO, J.M.)

[2] Researcher ID: F-1159-2013

[3] ORCID code: 0000-0002-9033-3671


Publications in ISI Journals
[68] Vinagre P.A., Pais-Costa A.J., Marques J.C., Neto J.M., 2015. Setting reference conditions for mesohaline and oligohaline macroinvertebrate communities sensu WFD: Helping to define achievable scenarios in basin management plans. Ecological Indicators, 56: 171-183 (http://dx.doi.org/10.1016/j.ecolind.2015.04.008).

[67] Borja A., Prins T., Simboura N., Andersen J.H., Berg T., Marques J.C., Neto J.M., Papadopoulou N., Reker J., Teixeira H., Uusitalo L. 2014. Tales from a thousand and one ways to integrate marine ecosystem components when assessing the environmental status. Frontiers in Marine Science, 1: 1-20 (doi: 10.3389/fmars.2014.00072).

[66] Ramos, E., A. Puente, J.A. Juanes, J.M. Neto, A. Pedersen, I. Bartsch, C. Scanlan, R. Wilkes, E. Van den Bergh, E. Ar Gall and R. Melo. 2014. Biological validation of physical coastal waters classification along the NE Atlantic region based on rocky macroalgae distribution. Estuarine, Coastal and Shelf Science, 147: 103-112. (doi: 10.1016/j.ecss.2014.05.036).

[65] Neto J.M., Feio M.J., Teixeira H., Patrício J., Serra S.R.Q., Franco J.N., Calapez A.R., Constantino E., 2014. Transitional and freshwater bioassessments: one site, two perspectives?. Marine Pollution Bulletin, 78: 153-164. (doi.org/10.1016/j.marpolbul.2013.10.048).

[64] Kristensen E., Neto J.M, Lundkvist M., Frederiksen L., Pardal M.A., Valdemarsen T., Flindt M.R., 2013. Influence of benthic macroinvertebrates on the erodability of estuarine cohesive sediments: Density- and biomass-specific responses. Estuarine, Coastal and Shelf Science; 134: 80-87 (doi.org/10.1016/j.ecss.2013.09.020).

[63] Borja A., Elliott M., Andersen J.H., Cardoso A.C., Carstensen J., Ferreira J.G., Heiskanen A.S., Marques J.C., Neto J.M., Teixeira H., Uusitalo L., Uyarra M.C., Zampoukas N., 2013. Good Environmental Status of marine ecosystems: What is it and how do we know when we have attained it?. Marine Pollution Bulletin, 76: 13-27 (doi.org/10.1016/j.marpolbul.2013.08.042).

[62] Modesto, V., J. N. Franco, R. Sousa, J. Patrício, J. C. Marques & J. M. Neto, 2013. Spatial and temporal dynamics of Corbicula flumínea (Müller, 1774) in relation to environmental variable in the Mondego estuary (Portugal). Journal of Molluscan Studies, 79(4): 302-309 (doi.org/10.1093/mollus/eyt026).

[61] Neto J.M., Barroso D.V., Barría P., 2013. Seagrass Quality Index (SQI), a Water Framework Directive compliant tool for the assessment of transitional and coastal intertidal areas. Ecological Indicators, 30: 130-137 (doi.org/10.1016/j.ecolind.2013.02.015).

[60] Caçador I., Neto J.M., Duarte B., Barroso D.V., Pinto M., Marques J.C., 2013. Development of an Angiosperm Quality Assessment Index (AQuA-Index) for ecological quality evaluation of Portuguese water bodies—A multi-metric approach. Ecological Indicators, 25: 141-148 (doi.org/10.1016/j.ecolind.2012.09.021).

[59] Brito A.C., Brotas V., Caetano M., Coutinho T.P., Moita T., Bordalo A.A., Icely J., Neto J.M., Serôdio J., 2013. Replying to Domingues et al., Ecological Indicators, 24, 245-255, (doi: 10.1016/j.ecolind.2012.06.020).

[58] Marques L., Carriço A., Bessa F., Gaspar R., Neto J.M., Patrício J., 2013. Response of intertidal macrobenthic communities and primary producers to mitigation measures in a temperate estuary. Ecological Indicators, 25: 10-22 (doi.org/10.1016/j.ecolind.2012.08.022).

[57] Pinna M., Marini G., Rosati I., Neto J.M., Patrício J., Marques J.C., Basset A., 2013. The usefulness of large body-size macroinvertebrates in the rapid ecological assessment of Mediterranean lagoons. Ecological Indicators, 29: 48-61 (doi.org/10.1016/j.ecolind.2012.12.011).

[56] Marbà, N., Krause-Jensen, D., Alcoverro, T., Birk, S., Pedersen, A., Neto, J.M., Orfanidis, S., Garmendia, J.M., Muxika, I., Borja, A., Dencheva, K., Duarte, C.M. 2013. Diversity of European seagrass indicators: Patterns within and across regions. Hydrobiologia, 704: 265–278 (doi.org/10.1007/s10750-012-1403-7).

[55] Mascaró O., Alcoverro T., Dencheva K., Krause-Jensen D., Marbà N., Muxika I., Neto J.M., Nikolić V., Orfanidis S., Pedersen A., Pérez M., Romero J., 2013. Exploring the robustness of different macrophyte-based classification methods to assess the ecological status of coastal and transitional ecosystems under the WFD. Hydrobiologia, 704:279–291 (doi: 10.1007/s10750-012-1426-0).

[54] Basset, A., Barbone, E., Borja, A., Elliott, M., Jona-Lasinio, G., Marques, J.C., Mazik, K., Muxika, I., Neto, J.M., Reizopoulou, S., Rosati, I., Teixeira, H., 2013. Natural variability and reference conditions: setting type-specific classification boundaries for lagoon macroinvertebrates in the Mediterranean and Black Seas. Hydrobiologia, 704:325–345 (doi: 10.1007/s10750-012-1273-z).

[53] Mantas, V.M., Pereira, A.J.S.C., Neto, J.M., Patrício, J. & Marques, J.C. 2013. Monitoring estuarine water quality using satellite imagery. The Mondego estuary (Portugal) as a case study. Ocean & Coastal Management, 72: 13-21 (doi: 10.1016/j.ocecoaman.2011.06.013).

[52] Ceia, F.R, Patrício, J., Franco, J.N., Pinto, R., Fernández-Boo, S., Losi, V., Marques, J.C. & Neto, J.M. 2013. Assessment of estuarine macrobenthic assemblages and ecological quality status at a dredging site in a southern Europe estuary. Ocean & Coastal Management, 72: 80-92 (doi: 10.1016/j.ocecoaman.2011.07.009).

[51] Pinto, R., de Jonge, V.N., Neto, J.M., Domingos, T., Marques, J.C. & Patrício, J. 2013. Towards a DPSIR driven integration of ecological value, water uses and ecosystem services for estuarine systems. Ocean & Coastal Management, 72: 64-79 (doi: 10.1016/j.ocecoaman.2011.06.016).

[50] Rérez-Domínguez R., Maci S., Courrat A., Lepage M., Borja A., Uriarte A., Neto J.M., Cabral H., St.Raykov V., Franco A., Alvarez M.C., Elliott M., 2012. Current developments on fish-based indices to assess ecological-quality status of estuaries and lagoons. Ecological Indicators, 23: 34-45 (doi: 10.1016/j.ecolind.2012.03.006).

[49] Ramos, E., Juanes, J.A., Galván, C., Neto, J.M., Melo, R., Pedersen, A., Scanlan, C., Wilkes, R., van den Bergh, E., Blomqvist, M., Karup, H.P., Heiber, W., Reitsma, J.M., Ximenes, M.C., Silió, A., Méndez, F., González, B., 2012. Coastal waters classification based on physical attributes along the NE Atlantic region. An approach for rocky macroalgae potential distribution. Estuarine, Coastal and Shelf Science, 112: 105-114 (doi: 10.1016/j.ecss.2011.11.041).

[48] Franco, J.N., Ceia, F.R., Patrício, J., Modesto, V., Thompson, J., Marques, J.C. & Neto, J.M. 2012. Population dynamics of Corbicula fluminea (Müller, 1774) in mesohaline and oligohaline habitats: invasion success in a Southern Europe estuary. Estuarine Coastal and Shelf Science, 112: 31-39 (doi: 10.1016/j.ecss.2011.07.014).

