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Newton Gomes concluded his Ph.D. in Microbiology at the Federal University of Rio de Janeiro (Brazil) in 1999. He has extensive expertise in environmental and applied microbiology and on the use of microbes (including symbionts) in biotechnology. Newton Gomes professional experience includes 6 years (1999, 2001-2006) as Post-Doc researcher at the Julius Kühn-Institut (JKI) (Braunschweig, Germany) and more than 12 years as researcher at Department of Biology and the Centre for Environmental and Marine Studies (CESAM) (University of Aveiro, Portugal). Currently, he is principal researcher and coordinator of the Laboratory for Molecular Studies of Marine Environments (LEMAM) at CESAM. In his curriculum the most frequent terms in the context of scientific, technological and artistic-cultural output are: marine microbiology; aquaculture; microbial ecology; metagenomics; microbiome; biotechnology and bioremediation.
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Identification

Personal identification

Full name
Newton Carlos Marcial Gomes

Citation names

  • Gomes, Newton
  • Gomes, NCM

Author identifiers

Ciência ID
601B-1F1B-26E1
ORCID iD
0000-0003-1934-0091

Telephones

Telephone
  • (+351) 234370990 Ext.: 22779 (Professional)

Knowledge fields

  • Natural sciences - Biological Sciences - Microbiology

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese (Mother tongue)
English Proficiency (C2) Proficiency (C2) Advanced (C1) Proficiency (C2)
Spanish; Castilian Intermediate (B1) Advanced (C1) Beginner (A1) Upper intermediate (B2)
German Beginner (A1) Beginner (A1) Beginner (A1)
Education
Degree Classification
1999
Concluded
 Ph.D. in Science (specialization in Microbiology) (Doutoramento)
Universidade Federal do Rio de Janeiro, Brazil
"Metal accumulation by microorganisms" (THESIS/DISSERTATION)
 Average A – Excellent
1995
Concluded
 Master in Biological Sciences (specialization in Microbiology) (Mestrado)
Universidade Federal de Minas Gerais, Brazil
"Accumulation and recovery of metals by Aspergillus niger in cyanide-containing solutions of a gold mining industry" (THESIS/DISSERTATION)
 Average A - Excellent
1991
Concluded
 Marine Biology (Bacharelato)
Faculdades Integradas Maria Thereza, Brazil
"Yeast ecology in restinga vegetation" (THESIS/DISSERTATION)
 Approved
Affiliation

Science

Category
Host institution 		Employer
2020/01/01 - Current Principal Investigator (Research) Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2013/07/01 - 2018/06/30 Principal Investigator (Research) Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2007/12/01 - 2013/06/30 Research Assistant (Research) Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2001/02/01 - 2007/10/02 Postdoc (Research) Julius Kühn-Institut, Germany
1999/07/01 - 2000/01/29 Postdoc (Research) Julius Kühn-Institut, Germany

Others

Category
Host institution 		Employer
2009/07/01 - Current Coordinating researcher of th e Laboratory of Molecular Studies for Marine Environments (LEMAM) Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2012/04/01 - 2017/12/31 Professor Collaborator Universidade Estadual de Santa Cruz, Brazil
Projects