[47] Gonçalves, C.I., Pasquaud, S., Gamito, R., Fonseca, V.F., Costa, J.L., Erzini, K., Gonçalves, J.M.S., Martins, J, Leite, L., Castro, N., Andrade, J.P., Ramos, S., Bordalo, A., Amorim, E., Neto, J.M., Marques, J.C., Costa, M.J., Cabral, H., 2012. Robustness of the Estuarine Fish Assessment Index (EFAI) regarding water body definition criteria. Ecological Indicators, 20: 1-8 (doi: 10.1016/j.ecolind.2012.02.001).

[46] van der Linden, P., Patrício, J., Marchini, A., Cid, N., Neto, J.M. & Marques, J.C. 2012. A biological trait approach to assess the functional composition of subtidal benthic communities in an estuarine ecosystem. Ecological indicators, 20: 121-133 (doi:10.1016/j.ecolind.2012.02.004).

[45] Gaspar, R., Pereira, L., Neto, J.M., 2012. Ecological reference conditions and quality states of marine macroalgae sensu Water Framework Directive: An example from the intertidal rocky shores of the Portuguese coastal waters. Ecological Indicators, 19: 24-38 (doi:10.1016/j.ecolind.2011.08.022).

[44] Neto, J.M., Gaspar, R., Pereira, L., Marques, J.C., 2012. Marine Macroalgae Assessment Tool (MarMAT) for intertidal rocky shores. Quality assessment under the scope of the European Water Framework Directive. Ecological Indicators, 19: 39-47 (doi:10.1016/j.ecolind.2011.09.006).

[43] Cabral, H.N., Fonseca, V.F., Gamito, R., Gonçalve, C.I., Costa, J.L., Erzini, K., Gonçalves, J., Martins, J., Leite, L., Andrade, J.P., Ramos, S., Bordalo, A., Amorim, E., Neto, J.M., Marques, J.C., Rebelo, J.E., Silva, C., Castro, N., Almeida, P.R., Domingos, I., Gordo, L.S., Costa, M.J., 2012. Ecological quality assessment of transitional waters based on fish assemblages in Portuguese estuaries: The Estuarine Fish Assessment Index (EFAI). Ecological Indicators, 19: 144-153 (doi:10.1016/j.ecolind.2011.08.005)

[42] Brito, A. C, V. Brotas, M. Caetano, T. P. Coutinho, A. A. Bordalo, J. Icely, J. M. Neto, J. Serôdio, T. Moita, 2012. Defining phytoplankton class boundaries in Portuguese transitional waters: An evaluation of the ecological quality status according to the Water Framework Directive. Ecological Indicators, 19: 5-14 (doi 10.1016/j.ecolind.2011.07.025).

[41] Gamito, S., Patrício, J., Neto, J.M., Marques, J.C. & Teixeira, H. 2012. The importance of habitat-type for defining the reference conditions and the ecological quality status based on benthic invertebrates: the Ria Formosa coastal lagoon (southern Portugal) case study. Ecological Indicators, 19: 61-72 (doi:10.1016/j.ecolind.2011.08.004)

[40] Gamito, S., Patrício, J., Neto, J.M., Teixeira, H. & Marques, J.C. 2012. Feeding diversity index as complementary information in the assessment of ecological quality status. Ecological Indicators, 19: 73-78 (doi:10.1016/j.ecolind.2011.08.003)

[39] Veríssimo, H., Neto, J.M., Teixeira, H., Franco, J.N., Fath, B.D., Marques, J.C., Patrício, J., 2012. Ability of benthic indicators to assess ecological quality in estuaries following management. Ecological Indicators, 19: 130-143 (doi:10.1016/j.ecolind.2011.06.014).

[38] Patrício, J., Adão, H., Neto, J.M., Alves, A.S., Traunspurger, W. & Marques, J.C. 2012. Do nematode and macrofauna assemblages provide similar ecological assessment information? Ecological Indicators, 14: 124-137. (doi:10.1016/j.ecolind.2011.06.027).

[37] Borja, A., Barbone, E., Basset, A., Borgersen, G., Brkljacic, M., Elliott, M., Garmendia, J.M., Marques, J.C., Mazik, K., Muxika, I., Neto, J.M., Norling, K., Rodríguez, G., Rosati, I., Rygg, B., Teixeira, H., Trayanova, A., 2011. Response of single benthic metrics and multi-metric methods to anthropogenic pressure gradients, in five distinct European coastal and transitional ecosystems. Marine Pollution Bulletin, 62: 499–513 (doi:10.1016/j.marpolbul.2010.12.009)

[36] Pinto, R., Patrício, J., Neto, J.M., Salas, F. & Marques, J.C., 2010. Assessing estuarine quality under the ecosystem services scope: ecological and socioeconomic aspects. Ecological Complexity, 7: 389-402 (doi:10.1016/j.ecocom.2010.05.00199).

[35] Neto, J.M., Teixeira, H., Patrício, J., Baeta, A., Veríssimo, H., Pinto, R. & Marques, J.C. 2010. The response of estuarine macrobenthic communities to natural-and human-induced changes: dynamics and ecological quality. Estuaries and Coasts, 33:1327-1339. (doi 10.1007/s12237-010-9326-x)

[34] Couto, T., Patrício, J., Neto, J.M., Ceia, F.R., Franco, J. & Marques, J.C. 2010. The influence of mesh size in environmental quality assessment of estuarine macrobenthic communities. Ecological indicators, 10: 1162-1173 (doi:10.1016/j.ecolind.2010.03.019)

[33] Alves, A.S., Adão, H., Patrício, J., Neto, J.M., Costa, M.J., Marques, J.C. 2009. Spatial distribution of subtidal meiofauna communities along a salinity gradient in two Southern European estuaries (Portugal). Journal of the Marine Biological Association of the United Kingdom, 1-12 (doi: 10.1017/S0025315409000691).

[32] Garel, E., Nunes, S., Neto, J.M., Fernandes, R., Neves, R., Marques, J.C., Ferreira, O., 2009. The autonomous Simpatico system for real-time continuous water-quality and current velocity monitoring: examples of application in three Portuguese estuaries. Geo-Marine Letters, 29 (5): 331-341 (doi: 10.1007/s00367-009-0147-5).

[31] Teixeira, H., Neto, J.M., Patrício, J., Veríssimo, H., Pinto, R., Salas, F. & Marques, J.C. 2009. Quality assessment of benthic macroinvertebrates under the scope of WFD using BAT, the Benthic Assessment Tool. Marine Pollution Bulletin, 58: 1477-1486. (doi:10.1016/j.marpolbul.2009.06.006)

[30] Patrício, J., Neto, J.M., Teixeira, H., Salas, F. & Marques, J.C. 2009. The robustness of ecological indicators to detect long-term changes in the macrobenthos of estuarine systems. Marine Environmental Research, 68: 25-36 (doi: 10.1016/j.marenvres.2009.04.001).

[29] Adão, H., Alves, A., Patrício, J., Neto, J.M., Costa, M.J. & Marques, J.C. 2009. Spatial distribution of subtidal Nematoda communities along the salinity gradient in two Southern European estuaries (Portugal). Acta Oecologica, 35: 287–300. (doi:10.1016/j.actao.2008.11.007)

[28] Pinto, R., Patrício, J., Baeta, A., Fath, B.D., Neto, J.M. & Marques, J.C. 2009. Review and evaluation of estuarine biotic indices to assess benthic condition. Ecological Indicators, 9: 1-25 (doi: 10.1016/j.ecolind.2008.01.005).

[27] Teixeira, H., Salas, F., Neto, J.M., Patrício, J., Pinto, R., Veríssimo, H., García-Charton, J.A., Marcos, C., Pérez-Ruzafa, A. & Marques, J.C. 2008. Ecological indices tracking distinct impacts along disturbance-recovery gradients in a temperate NE Atlantic Estuary - guidance on reference values. Estuarine, Coastal and Shelf Science, 80: 130-140 (doi: 10.1016/j.ecss.2008.07.017).