Grant

Designation Funders
2019/09/01 - 2023/08/31 4DREEF - Past, Present, and Future of Turbid Reef in the Coral Triangle. Funded by: Marie Sklodowska-Curie Actions (MSCA) under Horizon 2020 Innovative Training Networks (ITN) (H2020-MSCA-ITN-2018).
H2020-MSCA-ITN-2018
Researcher
EC - European Commission
Ongoing
2019/01/01 - 2021/12/31 Bioelectronic Tongue System for the Paralytic Toxins detection in shellfish
02/SAICT/2017
Researcher
Fundação para a Ciência e a Tecnologia
Ongoing
2018/10/15 - 2021/10/14 RhizoMiS - Redesigning the rhizosphere microbiome of Salicornia for exploitation of bioproducts and improvement of bioprocesses
Ref: ROP 02/SAICT/2017
Researcher
Fundação para a Ciência e a Tecnologia
Ongoing
2019/10/01 - 2021/09/30 Symbioreactor - Sustainable Production of Bioactive Metabolites from Microbial Symbionts of Marine Sponges and Corals
FA_05_2017_032
Researcher
Direção-Geral de Política do Mar - DGPM
Ongoing
2018/01/01 - 2020/09/30 AQUAHEAL - Microbial modulation in recirculating aquaculture system: towards a disease suppressive production system.
MAR-02.01.01-FEAMP-0031
Supervisor
European Maritime and Fisheries Fund
Ongoing
2016/06/01 - 2020/02/29 EcoTech-SPONGE - Assessing the ECOlogical functions and potential bioTECHnological applications of plasmid assemblages from microbial symbionts of marine SPONGEs
grant.Provided by PTCRIS: 145114
Supervisor
Fundação para a Ciência e a Tecnologia
Concluded
2018 - 2018 BMMO Network - Beneficial Microorganisms of Marine Organisms – funded by INCOBRA Call for Bilateral Networks, supported by European Union’s Horizon 2020
692520
Researcher
European Comission
Concluded
2014/03/01 - 2015/12/31 LínguaTox - Língua bioeletrónica para a deteção de toxinas marinhas em bivalves
31-03-05-FEP-0052
Researcher
PROMAR
Concluded
2012/01/01 - 2015/12/31 SymbioCoRe - Synergies through Merging Biological and biogeochemical expertise in Coral Research.
FP7-PEOPLE-2011-IRSES
Researcher
European Comission
Concluded
2014/03 - 2015/12 LínguaTox - Língua bioeletrónica para a deteção de toxinas marinhas em bivalves
31-03-05-FEP-0052
Researcher
PROMAR
2012/03/02 - 2015/09/01 NO RESET - Metamorphosis does not reset embryonic and larval history - clarifying the role of offspring provisioning and larval feeding on early post-settlement performance of coastal marine invertebrates (NO RESET)
grant.Provided by PTCRIS: 116871
PTDC/BIA-BIC/116871/2010
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2014/03/01 - 2015/08/31 Illuminating the metabolism of foundational and elusive microbial symbionts in benthic ecosytems: a cultivation-independent quest for Hahellaceae (Gammaproteobacteria, Oceanospirillales) genomes
grant.Provided by PTCRIS: 134689
PROMAR -3
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2012/01/01 - 2014/12/31 STEP - Integrated System for Managing Fish farm Effluents.
SWD(2017) 274 final
Researcher
European Maritime and Fisheries Fund
Concluded
2011/05/02 - 2014/12/31 AQUASAFE - Development of new Technologies to anticipate and diagnose disease outbreaks in aquaculture.
PROMAR 31-03-05-FEP-0016
Supervisor
European Maritime and Fisheries Fund
Concluded
2011/05/01 - 2014/12/31 RASTREMAR - Use of molecular tools for traceability of marine food products.
PROMAR 31-03-05-FEP-0015
Researcher
European Maritime and Fisheries Fund
Concluded
2011/12/31 - 2014/12/30 LTER-RAVE - Long term monitoring in the Ria de Aveiro: towards a deeper understanding of ecological, environmental and economic processes
grant.Provided by PTCRIS: 109692
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2011/02/01 - 2014/07/01 Phage therapy as a low environmental impact alternative to inactive phatogenic bacteria in fishfarming plants.
grant.Provided by PTCRIS: 112934
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2010/06/01 - 2014/05/31 CARCACE Colonization of mammal carcasses in the deep Atlantic Ocean
PTDC/MAR/099656/2008
grant.Provided by PTCRIS: 99656
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2010/01/01 - 2014/02/28 SWIMGLO - The Gloria-SWIM plate boundary Faults connection and its importance on the propagation of tectonic deformation and deep water ecosystems along the Azores-Gibraltar Plate Boundary (SWIMGLO)
grant.Provided by PTCRIS: 100522
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2010/04/15 - 2013/10/14 Global climate change and pollution: a synergy designed for disaster?
grant.Provided by PTCRIS: 107916
Supervisor
Fundação para a Ciência e a Tecnologia
Concluded
2009/03/01 - 2013/02/28 Remediation Processes in uranium and other mining areas
SFP 983311
Researcher
NATO
Concluded
2012/01/01 - 2012/12/31 Dynamics of the intestinal microbial flora, digestive enzymes activity and biochemical composition of marine invertebrate larvae in a globally changing ocean
E-116/10
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2010/01/01 - 2012/03/31 Project PORTONOVO-Water Quality in Harbours. 2007-2013 Atlantic Area Program.
2009-1/119
Researcher
European Comission
Concluded
2009/03/01 - 2011/02/28 ARENA: Integrated Assessment of the Risk of Nanomaterials for Tropical and Temperate Ecosystems
cnpq122451447613479
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2009 - 2011 Project QREN - Development of a detection system for evaluation of the level of microbial contamination
1561
Researcher
Quadro de Referência Estratégico Nacional - QREN
Concluded
2009/01/01 - 2009/07/31 Project CAPTAR- Sience and Environment for All
18277
Researcher
Fundação Calouste Gulbenkian
Concluded
2005 - 2008 Microbial diversity in urban mangrove forests
SM59/4-1 and 4-2
Researcher
Deutsche Forschungsgemeinschaft
Concluded
1998 - 2005 Dynamics of Microbial Communities in Bulk and Maize Rhizosphere Soil in the Tropics. Bilateral (German-Brazilian) cooperation in science and technology
WTZ98/0
Researcher
Deutsches Zentrum für Luft- und Raumfahrt
Concluded