[26] Martinho, F., Leitão, R., Neto, J.M., Cabral, H., Lagardère, F. & Pardal, M.A., 2008. Estuarine colonization, population structure and nursery functioning for 0-group sea bass (Dicentrarchus labrax), flounder (Platichthys flesus) and sole (Solea solea) in a mesotidal temperate estuary. Journal of Applied Ichthyology, 24: 229–237 (doi: 10.1111/j.1439-0426.2007.01049.x).

[25] De Paz, L., Neto, J.M., Marques, Laborda, A. 2008 Response of intertidal macrobenthic communities to long term human induced changes in the Eo estuary (Asturias, Spain): Implications for environmental management. Marine Environmental Research, 66: 288–299 (doi: 10.1016/j.marenvres.2008.04.004).

[24] Teixeira, H., Salas, F., Borja, A., Neto, J.M. & J.C. Marques, 2008. A benthic perspective in assessing the ecological status of estuaries: the case of the Mondego estuary (Portugal). Ecological Indicators, 8: 404-416 (doi:10.1016/j.ecolind.2007.02.008)

[23] Neto, J.M., Flindt, M.R., Marques, J.C. & M.A. Pardal, 2008. Modelling nutrient mass balance in a temperate meso-tidal estuary: Implications for management. Estuarine, Coastal and Shelf Science, 76 175-185 (10.1016/j.ecss.2007.06.013).

[22] Bouslama A., Neto J.M., Charfi-Cheikhrouha F. & Marques J.C., 2007. Biology, population dynamics and secondary production of Talitrus saltator (Amphipoda, Talitridae) at Korba beach (east coast of Tunisia). Crustaceana, 80(9): 1103-1119 (doi: 10.1163/156854007782008595).

[21] Martinho, F., R. Leitão, I. Viegas, M. Dolbeth, J.M. Neto, H.N. Cabral & M.A. Pardal, 2007. The influence of an extreme drought event in the fish community of a southern Europe temperate estuary. Estuarine, Coastal and Shelf Science, 75(4): 537-546 (doi:10.1016/j.ecss.2007.05.040).

[20] Martinho, F., R. Leitão, H. Cabral, J.M. Neto, J.C. Marques & M.A. Pardal, 2007. The use of nursery areas by fish in a temperate estuary, Portugal. Hydrobiologia, 587: 269-279 (doi: 10.1007/s10750-007-0689-3).

[19] Leitão, R, F. Martinho, H. Cabral, J. M. Neto, I. Jorge & M. A. Pardal. 2007. The fish assemblage of the Mondego estuary: composition structure and trends over the past two decades. Hydrobiologia, 587: 269-279 (doi: 10.1007/s10750-007-0688-4).

[18] Viegas, I., Martinho, F., Neto, J.M. & M.A. Pardal, 2007. Population dynamics, distribution and secondary production of the brown shrimp Crangon crangon (L.) in a southern European estuary. Latitudinal variations. Scientia Marina, 71(3): 451-460 (http://www.icm.csic.es/scimar/index.php/secId/6/IdArt/3533/).

[17] Patrício, J., J.M. Neto, H. Teixeira & J.C. Marques, 2007. Opportunistic Macroalgae Metrics for Transitional waters. Testing Tools to Assess Ecological Quality Status in Portugal. Marine Pollution Bulletin, 54: 1887-1896 (doi:10.1016/j.marpolbul.2007.08.003).

[16] Martins, I., Lopes, R.J., Lillebø, A.I., Neto; J.M., Pardal, M.A., Ferreira, J.G. & J.C. Marques, 2007. Significant variations in the productivity of green macroalgae in a mesotidal estuary: Implications to the nutrient loading of the system and the adjacent coastal area. Marine pollution Bulletin, 54(6): 678-690 (doi: 10.1016/j.marpolbul.2007.01.023).

[15] Ferreira, S.M., Brandão, A., Baeta, A., Neto, J.M., Lillebø, A.I., Jensen, K.T. & M.A. Pardal, 2007. Effects of restoration management on the estuarine isopod Cyathura carinata: mediation by trematodes and habitat change. Marine Biology, 151: 109-118 (doi: 10.1007/s00227-006-0455-5).

[14] Bastviken S.K., Eriksson P.G., Martins I., Neto J.M., Leonardson L., Tonderski K. 2006. Erratum: Potential nitrification and denitrification on different surfaces in a constructed treatment wetland (vol 33, pg 411, 2004): Journal of Environmental Quality, 35: 403 (doi: 10.2134/jeq2005.0003er).

[13] Salas, F., C. Marcos., J.M. Neto, J. Patrício, A. Pérez-Ruzafa & J.C Marques, 2006. User-friendly guide for using benthic ecological indicators in coastal and marine quality assessment Ocean and Coastal Management, 49: 308-331 (doi: 10.1016/j.ocecoaman.2006.03.001).

[12] Marques, S.C., U.M. Azeiteiro, J.C. Marques, J.M Neto & M.A. Pardal, 2006. Zooplankton and ichthyoplankton communities in a temperate estuary: spatial and temporal patterns. Journal of Plankton Research, 28: 297-312 (doi: 0.1093/plankt/fbi126).

[11] Leitão, R., F. Martinho, J.M. Neto, H. Cabral, J.C. Marques & M.A. Pardal, 2006. Feeding ecology, growth and distribution of Pomatoschistus microps (Krøyer, 1838) and Pomatoschistus minutus (Pallas, 1770) in a temperate estuary, Portugal. Estuarine, Coastal and Shelf Science, 66: 231-239 (10.1016/j.ecss.2005.08.012).

[10] A.I. Lillebø, J.M. Neto, I. Martins, T. Verdelhos, S. Leston, P.G. Cardoso, S.M. Ferreira, J.C. Marques, M.A. Pardal, 2005. Management of a shallow temperate estuary to control eutrophication: the effect of hydrodynamics on the system´s nutrient loading. Estuarine, Coastal and Shelf Science, 65: 697-707 (doi: 10.1016/j.ecss.2005.07.009).

[9] A. Baeta, H.N. Cabral, J.M. Neto, J.C. Marques, M.A. Pardal, 2005. Biology, population dynamics and secondary production of the green crab, Carcinus maenas (L.) in a temperate estuary. Estuarine Coastal and Shelf Science, 65: 43-52 (doi: 10.1016/j.ecss.2005.05.004).

[8] Martins I., Neto J.M., Fontes M.G., Marques J.C., Pardal M.A., 2005. Seasonal variation in short-term survival of Zostera noltii transplants in a declining meadow in Portugal. Aquatic Botany, 82: 132-142 (doi: 10.1016/j.aquabot.2005.03.006).

[7] Verdelhos T., Neto J.M., Marques J.C., Pardal M.A., 2005. The effect of eutrophication abatement on the bivalve Scrobicularia plana. Estuarine, Coastal and Shelf Science, 63: 261-268 (doi: 10.1016/j.ecss.2004.11.019).

[6] Bastviken S.K., Eriksson P.G., Martins I., Neto J.M., Leonardson L., Tonderski K. 2004. Erratum: Potential Nitrification and Denitrification on Different Surfaces in a Constructed Treatment Wetland (Journal of Environmental Quality (2003) 32 (2414-2420)): Journal of Environmental Quality, 33: 411.

[5] Lillebø, A.I, Neto, J.M., Flindt, M.R., Marques, J.C., Pardal, M.A., 2004. Phosphorus dynamics in a temperate intertidal estuary. Estuarine, Coastal and Shelf Science, 61: 101-109.

[4] Salas F., Neto J.M., Borja A., Marques J.C., 2004. Evaluation of the applicability of a marine biotic index to characterise the status of estuarine ecosystems: the case of Mondego estuary (Portugal). Ecological Indicators, 4: 215-225.

[3] Bastviken S.K., Eriksson P.G., Martins I., Neto J.M., Leonardson L., Tonderski K., 2003. Wetlands and aquatic processes: Potential nitrification and denitrification on different surfaces in a constructed treatment wetland. Journal of Environmental Quality, 32: 2414-2420.

[2] Lillebø, A.I., M.A. Pardal, J.M. Neto & J.C. Marques, 2003. Salinity as the major factor affecting Scirpus maritimus annual dynamics. Evidence from field data and a greenhouse experiment. Aquatic Botany, 77: 111-120.