Other

Designation Funders
2017 - 2017 DNA TRUSTAG - A paradigm shift in authentication technologies
743831
Project partner
Horizon 2020
Concluded
Outputs

Publications

Book
  1. Almeida, Adelaide; Alves, F.L.; Bernardes C.; Dias J.M.; Gomes, N.C.M.; Pereira E.; Queiroga, H.; Serôdio, J.; Vaz, N.. Actas das Jornadas da Ria de Aveiro. Aveiro, Portugal. 2011.
Book chapter
  1. Gomes, N.C.M.; Cleary, D.F.R.. "Impact of Mangrove Roots on Bacterial Composition". 2013.
    10.1002/9781118297674.ch102
  2. Gomes, Newton C. M.; Cleary, Daniel F. R.. "Impact of Mangrove Roots on Bacterial Composition". In Molecular Microbial Ecology of the Rhizosphere, 1081-1088. John Wiley & Sons, Inc., 2013.
    10.1002/9781118297674.ch102
  3. Almeida, A; Cunha, A.; Gomes, N.C.M.; Santos, L.; Mendes, C.; Pereira, C.. "Impact of Virioplankton on the Ria de Aveiro Bacterial Community". In Actas das Jornadas da Ria de Aveiro 2011., 205-2013. 2011.
  4. Domingues, P.M.; Louvado, A.; Coelho, F.J.R.C.; Santos, A.L.; Gomes, N.C.M.; Almeida, A.; Cunha, A.. "Isolation and Characterization of Ria de Aveiro Biosurfactant Producing Bacteria". In Actas das Jornadas da Ria de Aveiro 2011, 214-218. Aveiro, Portugal, 2011.
  5. Coelho, F.J.R.C.; Santos, A.L.; Oliveira, V.; Santos, L.; Gomes, N.C.M.; Almeida, A.; Cunha, A.. "Patterns of Variation of Bacterial Extracellular Enzyme Activity in Ria de Aveiro.". In Actas das Jornadas da Ria de Aveiro 2011, 295-301. A, Portugal, 2011.
  6. Santos, L.; Gomes, N.C.M.; Cunha, A.; Almeida, A.. "Bacterial Abundance and Productivity Variation in Ria de Aveiro Over a Ten Year Period (1996-2007)". In Actas das Jornadas da Ria de Aveiro 2011, 316-320. 2011.
  7. Pereira, C.; Silva, Y.J.; Gomes, N.C.M.; Cunha, A.; Almeida, A.. "Antimicrobial Photodynamic Therapy as an Alternative to Antibiotics to Inactivate Pathogenic Bacteria in Fish Waters". In Actas das Jornadas da Ria de Aveiro 2011, 340-348. 2011.
  8. Binh, C.T.T.; Heuer, H.; Gomes, N.C.M.; Kaupenjohann, M.; Smalla, K.. "Similar bacterial community structure and high abundance of sulfonamide resistance genes in field-scale manures". 2010.
  9. Coelho, F.J.R.C.; Sousa, S.; Santos, L.; Santos, A.L.; Almeida, A.; Gomes, N.C.M.; Cunha, A.. "PAH Degrading Bacteria in an Estuarine System". In Interdisciplinary Studies on Environmental Chemistry — Biological Responses to Contaminants, 77-87. 2010.
  10. Cunha, A.; Almeida, A.; Coelho, F.J.R.C.; Gomes, N.C.M.; Oliveira, V.; Santos, A.L.. "Bacterial Extracellular Enzymatic Activity in Globally Changing Aquatic Ecosystems". In Current Research, Technology and Education Topics in Applied Microbiology and Microbial Biotechnology, 124-135. 2010.
  11. Binh, C.T.T.; Heuer, H.; Gomes, N.C.M.; Kaupenjohann, M.; Smalla, K.. "Similar Bacterial Community Structure and High Abundance of Sulfonamide Resistance Genes in Field-scale Manures". In Management, Uses and Environmental Impacts, 141-166. 2010.
  12. Gomes, Newton C. M.; Costa, Rodrigo; Smalia, Kornelia. "Section 1 update: Rapid simultaneous extraction of DNA and RNA from bulk and rhizophere soil". In Molecular Microbial Ecology Manual, 2061-2071. Springer Netherlands, 2008.
    10.1007/978-1-4020-2177-0_112
  13. Milling, A.; Gomes, N.C.M.; Oros-Sichler, M; Götz, M.; Smalla, K.. "Nucleic acid extraction from environmental samples". In Molecular Microbial Ecology. Taylor & Francis, 2005.
  14. Niua, H.; Volesky, B.; Gomes, N.C.M.. "Enhancement of gold-cyanide biosorption by L-cysteine". In Annals of Microbiology. 1999.
    10.1016/S1572-4409(99)80138-2