[1] Duarte, A.S., Pinho, J.L., Pardal, M.A., Neto, J.M., Vieira, J.P., Santos, F.S., 2001. Effect of residence times on River Mondego estuary. Eutrophication vulnerability. Water Science Technology, vol. 44, nº 2-3: 329-336.
 
books
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[1] J.C. Marques, F. Salas, J. Patrício, H. Teixeira & J.M. Neto. 2009. Ecological Indicators for Coastal and Estuarine Environmental Assessment. A user guide. Ed. 00, ISBN: 978-1-84564-209-9. UK: WIT Press.
 
book chapters
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[9] Neto, J.M., Juanes, J.A., Pedersen, A. & Scanlan, C., 2014. Marine Macroalgae and the Assessment of Ecological Conditions (Chapter 3). In: Pereira L. & J.M. Neto (eds.). Marine Algae: Biodiversity, Taxonomy, Environmental Assessment, and Biotechnology. ISBN 9781466581678. CRC Press. 95-137 p.

[8] Gaspar, R., Neto, J.M. & Pereira, L., 2014. Searching for Ecological Reference Conditions of Marine Macroalgae (Chapter 2). In: Pereira L. & J.M. Neto (eds.). Marine Algae: Biodiversity, Taxonomy, Environmental Assessment, and Biotechnology. ISBN 9781466581678. CRC Press. 66-94 p.

[7] Pinto, R., Patrício, J., Salas, F., Neto, J.M. & Marques, J.C., 2009. Bacia do Mondego (Chapter 15). In: Pereira, H.M., Domingos, T., Vicente, L., Proença, V. (eds.). Ecossistemas e Bem-Estar Humano. Avaliação para Portugal do Millennium Ecosystem Assessment. Ed. 00, ISBN: 978-972-592-274-3. Escolar Editora, 513-557 p.

[6] Flindt, M.R., Neto, J.M., Amos, C.L., Pardal, M.A., Bergamasco, A., Pedersen, C.B & Andersen, F.Ø., 2004. Plant bound nutrient transport. Mass transport in estuaries and lagoons. In S.L. Nielsen, G.T. Banta & M.F. Pedersen (Eds.) The influence of primary producers on estuarine nutrient cycling: The Fate of Nutrient Biomass. ISBN: 1-4020-2638-2. Kluwer Academic Press, Series: Aquatic Ecology, Vol. 2, 93 - 128.

[5] Lillebø A.I., J.M. Neto, M.A. Pardal, M.R. Flindt & J.C. Marques, 2002. The role of Spartina maritima and Scirpus maritimus to sediment pore-water profiles, and possible implications to the Mondego estuary nutrient dynamics. In Pardal, M.A., J.C. Marques & M.A.S. Graça (eds) Aquatic ecology of the Mondego river basin. Global importance of local experience. ISBN: 9728704046. Imprensa da Universidade de Coimbra, 325 - 338.

[4] Martins I., M.A. Pardal, I. Metelo, J.M. Neto, J.M. Oliveira & J.C. Marques, 2002. Enteromorpha spp. (Ulvales: Chlorophyta) growth in the south arm of the Mondego estuary: field growth rates with and without macrofaunal grazer effects. In Pardal, M.A., J.C. Marques & M.A.S. Graça (eds) Aquatic ecology of the Mondego river basin. Global importance of local experience. ISBN: 9728704046. Imprensa da Universidade de Coimbra, 301 - 312.

[3] Lillebø A.I., M.A. Pardal, M.R. Flindt, J.M. Neto, F. Macedo, I. Martins & J.C. Marques, 2002. Nutrient dynamics in the intertidal pools of the Mondego estuary. IV – Possible contribution to dissolved inorganic phosphate loading. In Pardal, M.A., J.C. Marques & M.A.S. Graça (eds) Aquatic ecology of the Mondego river basin. Global importance of local experience. ISBN: 9728704046. Imprensa da Universidade de Coimbra, 287 - 300.

[2] Lillebø A.I., M.R. Flindt, M.A. Pardal, I. Martins, J.M. Neto, & J.C. Marques, 2002. Nutrient dynamics in the intertidal pools of the Mondego estuary. II – Seasonal efflux of PO4-P and NH4-N in bare bottom and vegetated pools. In Pardal, M.A., J.C. Marques & M.A.S. Graça (eds) Aquatic ecology of the Mondego river basin. Global importance of local experience. ISBN: 9728704046. Imprensa da Universidade de Coimbra, 257 - 271.

[1] Duarte A.S., Pinho J., Pardal M.A., Neto J.M., Vieira J., Santos F.S., 2002. Hydrodynamic modelling for Mondego estuary water quality managenent. . In Pardal, M.A., J.C. Marques & M.A.S. Graça (eds) Aquatic ecology of the Mondego river basin. Global importance of local experience. ISBN: 9728704046. Imprensa da Universidade de Coimbra, 29-42.
 
proceedings of international meetings with referee
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national journals, from portugal or from abroad, with peer review
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proceedings of portuguese national meetings
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[1] Pardal, M., J. C. Marques, A. Lillebø, J.M. Neto, Patrícia Cardoso, Susana Ferreira, 2003. Qualidade ambiental no estuário do Mondego: Duas décadas de estudos e futuros cenários. Jornadas Litoral 03, Figueira da Foz: 62-65.
 
editorial and book reviews
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[1] Pereira L. & J.M. Neto (eds.), 2014. Marine Algae: Biodiversity, Taxonomy, Environmental Assessment, and Biotechnology. ISBN 9781466581678. CRC Press.
 
technical reports
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[12] Neto J.M. 2014. Estabelecimento de Sistemas de Classificacão, Avaliacão do Estado das Massas de Água Costeira e de Transição, desenvolvimento de metodologias para a identificacão de Pressões significativas e acompanhamento do Exercício de Intercalibracão – Elemento Biológico Macroinvertebrados Bentónicos (No âmbito do projeto EEMA - Avaliacão do estado ecológico das massas de água costeiras e de transicão adjacentes e do potencial ecológico das massas de água fortemente modificadas - POVT-12-0133-FCOES-00017). 31 pp.

[11] Neto J.M. & Marques J.C., 2013. Tipologia dos estuários dos Rios Minho e San Simon. Análise comparativa com a tipologia definida no âmbito da Directiva Quadro da Água para as massas de água de transição de Portugal. Team-Miñho project. 12 pp.

[10] Marques, J.C., Garcia, A.C., Veríssimo, H., Neto, J.M., 2012. Monitorização das comunidades biológicas costeiras, no prós obra do prolongamento do molhe Norte do Porto da Figueira da Foz - Relatório Final.

[9] Neto J.M., Barría P., Garcia A.C., 2012. Impacto da captura de meixão nas comunidades estuarinas. Acompanhamento das operações de fiscalização e remoção de redes ilegais no Mondego. Report produced under the cooperation between national police body “GNR” (Unit of coastal control from Figueira da Foz) and IMAR-CMA (University of Coimbra).

[8] Marques, J.C., Garcia, A.C., Neto, J., Patrício, J, Marques, L. & Pablo, B. 2011. Monitorização das comunidades biológicas costeiras, no prós obra do prolongamento do molhe Norte do Porto da Figueira da Foz - 1º Relatório de Progressos.

[7] Marques, J.C., Teixeira, H., Neto, J.M & Patricio, J. 2009. Avaliação do Estado Ecológico das Massas de Água Costeiras e de Transição e do Potencial Ecológico das Massas de Água Fortemente Modificadas – Relatório Anual de Progressos 2009 (IMAR).

[6] Newton, A., S. Cristina, J. Guiomar, P. C. Goela, B. Fragoso, J.C. Marques, J.M. Neto, H. Teixeira, J. Patrício, A. Baeta, R. Pinto, H. Veríssimo, F. Rocha, R. Cunha, C. Vale. 2007. Reference Conditions and Intercalibration of Portuguese Coastal Waters. Intercalibration exercise of guidelines for the applications of the European Union Water Framework Directive, 135 p.