  15. Rosa, LH; Souza-Fagundes, EM; Santos, MH; Dias, JCT; Pimentel, PF; Gomes, NCM; Amils, R; Ballester, A. "Degradation of thiocyanate by immobilized cells of mixed and pure cultures". 819-824. 1999.
    10.1016/S1572-4409(99)80173-4
  16. Rosa, LH; Pimentel, PF; Figueira, MM; Mendonca-Hagler, LCS; Gomes, NCM; Amils, R; Ballester, A. "Biosorption of free and complexed cadmium ions by Aspergillus niger". 513-519. 1999.
    10.1016/S1572-4409(99)80140-0
Conference poster
  1. Louvado, A.; Coelho, F.J.R.C.; Palma, M.; Osório, R.; Magnoni, L.; Viegas, I.; Gomes, N. C. M.. "Effect of glycerol feed-supplementation on seabass (Dicentrarchus labrax) gut microbiota.". Paper presented in 15th Symposium on Bacterial Genetics and Ecology (BAGECO15), 2019.
  2. Oliveira, V.; Polónia, A.R.M.; Cleary D.F.R.; Yusheng M.A.; de Voogd, N.J.; Rocha U.N.; Gomes, N.N.C.M.. "Amplification of Plasmid DNA from sponge-associated bacterial communities using a selective multiply-primed rolling circle amplification.". Paper presented in 15th Symposium on Bacterial Genetics and Ecology, 2019.
  3. Oliveira, A.; Bonifácio, D.; Cleary, D.F.R.; Yusheng, M.A.; de Voogd, N.J.; Gomes, N.N.C.M.. "Characterization of bacterial populations hosting plasmids in marine sponges from Taiwan.". Paper presented in ISME 17 - 17th International Symposium on Microbial Ecology, 2018.
  4. Oliveira, V.; Pires, A.C.C.; Cleary, D.F.R.; Polónia, A.R.M.; Lim, S.C.; De Voogd, N.J.; Gomes, N.N.C.M.. "Bacterial communities of Xestospongia testudinaria, sediment and water in a singaporean coral reef ecosystem". Paper presented in BAGECO 2017- 14th Symposium on Bacterial Genetics and Ecology., 2017.
  5. Domingues, P.M.; Almeida, A.; Serafim, L.S.; Gomes, N.C.M.; Cunha, A.. "Response of bacterial communities from deep-sea active and inactive mud volcanoes to the presence of crude oil in nitrate-reduction conditions.". Paper presented in EMBO Young Scientists' Forum, 2016.
  6. Silva, Y.J.; Pereira, C.; Costa, L.; Santos, L.; Cunha, A.; Gomes, N.C.M.; Calado, R.; Almeida, A.. "Phage therapy as an approach to prevent Aeromonas salmonicida infections in juvenile sole fish". Paper presented in ICAR 2015 International Conference in Antibiotic Resistance, 2016.
  7. Polónia, A.R.M.; Cleary, D.R.F.; Duarte, L.N.; de Voogd, N.J.; Gomes, N.C.M.. "Composition of Archaea in seawater, sediment and sponges in the Kepulauan Seribu reef system, Indonesia". Paper presented in First EMBO Conference on Aquatic Microbial Ecology: SAME13, 2016.
  8. Louvado, A.; Almeida, A.; Simões, M.M.Q.; Gomes, N.C.M.; Cunha, A.. "Biodegradation of PAHs and biosurfactant production in deep sea bacteria.". Paper presented in Research Day - University of Aveiro, 2015.
  9. Sena, C.; Azevedo, M.R.; Ribeiro, S.; Gomes, N. C. M.; Coelho, F.; Marques, A.; Cunha, A.; Almeida, A.; Pinheiro, L.M.. "Water-rock interactions and geomicrobiology in a sedimentary basin that records large volcanic eruptions – IODP Expedition 351". Paper presented in Research Day - University of Aveiro, 2015.
  10. Coelho, F.J.R.C.; Cleary, D.F.R.; Ferreira, M.; Gomes, N.C.M.. "Response of sediment archaeal communities to ocean acidification and oil pollution.". Paper presented in Bioremediation of oil-contaminated environments, 2015.
  11. Silva, Y.; Pereira, C.; Costa, L.; Santos, L.; Cunha, A.; Gomes, N.C.M.; Calado, R.; Almeida, A.. "Phage therapy as an approach to prevent Aeromonas salmonicida infections in juvenile sole fish". Paper presented in ICAR 2015 International Conference in Antibiotic Resistance, 2015.
  12. Almeida, R.; Oliveira, J.M.M.; Pimentel, T.; Monteiro, M.; Andrade, T.S.; Henriques, J.F.; Soares, A.M.V.M.; et al. "Effects of combined stress in the microbiome and biochemical markers of zebrafish embryos.". Paper presented in IV Encontro Nacional de Pós-graduação em Ciências Biológicas (IV ENPGCB), 2015.
  13. Almeida, R.; Pimentel, T.; Monteiro, M.; Oliveira, J.; Andrade, T.; Henriques, J.; Soares, A.M.V.M.; et al. "Effects of combined stress to zebrafish embryos microbiome and biochemical markers.". Paper presented in XIII Congresso Brasileiro de Ecotoxicologia – 2014 ecotox, 2014.
  14. de Figueiredo, D.R.; Cleary, D.F.R.; Saraiva, P.; Gomes, N.C.M.; Gonçalves, A.M.M.; Reboleira, A.S.; Goncalves, F.; et al. "Metagenomic overview of bacterioplankton diversity from Estremenho karst massif aquifer (Portugal)". Paper presented in EcoHCC’14 - 3rd International Conference on Ecohydrology, Soil and Climate Change, EcoHCC'14, 2014.
  15. Almeida, R.; Pimentel, T.; Loureiro, S.; Gomes, N. C. M.; Soares, A.M.V.M.; Domingues, I.. "Combined effects of Ultraviolet radiation and xenobiotics on zebrafish embryos - changes in bacterial communities". Paper presented in SETAC Europe 24th Annual Meeting, 2014.
  16. Alves, E.; Melo, T.; Santos, N.; Maciel, E.; Dória, M.L.; Faustino, M.A.F.; Tomé, J.P.C.; et al. "Photodynamic oxidation of bacterial membrane phospholipids: a new insight provided by lipidomics". Paper presented in 3rd Workshop in Lipidomics, 2014.
Journal article
  1. Louvado, Antonio; Cleary, Daniel F.R.; Pereira, Luís F.; Coelho, Francisco J.R.C.; Pousão-Ferreira, Pedro; Ozório, Rodrigo O.A.; Gomes, Newton C.M.. Corresponding author: Gomes, Newton C.M.. "Humic substances modulate fish bacterial communities in a marine recirculating aquaculture system". Aquaculture 544 (2021): 737121. http://dx.doi.org/10.1016/j.aquaculture.2021.737121.
    10.1016/j.aquaculture.2021.737121
  2. Vanessa Oliveira; Ana R. M. Polónia; Daniel F. R. Cleary; Yusheng M. Huang; Nicole J. Voogd; Ulisses N. Rocha; Newton C. M. Gomes. "Characterization of putative circular plasmids in sponge-associated bacterial communities using a selective multiply-primed rolling circle amplification". Molecular Ecology Resources 21 1 (2021): 110-121. https://doi.org/10.1111/1755-0998.13248.
    10.1111/1755-0998.13248
  3. Marina Rafaela Santos Ferreira; Daniel Francis Richard Cleary; Francisco José Riso Costa Coelho; Newton Carlos Marcial Gomes; Yusheng M Huang; Ana Rita Moura Polónia; Nicole Joy de Voogd. "Geographical location and habitat predict variation in prokaryotic community composition of Suberites diversicolor". Annals of Microbiology (2020): https://doi.org/10.1186/s13213-020-01546-z.
    10.1186/s13213-020-01546-z
  4. Nuno Borges; Tina Keller-Costa; Gracinda M M Sanches-Fernandes; António Louvado; Newton C. M. Gomes; Rodrigo Costa. "Bacteriome Structure, Function, and Probiotics in Fish Larviculture: The Good, the Bad, and the Gaps.". Annual review of animal biosciences (2020): https://doi.org/10.1146/annurev-animal-062920-113114.
    10.1146/annurev-animal-062920-113114
  5. Ana Cecília da Cruz Pires; Vanessa Oliveira; Daniel Francis Richard Cleary; Ana Rita Moura Polónia; Francisco José Riso Costa Coelho; Zarinah Waheed; Nicole Joy de Voogd; Newton Carlos Marcial Gomes. "Bacterial composition and putative functions associated with sponges, sediment and seawater from the Tioman coral reef system, Peninsular Malaysia". Marine Biology Research (2020): 1-15. https://doi.org/10.1080/17451000.2021.1891250.
    10.1080/17451000.2021.1891250