[5] Marques, J.C., Neto, J.M., Patrício, J., Pinto, R., Teixeira, H., Veríssimo, H. 2007. Monitoring the Mondego estuary. Anthropogenic changes and their impact on ecological quality. Preliminary results from the first assessment of the effects of reopening the communication between the North and South arms on the eutrophication state of the system. Final Report, January 2007. IMAR/INAG, 87 pp.

[4] Marques, J.C., Neto, J.M., Teixeira, H. & Patrício, J. 2006. Preliminary assessment results regarding the effects of the re-opening of the communication between the two arms of the Mondego estuary: Physico-Chemical and Ecological Parameters. Final Report, November 2006. IMAR/INAG, 34 pp.

[3] Marques, J.C., Neto, J.M., Patrício, J., Pinto, R., Teixeira, H.L., Veríssimo, H. 2006. Estudo piloto do estuário do Mondego no âmbito da implementação do Programa Objectivos de Qualidade Ambiental Eutrofização (EcoQOs-Eutro-OSPAR). Harmonização dos critérios OSPAR com a Directiva Quadro da Água Europeia. Progress Report, March 2006. IMAR/INAG, 48p.

[2] Marques, J. C., H. Teixeira, J. Patrício & J. Neto, 2005. Avaliação do impacto das obras de interrupção da ligação entre os dois braços do estuário do Mondego na qualidade ecológica do sistema. Propostas de solução. IMAR, Technical Report, 99 p.

[1] Marques, J.C., Baeta, A., Trancoso, A.R., Marcotegui, A., Rodrigues, E.T., Martinho, F., Salas, F., Patrício, J., Alves, J., Neto, J.M., Sebastião, L., Santos, M., Fontes, M.G., Martins, M.J., Pardal, M.A., Neves, R., Deus, R., Leitão, R. & Verdelhos, T. 2004. Caracterização do estuário do Mondego e estabelecimento de cenários de gestão em termos da qualidade da água e da integridade do ecossistema. IMAR/INAG, 239 pp.
 
oral presentations
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[41] Gaspar, R., Neto, J.M., Pereira, L., 2014. The Use of Biodiversity Surrogates to Describe Intertidal Macroalgae Patterns at Small Spatial and Temporal Scales. ECSA 54, 12-16 May, Sesimbra (Potugal).

[40] van der Linden, P., Patrício, J., Marchini, A., Cid, N., Neto, J.M.; Marques, J.C. 2012. A biological trait approach to assess the functional composition of subtidal benthic communities in an estuarine ecosystem. XVII Simpósio Ibérico de Estudos de Biologia Marinha (SIEBM), 12-14 September, San Sebastian (Spain).

[39] Neto JM, Feio MJ, Teixeira H, Serra SRQ, Patrício J, Calapez AR, Franco JN, Constantino E., 2012. Transitional and freshwater bioassessments: one site – two perspectives. XVII Iberian Symposium on Marine Biololgy Studies (SIEBM), San Sebastián, Spain, 11 – 14 September.

[38] Neto JM, Feio MJ, Teixeira H, Serra SRQ, Patrício J, Calapez AR, Franco JN, Constantino E., 2012. Transitional and freshwater bioassessments: is the river continuum discontinued? XVIth Congress of the Iberian Society of Limnology, Guimarães, Portugal, 2 – 6 July.

[37] Ramos, E., Puente, A., Juanes, J.A., Neto, J.M., Melo, R., Pedersen, A., Scanlan, C., Wilkes, R., van den Bergh, E., Heiber, W., Buchet, R., 2012. Biological validation of physical coastal waters classification along the NE Atlantic region based on rocky macroalgae distribution. ECSA 50, Venice, Italy, June.

[36] Patrício, J., Neto, J.M., Martins, I., Moreira-Santos, M., Ribeiro, R. & Marques, J.C. 2011. The Project EXTREMIS: effect freshwater input fluctuations on the ecological status assessment in estuarine ecosystems – the benthic perspective. First IIIUC – Researcher Forum, Coimbra, Portugal, 29-30 September.

[35] Neto, J.M., Pinto, R., Patrício, J. & Marques, J.C. 2010. Compliance of Natural Capital and Ecological Quality in estuaries. Insights for a sustainable management and planning. 12º Encontro Nacional de Ecologia, Porto, Portugal, 12-14 October.

[34] Pinto, R., Patrício, J., Neto, J.M., Domingos, T. & Marques, J.C. 2010. Integration of ecological significance within the water uses and services framework: a DPSIR approach on the Mondego estuary. 12º Encontro Nacional de Ecologia, Porto, Portugal, 12-14 October.

[33] Mantas, V.M., Pereira, A.J.S.C., Neto, J.M., Patrício, J. & Marques, J.C. 2010. Measuring turbidity in estuaries and coastal waters using MODIS and Landsat-7ETM+ data. The case of the Mondego river estuary (Portugal). ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[32] Couto, T., Patrício, J., Neto, J.M., Ceia, F.R., Franco, J. & Marques, J.C. 2010. The influence of mesh size in environmental quality assessment of estuarine macrobenthic communities. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[31] Alves, A.S., Adão, H., Patrício, J., Neto, J.M., Vinagre, P., Veríssimo, H. & Marques, J.C. 2010. Seasonal and spatial variability of nematodes and macrofauna assemblages in the Mondego estuary: can these communities provide comparable ecological assessment information? ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[30] Vinagre, P., Patrício, J., Neto, J.M., Teixeira, H., Ceia, F., Franco, J. & Marques, J.C. 2010. The Mondego estuary (Southwestern Europe) mesohaline and oligohaline macrozoobenthic communities. A contribution for their Ecological Quality Status assessment. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[29] Veríssimo, H., Patrício, J., Neto, J.M., Teixeira, H., Fath, B., Marques, J.C. 2010. Benthic indices performance in capturing ecological changes in transitional systems following a human-induced physical disturbance. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[28] Pinto, R., de Jonge, V.N., Patrício, J., Neto, J.M., Marques, J.C. 2010. How to assess the brittle connection between biodiversity and the human welfare? A case study. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[27] Ceia, F., Patrício, J., Neto, J.M., Franco, J., Pinto, R., Fernández-Boo, S., Losi, V. & Marques, J.C. 2010. The influence of dredging in macrobenthic assemblages. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[26] Alves, A.S., Adão, H., Patrício, J., Neto, J.M. & Marques, J.C. 2010. Role of estuarine nematode assemblages in ecological assessment in a southern European estuary (Mondego estuary, Portugal): temporal and spatial patterns. 14th International Meiofauna Conference, Gent, Belgium, 11-16 July.

[25] Pinto, R., J. Patrício, J.M. Neto, T. Domingos, A. Baeta, Z. Teixeira & J.C. Marques. 2009. Water uses and ecological cost’s evaluation: a DPSIR approach on the Mondego estuary.ECSA 45th meeting, Dublin, 30 August – 4 September.

[24] Patrício, J; Neto, J M; Teixeira, H; Salas, F; Marques, J C, 2009 A multi-year comparison of ecological indicators of benthic macrofaunal community condition at a reference and eutrophic site in an estuarine system. ASLO, Nice, France, 25-30 January.

[23] Marques, J.C., J.M. Neto, J. Patrício, H.T., A. Baeta, H. Veríssimo & R. Pinto. 2008. Ecological response of subtidal macrobenthic communities to natural and human induced changes in a temperate NE Atlantic estuary. XV Simpósio Ibérico de Estudos de Biologia Marinha, Funchal, Portugal, 9-13 September.

[22] Teixeira, H., J.M. Neto, J. Patrício, C. Vale & J.C. Marques. 2008. Benthic macroinvertebrate metrics for coastal waters – Tool to assess the ecological quality status in Portugal. XV Simpósio Ibérico de Estudos de Biologia Marinha, Funchal, Portugal, 9-13 September.

[21] Neto, J.M., R. Gaspar, J. Patrício, L. Pereira, H. Teixeira & J.C. Marques. 2008. The use of marine macroalgae as a quality assessment tool under the scope of WFD. XV Simpósio Ibérico de Estudos de Biologia Marinha, 9-13 Funchal, Portugal, September.