  6. Domingues, Patrícia M.; Oliveira, Vanessa; Serafim, Luísa Seuanes; Gomes, Newton C. M.; Cunha, Ângela. "Biosurfactant Production in Sub-Oxic Conditions Detected in Hydrocarbon-Degrading Isolates from Marine and Estuarine Sediments". International Journal of Environmental Research and Public Health 17 5 (2020): 1746. http://dx.doi.org/10.3390/ijerph17051746.
    10.3390/ijerph17051746
  7. Daniel Francis Richard Cleary; Marina R. S. Ferreira; Nguyen K. Bat; Ana Rita Moura Polónia; Newton Carlos Marcial Gomes; Nicole Joy de Voogd. "Bacterial composition of sponges, sediment and seawater in enclosed and open marine lakes in Ha Long Bay Vietnam". Marine Biology Research (2019): https://doi.org/10.1080/17451000.2019.1702214.
    10.1080/17451000.2019.1702214
  8. Cleary, DFR; Polónia, ARM; Huang, YM; Putchakarn, S; Gomes, NCM; de Voogd, NJ. "A comparison of prokaryote communities inhabiting sponges, bacterial mats, sediment and seawater in Southeast Asian coral reefs". FEMS Microbiology Ecology (2019): http://dx.doi.org/10.1093/femsec/fiz169.
    10.1093/femsec/fiz169
  9. A. Louvado; F.J.R.C. Coelho; V. Oliveira; H. Gomes; D.F.R. Cleary; M.M.Q. Simões; A. Cunha; N.C.M. Gomes. "Microcosm evaluation of the impact of oil contamination and chemical dispersant addition on bacterial communities and sediment remediation of an estuarine port environment". Journal of Applied Microbiology 127 1 (2019): 134-149. https://doi.org/10.1111/jam.14261.
    10.1111/jam.14261
  10. Cleary, D.F.R.; Gomes, N.C.M.. "Baseline information on prokaryotic and microeukaryotic plankton communities inside and outside of Indonesian marine lakes". Journal of Sea Research 148-149 (2019): 23-32. http://dx.doi.org/10.1016/j.seares.2019.04.001.
    10.1016/j.seares.2019.04.001
  11. Cleary, Daniel F. R.; Swierts, Thomas; Coelho, Francisco J. R. C.; Polónia, Ana R. M.; Huang, Yusheng M.; Ferreira, Marina R. S.; Putchakarn, Sumaitt; et al. "The sponge microbiome within the greater coral reef microbial metacommunity". Nature Communications 10 1 (2019): http://dx.doi.org/10.1038/s41467-019-09537-8.
    10.1038/s41467-019-09537-8
  12. Letícia N. Duarte; Francisco J.R.C. Coelho; Daniel F.R. Cleary; Daniel Bonifácio; Patrícia Martins; Newton C.M. Gomes. "Bacterial and microeukaryotic plankton communities in a semi-intensive aquaculture system of sea bass (Dicentrarchus labrax): A seasonal survey". Aquaculture 503 (2019): 59-69. https://doi.org/10.1016/j.aquaculture.2018.12.066.
    10.1016/j.aquaculture.2018.12.066
  13. Duarte, Letícia N.; Coelho, Francisco J. R. C.; Oliveira, Vanessa; Cleary, Daniel F. R.; Martins, Patrícia; Gomes, Newton C. M.. "Characterization of bacterioplankton communities from a hatchery recirculating aquaculture system (RAS) for juvenile sole (Solea senegalensis) production". PLOS ONE 14 1 (2019): e0211209. http://dx.doi.org/10.1371/journal.pone.0211209.
    10.1371/journal.pone.0211209
  14. Dealtry, Simone; Ghizelini, Angela Michelato; Mendonça-Hagler, Leda C.S.; Chaloub, Ricardo Moreira; Reinert, Fernanda; Campos, Tácio M.P. de; Gomes, Newton C.M.; Smalla, Kornelia. "Petroleum contamination and bioaugmentation in bacterial rhizosphere communities from Avicennia schaueriana". Brazilian Journal of Microbiology 49 4 (2018): 757-769. http://dx.doi.org/10.1016/j.bjm.2018.02.012.
    10.1016/j.bjm.2018.02.012
  15. Louvado, António; Coelho, Francisco J. R. C.; Gomes, Hélder; Cleary, Daniel F. R.; Cunha, Ângela; Gomes, Newton C. M.. "Independent and interactive effects of reduced seawater pH and oil contamination on subsurface sediment bacterial communities". Environmental Science and Pollution Research 25 32 (2018): 32756-32766. http://dx.doi.org/10.1007/s11356-018-3214-5.
    10.1007/s11356-018-3214-5
  16. Polónia, Ana Rita Moura; Cleary, Daniel Francis Richard; Coelho, Francisco José Riso da Costa; Becking, Leontine E.; de Voogd, Nicole Joy; Toha, Abdul Hamid A.; Gomes, Newton Carlos Marcial. "Compositional analysis of archaeal communities in high and low microbial abundance sponges in the Misool coral reef system, Indonesia". Marine Biology Research 14 6 (2018): 537-550. http://dx.doi.org/10.1080/17451000.2018.1498977.
    10.1080/17451000.2018.1498977
  17. Pires, A.C.C.; Cleary, D.F.R.; Polónia, A.R.M.; Lim, S.C.; De Voogd, N.J.; Oliveira, V.; Gomes, N.C.M.. "Comparison of bacterial communities associated withXestospongia testudinaria, sediment and seawater in a Singaporean coral reef ecosystem". Journal of the Marine Biological Association of the United Kingdom 99 2 (2018): 331-342. http://dx.doi.org/10.1017/s0025315418000188.
    10.1017/s0025315418000188
  18. Patrícia Martins; Francisco J.R.C. Coelho; Daniel F.R. Cleary; Ana C.C. Pires; Bruna Marques; Ana Maria Rodrigues; Victor Quintino; Newton C.M. Gomes. "Seasonal patterns of bacterioplankton composition in a semi-intensive European seabass ( Dicentrarchus labrax ) aquaculture system". Aquaculture 490 (2018): 240-250. https://doi.org/10.1016/j.aquaculture.2018.02.038.
    10.1016/j.aquaculture.2018.02.038
  19. C.M. Boaventura; F.J.R.C. Coelho; P.T. Martins; A.C.C. Pires; L.N. Duarte; A.P.T. Uetanabaro; D.F.R. Cleary; N.C.M. Gomes. "Micro-eukaryotic plankton diversity in an intensive aquaculture system for production of Scophthalmus maximus and Solea senegalensis". Aquaculture 490 (2018): 321-328. https://doi.org/10.1016/j.aquaculture.2018.02.033.
    10.1016/j.aquaculture.2018.02.033
  20. Coelho, F.J.R.C.; Cleary, D.F.R.; Gomes, N.C.M.; Pólonia, A.R.M.; Huang, Y.M.; Liu, L.-L.; de Voogd, N.J.. "Sponge Prokaryote Communities in Taiwanese Coral Reef and Shallow Hydrothermal Vent Ecosystems". Microbial Ecology 75 1 (2018): 239-254. http://www.scopus.com/inward/record.url?eid=2-s2.0-85023205369&partnerID=MN8TOARS.
    10.1007/s00248-017-1023-x
  21. Keller-Costa, Tina; Eriksson, Dominic; Gonçalves, Jorge M. S.; Gomes, Newton C.M.; Lago-Lestón, Asunción; Costa, Rodrigo. "The gorgonian coral Eunicella labiata hosts a distinct prokaryotic consortium amenable to cultivation". FEMS Microbiology Ecology 93 12 (2017): http://dx.doi.org/10.1093/femsec/fix143.
    10.1093/femsec/fix143
  22. M. Domingues, Patrícia; Almeida, Adelaide; Serafim Leal, Luísa; Gomes, Newton C. M.; Cunha, Ângela. "Bacterial production of biosurfactants under microaerobic and anaerobic conditions". Reviews in Environmental Science and Bio/Technology 16 2 (2017): 239-272. http://dx.doi.org/10.1007/s11157-017-9429-y.
    10.1007/s11157-017-9429-y
  23. Polónia, Ana Rita Moura; Cleary, Daniel Francis Richard; Freitas, Rossana; Gomes, Newton Carlos Marcial; de Voogd, Nicole Joy. "Archaeal and bacterial communities of Xestospongia testudinaria and sediment differ in diversity, composition and predicted function in an Indonesian coral reef environment". Journal of Sea Research 119 (2017): 37-53. http://dx.doi.org/10.1016/j.seares.2016.10.007.
    10.1016/j.seares.2016.10.007
  24. Monteiro, M.; Séneca, J.; Torgo, L.; Cleary, D.F.R.; Gomes, N.C.M.; Santoro, A.E.; Magalhães, C.. "Environmental controls on estuarine nitrifying communities along a salinity gradient". Aquatic Microbial Ecology 80 2 (2017): 167-180. http://www.scopus.com/inward/record.url?eid=2-s2.0-85035793294&partnerID=MN8TOARS.
    10.3354/ame01847