[20] Patrício, J., Neto, J.M., Teixeira, H. & Marques, J.C. 2008. Do macroinvertebrates react to natural and/or human induced disturbances? How do different ecological tools capture those responses? The Mondego estuary case study. Workshop “Avaliação da qualidade ecológica dos estuários. Quando e Como?”, Lisbon, Portugal, 22 July.

[19] Alves, A.S., Adão, H., Patrício, J., Neto, J.M., Costa, M.J. & Marques, J.C. 2008. Spatial distribution of subtidal meiofauna communities along a salinity gradient in two Southern European estuaries (Portugal), ECSA- 43rd Estuarine & Coastal Sciences Association – International Symposium, 7-9 February Lisbon. Pp 57.

[18] Martinho F., Leitao R., Viegas I., Dolbeth M., Neto J., Cabral H.N., Pardal M.A, 2007. The influence of an extreme drought event in the fish community of a southern Europe temperate estuary ECI XII - European Congress of Ichthyology, 9-13 September, Cavtat (Dubrovnik), Croatia.

[17] J.M. Neto, H. Teixeira, J. Patrício and J.C. Marques, 2007. Integrative implementation of the European Water Framework Directive in Portugal. The intercalibration process. Eco Summit, 22-27 May, Beijing, China.

[16] Marques, J.C., Neto, J.M., Patrício, J., Teixeira, H., Pinto, R. & Veríssimo, H. 2006. Funcionamento hidrológico do estuário do Mondego. Bases para um programa de restauração ecológica. Workshop Técnico “Avaliação do impacto ecológico e/ou químico das pressões antropogénicas nas águas costeiras e de transição”, Instituto Nacional da Água, Lisbon, 15 December.

[15] Neto, J.M., Teixeira, H., Patrício, J. & Marques, J.C., 2006. Impacto da interrupção da comunicação entre os braços Norte e Sul do estuário do Mondego na qualidade ecológica do sistema e implementação de soluções. Workshop Técnico “Avaliação do impacto ecológico e/ou químico das pressões antropogénicas nas águas costeiras e de transição”, Instituto Nacional da Água, Lisbon, 29 July.

[14] Neto, J.M., Patrício, J. & Pereira, L. 2006. Definição do estado ecológico de águas costeiras e de transição com base em elementos de qualidade biológica: Macrófitas e Macroalgas. Workshop Técnico “Intercalibração do estado ecológico das águas costeiras e de transição, no âmbito da Directiva Quadro da Água”. Instituto Nacional da Água, Lisbon, 6 November.

[13] Newton, A. & Neto, J.M., 2006. Intercalibration and the Water Framework Directive Definitions and Concepts COAST group. Workshop Técnico “Intercalibração do estado ecológico das águas costeiras e de transição, no âmbito da Directiva Quadro da Água”. Instituto Nacional da Água, Lisbon, 6 November.

[12] Neto, J.M., Cabral, H.N. & Costa, J.L., 2006. Definição do estado ecológico de águas costeiras e de transição com base em elementos de qualidade biológica: Ictiofauna estuarina. Workshop Técnico “Intercalibração do estado ecológico das águas costeiras e de transição, no âmbito da Directiva Quadro da Água”. Instituto Nacional da Água, Lisbon, 6 November.

[11] Teixeira, H., Patrício, J. & Neto, J.M., 2006. Definição do estado ecológico de águas costeiras e de transição com base em elementos de qualidade biológica: Macroinvertebrados Bentónicos. Workshop Técnico “Intercalibração do estado ecológico das águas costeiras e de transição, no âmbito da Directiva Quadro da Água”. Instituto Nacional da Água, Lisbon, 6 November.

[10] Patrício, J., F. Salas, J. Neto, H. Teixeira, M. Pardal & J.C. Marques, 2005. Different ecological performance in assessing environmental status: a case study on estuarine eutrophication. Global Challenges Facing Oceanography and Limnology. ASLO, 4-9 June, Victoria, British Columbia, Canadá.

[9] Patrício, J., F. Salas, J. Neto, H. Teixeira, M. Pardal & J.C. Marques, 2005. Different ecological performance in assessing environmental status: a case study on estuarine eutrophication. European lagoons and their watersheds: function and biodiversity. Coastal Research and planning Institute (CORPI), Klaipèda University, 4-9 October, Klaipeda, Lituania.

[8] Baeta, A., H.N. Cabral, J.M. Neto, J.C. Marques & M.A. Pardal, 2004. Population dynamics of the green crab, Carcinus maenas (L.), in the Mondego estuary. IO-ECSA Local Meeting, Lisbon, Portugal.

[7] Neto, JM, MA Pardal, MR Flindt, JC Marques, 2003. Restoration and management of Zostera noltii meadows in a disturbed shallow temperate estuary. EMBS 38th European Marine Biology Symposium, 8 a 12 de Setembro, Aveiro (Portugal).

[6] Neto, J.M., M.R. Flindt, M.A. Pardal & J.C. Marques, 2002. Seasonal growth rates of Zostera noltii Hornem. on the Mondego estuary (central Portugal). XII Simpósio Ibérico de Estúdios del Bentos Marino, 22 e 25 de Outubro, Gibraltal - La Línea de la Concepción (Espanha).

[5] Flindt, M.R., M.A. Pardal, C.B. Pedersen, J.M. Neto, C. Amos, A. Bergamasco, 2000. Plant transport a negleted part of the nutrient mass balance in estuaries. ASLO 2000, 5 a 9 de Junho, Copenhagen (Dinamarca).

[4] Margalho R., Pardal M.A., Azeiteiro U.M., Neto J.M., Marques J.C., 2000. Term evolution (1990 – 1998) of subtidal macrobenthic communities in the Mondego estuary (Portugal). XI Simpósio Ibérico de Estudos de Bentos Marinho, 22 a 25 de Fevereiro, Málaga (Espanha).

[3] Neto, J.M.; Metelo, I.; Marques, J.C. & M.A. Pardal; 1998. Dinâmica anual dos moluscos na Reserva Natural da Berlenga. X Simpósio Ibérico de Estudos de Bentos Marinho, 23 - 26 Fevereiro, Praia do Carvoeiro - Algarve (Portugal).

[2] Pardal, M.A.; J.C. Marques; I. Metelo & J.M. Neto; 1996. Influence of macroalgae blooms on the population dynamics of Melita palmata (Amphipoda) along an eutrophication gradient (Mondego estuary, western Portugal). 2nd European Crustacean Conference, 2-6 Setembro, Liège (Bélgica).

[1] Martins, I.; J.C. Marques; I. Metelo & J.M. Neto; 1995. Eutrophication process in the mondego estuary: grow of Enteromorpha spp. with and without grazing effects. 4th International Conference on aquatic Ecosystem Health, 14-18 Maio, Coimbra (Portugal).
 
posters
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[25] Neto, J.M., Barroso D.V., Barría P., Marques J.C., 2012. Intertidal seagrass (Zostera noltii) along anthropogenic pressure gradients – degradation and recovery trajectories from the Mondego estuary, Portugal. WISER final project meeting and conference “Current Questions in Water Management”. Tallinn, Estonia, 23-26 January.

[24] Gamito, S., Ramos, M., Mateus, M., Rodrigues, A., Quintino, V., Teixeira, H., Patrício, J., Neto, J.M. & Marques, J.C. 2011- Benthic macroinvertebrate fauna of Ria de Alvor, Southern Portugal, revisited after more than 24 years. 5th EUROLAG - European Coastal Lagoons Symposium, Aveiro, Portugal, 25-30 July.

[23] Franco, J.N., Ceia, F.R., Patrício, J., Neto, J.M., Modesto, V. & Marques, J.C. 2010. Spatial intrusion and ecological response of Corbicula fluminea (Muller, 1774) in the mesohaline and oligohaline areas of a southern european estuary. IMMR2010 - Interntional Meeting on Marine Resources, Peniche, Portugal, 16-17 November.

[22] Veríssimo, H., Gamito, S., Patrício, J., Neto, J.M. & Marques, J.C. 2010. Effects of extreme events on estuarine subtidal macroinvertebrates of the Mondego estuary. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[21] Gamito, S., Furtado, R., Patrício, J., Neto, J.M. & Marques, J.C. 2010. The ecological quality status of the wester side Ria Formosa lagoon based on the Benthic Assessment Tool (BAT) methodology and on physicochemical water information. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[20] Gamito, S., Patrício, J., Neto, J.M., Teixeira, H. & Marques, J.C. 2010. Applicability of the feeding diversity index to evaluate the ecological quality status of the Mondego estuary based on benthic invertebrates. ECSA47 Symposium, Figueira da Foz, Portugal, 14-19 September.

[19] Adão, H., Patrício, J., Neto, J.M., Alves, A. & Marques, J.C. 2009. Nematodes vs Macrofauna assemblages along an estuarine gradiente (Mondego estuary, Portugal). ASLO 2009, Nice, 24-31 January.

[18] Neto, J.M., Patrício, J., Teixeira, H., Veríssimo, H. & Marques, J.C., 2009. Long-term response of subtidal macrobenthic communities to human pressures and extreme climatic events in a temperate NE Atlantic estuary. ASLO, Nice, France, 25-30 January.

[17] Adao, H.; Patrício, J.; Alves, A.S.; Neto, J.M.; Teixeira, H.; Marques, J.C., 2009. Nematodes vs. macrofauna assemblages along an estuarine gradient (Mondego estuary, Portugal). ASLO, Nice, France, 25-30 January.


[16] Gaspar, R., Pereira, L., Marques, J.C. & Neto, J.M., 2008. P-MarMAT, Portuguese Marine Macroalgae Assessment Tool. 11th International Conference on Applied Phycology, 21-27 June, National University of Ireland, Galway, Ireland.

[15] Martinho, F., R. Leitão, H. Cabral, J. Neto, J.C. Marques & M.A. Pardal, 2005. Growth and feeding ecology of juvenile sea bass, flounder and sole in a temperate estuary, Portugal. ASLO Summer Meeting: A pillgrimage through global aquatic sciences, 19-24 June, Santiago de Compostela, Spain.

[14] Lillebø, A.I., J.M. Neto, I. Martins, T. Verdelhos , S. Leston, P.G. Cardoso, S.M. Ferreira, J.C. Marques & M.A. Pardal, 2005. Management of a shallow temperate estuary to control eutrophication: the effect of hydrodynamics on the system nutrient loading. ASLO Summer Meeting, 19-24 June, Santiago de Compostela, Spain.

[13] Marques, S.C., Azeiteiro, U.M., Marques, J.C., Neto, J.M., Pereira, M.J. and Pardal, M.A., 2005. Zooplankton and ichthyoplankton communities in a temperate estuary: spatial, tidal and temporal patterns. III Plankton Symposium, March 17- 20, Figueira da Foz (Portugal).

[12] Neto J.M., M.R. Flindt, M.A. Pardal, J.C. Marques, 2003. Intertidal vegetation dynamics. A case study from a warm temperate estuary. EMBS 38th European Marine Biology Symposium, 8 a 12 de Setembro, Aveiro (Portugal).

[11] Neto J.M., I. Metelo, R. Ricobene, J.C. Marques, M.A. Pardal, 2000. Estrutura da comunidade de macroinvertebrados (Crustacea, Mollusca e Polychaeta) da Ilha da Berlenga, Portugal, XI Simpósio Ibérico de Estúdios del Bentos Marino, Málaga (Spain).

[10] Flindt, M.R., M.A. Pardal, Pedersen C.B., Neto J.M. & A. Bergamasco, 1999. Nutrient export as advective plant transport have impact on mass balance calculations in estuaries. ELOISE European Land-Ocean Interaction Studies. 3rd Open Science Meeting, 1 a 4 de Dezembro, Noordwijkerhout (Holanda).

[9] Azeiteiro U.M., Neto J.M., Metelo I., Bengala N., Pardal M., 1999. Temporal variation of the zooplankton biomass, abundance and diversity in a shelf area of the Poetuguese coast (the Berlenga Marine Natural Reserve). 4º Encontro Nacional de Ecologia, SPECO - Sociedade Portuguesa de Ecologia, 2-4 December, University of Aveiro, Aveiro, Portugal.

[8] Azeiteiro U.M., Neto J.M., Metelo I., Bengala N., Pardal M., 1999. Spatial variation of the zooplankton biomass, abundance and diversity in a shelf area of the Poetuguese coast (Berlenga Marine Natural Reserve). II Encontro sobre Biodiversidade, 12-14 November, Porto, Portugal.

[7] Pardal M., Neto J.M., Metelo I., Bengala N., Azeiteiro U.M., 1999. Zooplankton biomass, abundance and diversity in a shelf area of Portugal, the Berlenga Marine Natural Reserve. International Conference of Sustainable Management of Coastal Ecosystems, 3-5 November, University Fernando Pessoa, Porto, Portugal.

[6] Neto J.M., Metelo I., Marques J.C., M.A. Pardal, 1998. Dinâmica anual dos Poliplacóforos na Reserva Natural da Berlenga. 3º Encontro Nacional de Ecologia, SPECO - Sociedade Portuguesa de Ecologia, Universidade do Algarve, Faro (Portugal).

[5] Margalho R., Marques, J.C., Neto J.M., Azeiteiro U., M.A. Pardal, 1998. O Estuário do Mondego: Uma década de estudos das comunidades macrobentónicas subtidais. Impactos das dragagens regulares na área do porto comercial. 3º Encontro Nacional de Ecologia, SPECO - Sociedade Portuguesa de Ecologia, 3-5 Dezembro, Faro (Portugal).

[4] Metelo I., Neto J.M., Marques J.C., M.A. Pardal, 1998. Caracterização das comunidades de Chthamalus sp. da Reserva Natural da Berlenga. 3º Encontro Nacional de Ecologia, SPECO - Sociedade Portuguesa de Ecologia, 3-5 Dezembro, Faro (Portugal).

[3] Riccobene, R., Metelo I., Neto J.M., Marques J.C., Pardal M.A., 1998. Caracterização da biocenose de Polychaetas da Reserva Natural da Berlenga. 3º Encontro Nacional de Ecologia, SPECO - Sociedade Portuguesa de Ecologia, 3 a 5 de Dezembro, Faro (Portugal).

[2] Metelo, I., Neto J.M., Marques J.C., Pardal M.A., 1998. Variação anual dos crustáceos na Reserva Natural da Berlenga. X Simpósio Ibérico de Estudo de Bentos Marinho, 23 a 26 de Fevereiro, Praia do Carvoeiro (Portugal).

[1] Pardal, M.A., Marques J.C., Metelo I., Neto J.M., 1996. Influence of macroalgae blooms on the population dynamics of Melita palmata (Amphipoda) along an eutrophication gradient (Mondego estuary, western Portugal). 2nd European Crustacean Conference, 2 a 6 de Setembro, Liège (Bélgica).
 
8. supervising theses
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Pos-Doc
2011/2012
Heliana Teixeira. Mondego Basin and Estuary Management: the role of ecosystem services (e)valuation for human well-being endeavour. (co-supervision without institutional oficial link)

Ph.D. thesis
2012 (on going).
“Degradation and recovery trajectories of macroalgae populations along water quality changes”. Rui Miguel Martins Gaspar. University of Coimbra. (supervision)

2012.
Rute Pinto. Mondego Basin and Estuary Management: the role of ecosystem services (e)valuation for human well-being endeavour. PhD Thesis, University of Coimbra (Portugal). (co-supervision without institutional oficial link)

Helena Veríssimo. Response of benthic communities to natural and human-induced changes in a temperate estuary. Implications for recovery and management. PhD Thesis, University of Coimbra (Portugal). (co-supervision without institutional oficial link)

2010.
Heliana Teixeira. Benthic Macroinvertebrates as Ecological Indicators for Estuarine and Coastal Ecosystems: Assessment and Intercalibration. PhD Thesis, University of Coimbra (Portugal). (co-supervision without institutional oficial link)

M.Sc. thesis
2012 (on going).
“Avaliação do estado de qualidade ecológica do estuário do Mondego com base nos diferentes elementos de qualidade biológica previstos no quadro da DQA.” Rosa Oliveira. University of Coimbra (Portugal). (co-supervision)

2011.
“Desenvolvimento e aplicação de uma ferramenta de avaliação do Estado de Qualidade Ecológica das Massas Costeiras e de Transição com base nas plantas de sapal. Contributo para a implementação da DQA em Portugal.” Patrícia Alexandra Rodrigues de Oliveira. Universidade de Coimbra (Portugal). (supervision)

“The rocky shore macrozoobenthic communities of Buarcos bay”. Antónia Juliana Pais Costa. University of Coimbra (Portugal). (co-supervision)

"Spatial and temporal variation of Corbicula fluminea (Muller, 1774) in the Mondego estuary". Ana Vanessa Modesto. University of Coimbra (Portugal). (co-supervision)

2010.
“Dinâmica da flora macroalgal no estuário do Mondego. Respostas das métricas de avaliação ecológica ao longo do gradiente de salinidade.” Tânia Isabel Jesus Fernandes. University of Coimbra (Portugal). (supervision)

“Influence of hydrodynamics and sediment grain size in environmental quality of the estuarine polyhaline sector”. Ana Eduarda Saraiva Pereira Campos. University of Coimbra (Portugal). (co-supervision)

“Population dynamics of Corbicula fluminea (Muller, 1774) in the mesohaline and oligohaline areas of the Mondego estuary: spatial intrusion and ecological response”. João Nuno R. Franco. University of Coimbra (Portugal). (co-supervision)

“Variação temporal da comunidade macrobentónica subtidal do sector polihalino do braço Sul do estuário do Mondego. Contributo para a avaliação do estado ecológico”. Augusta da Conceição de Jesus Duarte. University of Coimbra (Portugal). (co-supervision)

“Do macrofauna assemblages reflect Zostera noltii meadows temporal dynamic associated with natural and antropogenic disturbances?” Luísa C. Marques. University of Coimbra (Portugal). (co-supervision)

“Spatial and temporal heterogeneity of macrofauna assemblages in the polyhaline sector of a mesotidal estuary”. Ana Margarida Carriço. University of Coimbra (Portugal). (co-supervision)

2009.
“The Mondego estuary (Southwestern Europe) Mesohaline and Oligohaline macrozoobenthic communities. A contribution for their Ecological Quality Status Assessment”. Pedro de Almeida Bica Lança Vinagre. Department of Zoology, Faculty of Sciences and Technology, University of Coimbra. (co-supervision)

“Avaliação do Estado de Qualidade Ecológica em ecossistemas estuarinos: Qual a influência da malha dos crivos na amostragem de macroinvertebrados bentónicos?”. Thiago Drumond Teixeira Correia Couto. Department of Zoology, Faculty of Sciences and Technology, University of Coimbra. (co-supervision)

2008.
“Using benthic invertebrate data to assess the Ecological Quality Status of Ria Formosa (Portugal)”. Ramila Furtado. Erasmus Mundus European Joint Master in Water and Coastal Management, Faculty of Sciences and Technology, University of Algarve. (co-supervision)

“Assessment of Ecological Quality Status of rocky shores in South Portugal and implementation of Water Framework Directive”. Charu Lata Singh. Erasmus Mundus European Joint Master in Water and Coastal Management, Faculty of Sciences and Technology, University of Algarve. (co-supervision)

2007.
“As macroalgas como ferramenta de avaliação ecológica da qualidade das águas costeiras” (‘Macroalgae as ecological assessment tool on coastal waters’). Rui Miguel Martins Gaspar. Department of Zoology, Faculty of Sciences and Technology, University of Coimbra. (co-supervision)
 
9. language skills
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language reading writing conversation
Portuguese first language first language first language
English Very good Good Good
Spanish Very good Regular Good
French Good Regular Regular
Portuguese Excellent Excellent Excellent
 
10. other information [e.g. patents]
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MEMBER OF SCIENTIFIC BOARDS
ACADEMIC PANNELS
Ph.D. thesis
2014.
“Clasificación de Estuarios a Diferentes Escalas Espaciales Mediante la Integración de Modelos Físicos y Biológicos”, 21st November. Cristina Galván Arbeiza. E.T.S. Ingenieros de Caminos, Canales y Puertos, Dpto. de Ciencias y Técnicas del Agua y del Medio Ambiente. Universidad de Cantabria, Santander, Spain.

2009.
“Analogías biológicas en la arquitectura: del acercamiento biónico hacia los paradigmas de lo biodigital”, 15th January. Mauro Costa Couceiro. Escuela Técnica Superior de Arquitectura (ESARQ), Universitat Internacional de Catalunya (UIC), Barcelona, Spain.

2008.
“Desarrollo de Procedimientos Aplicables a la Evaluación del Estado Ecológico de las Masas de Agua Costeras, Sensu Directiva Marco del Agua”, 26th May. Xabier Guinda Salsamendi. Departamento de Ciencias y Técnicas del Agua y del Medio Ambiente, University of Cantabria, Santander, Spain.

M.Sc. thesis
2013.
“Respostas bioquímicas e populacionais de Daphnia a um herbicida”. Micael Mendes Neves. Department of Biology, University of Aveiro (Portugal).

“Gestão dos níveis de água em salinas e a conservação de aves limícolas”. Tânia Filipa Martinho Paredes. Faculty of Sciences and Technology, University of Coimbra (Portugal).

“Selecção de habitat e conservação de aves nidificantes nas salinas do Samouco”. Daniela Margarida Lima Alves Fonseca. Faculty of Sciences and Technology, University of Coimbra (Portugal).

“Identificação e caracterização da flora algal e avaliação do estado de praias do concelho de Peniche”. Ana Lucinda Coelho Lima. Faculty of Sciences and Technology, University of Coimbra (Portugal).

2011.
“Phytoplankton of the Mondego estuary according to the Water Framework Directive”. Cátia Sofia da Conceição Luís. Universidade de Aveiro (Portugal).

2009.
“Ecologia e avaliação dos recursos bentónicos da zona de transição dulciaquícola-salobra no Rio Mira”. João Paulo da Silva Medeiros. Universidade de Lisboa (Portugal).

2008.
“Defining sea grass Ecological Status in Ria Formosa under the European Water Framework Directive”. Patricia Garcia Marin. Erasmus Mundus European Joint Master in Water and Coastal Management, Faculty of Sciences and Technology, University of Algarve.

“Macroalgae as a Biological Quality Element for the assessment of Ecological Status of coastal waters”. Girija Suryakant Parvatkar. Erasmus Mundus European Joint Master in Water and Coastal Management, Faculty of Sciences and Technology, University of Algarve.


Ph.D. thesis (evaluation project’s phase)
2013.
“Coastal Zone Integrated Management, from theory to practice. Avencas Beach, Cascais”. Ana Margarida Ferreira. University of Coimbra (Portugal), 10th September.

M.Sc. thesis (evaluation project’s phase)
2013.
“Estrutura de comunidades vegetais a partir de atributos funcionais em serra do Semiárido paraibano, Brasil”. Vitor Leite Martins. Pos-graduation programme in Ecology and Conservation of the Stadual University of Paraíba, Brazil, 21st March.

“Composição, similaridade florística e síndrome de dispersão em afloramento rochoso no agreste paraibano”. Elainne Cristina Silva Costa. Pos-graduation programme in Ecology and Conservation of the Stadual University of Paraíba, Brazil, 21st March.

“Diversidade de anuros e especialização individual na dieta em área de Mata Atlântica no Estado da Paraíba”. Brygida Carolyne Freire Alves. Pos-graduation programme in Ecology and Conservation of the Stadual University of Paraíba, Brazil, 21st March.

“Regeneração e acúmulo de biomassa aérea no Semiárido brasileiro”. Mayara Guimarães Beltrão. Pos-graduation programme in Ecology and Conservation of the Stadual University of Paraíba, Brazil, 21st March.


RESEARCH APPLICATION PANNELS
2014.
Fundação para a Ciência e a Tecnologia, Post-Doc individual grants’ application (Biological Sciences).


ORGANISATION OF SCIENTIFIC EVENTS
2010 - Member of the Organising Committee of ECSA 47 Symposium - Integrative tools and methods in assessing ecological quality in estuarine and coastal systems worldwide
Figueira da Foz, 14 - 19 September (www.uc.pt/imar/ecsa47)