  25. Cleary, D.F.R.; Coelho, F.J.R.C.; Oliveira, V.; Gomes, N.C.M.; Polónia, A.R.M.. "Sediment depth and habitat as predictors of the diversity and composition of sediment bacterial communities in an inter-tidal estuarine environment". Marine Ecology 38 2 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85017184197&partnerID=MN8TOARS.
    10.1111/maec.12411
  26. Oliveira, V.; Gomes, N.C.M.; Santos, M.; Almeida, A.; Lillebø, A.I.; Ezequiel, J.; Serôdio, J.; et al. "Effects of the Inoculant Strain Pseudomonas sp. SPN31 nah+and of 2-Methylnaphthalene Contamination on the Rhizosphere and Endosphere Bacterial Communities of Halimione portulacoides". Current Microbiology 74 5 (2017): 575-583. http://www.scopus.com/inward/record.url?eid=2-s2.0-85014159572&partnerID=MN8TOARS.
    10.1007/s00284-017-1197-y
  27. Cleary, D.F.R.; Polónia, A.R.M.; Becking, L.E.; de Voogd, N.J.; Purwanto; Gomes, H.; Gomes, N.C.M.. "Compositional analysis of bacterial communities in seawater, sediment, and sponges in the Misool coral reef system, Indonesia". Marine Biodiversity (2017): 1-13. http://www.scopus.com/inward/record.url?eid=2-s2.0-85018854698&partnerID=MN8TOARS.
    10.1007/s12526-017-0697-0
  28. Fernández, L.; Louvado, A.; Esteves, V.I.; Gomes, N.C.M.; Almeida, A.; Cunha, Â.. "Biodegradation of 17ß-estradiol by bacteria isolated from deep sea sediments in aerobic and anaerobic media". Journal of Hazardous Materials 323 (2017): 359-366. http://www.scopus.com/inward/record.url?eid=2-s2.0-84973597760&partnerID=MN8TOARS.
    10.1016/j.jhazmat.2016.05.029
  29. Coelho, Francisco J. R. C.; Louvado, António; Domingues, Patrícia M.; Cleary, Daniel F. R.; Ferreira, Marina; Almeida, Adelaide; Cunha, Marina R.; Cunha, Ângela; Gomes, Newton C. M.. "Integrated analysis of bacterial and microeukaryotic communities from differentially active mud volcanoes in the Gulf of Cadiz". Scientific Reports 6 1 (2016): http://dx.doi.org/10.1038/srep35272.
    10.1038/srep35272
  30. Ana Rita Moura Polónia; Daniel Francis Richard Cleary; Rossana Freitas; Francisco José Riso da Costa Coelho; Nicole Joy de Voogd; Newton Carlos Marcial Gomes. "Comparison of archaeal and bacterial communities in two sponge species and seawater from an Indonesian coral reef environment". Marine Genomics 29 (2016): 69-80. https://doi.org/10.1016%2Fj.margen.2016.04.014.
    10.1016/j.margen.2016.04.014
  31. Pimentel, T.; Rocha, R.J.M.; Rosa, R.; Soares, A.M.V.M.; Gomes, N.C.M.; Leal, M.C.; Calado, R.. "Bacterial communities from corals cultured ex situ remain stable under different light regimes - Relevance for in toto aquaculture". Aquaculture 450 (2016): 258-261. http://www.scopus.com/inward/record.url?eid=2-s2.0-84939426672&partnerID=MN8TOARS.
    10.1016/j.aquaculture.2015.08.006
  32. Cleary, D.F.R.; Becking, L.E.; Polónia, A.R.M.; Freitas, R.M.; Gomes, N.C.M.. "Composition and predicted functional ecology of mussel-associated bacteria in Indonesian marine lakes". Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology 107 3 (2016): 821-834. http://www.scopus.com/inward/record.url?eid=2-s2.0-84925486340&partnerID=MN8TOARS.
    10.1007/s10482-014-0375-1
  33. Silva, Y.J.; Moreirinha, C.; Pereira, C.; Costa, L.; Rocha, R.J.M.; Cunha, Â.; Gomes, N.C.M.; Calado, R.; Almeida, A.. "Biological control of Aeromonas salmonicida infection in juvenile Senegalese sole (Solea senegalensis) with Phage AS-A". Aquaculture 450 (2016): 225-233. http://www.scopus.com/inward/record.url?eid=2-s2.0-84939138716&partnerID=MN8TOARS.
    10.1016/j.aquaculture.2015.07.025
  34. Cleary, D.F.; Polónia, A.R.; Sousa, A.I.; Lillebø, A.I.; Queiroga, H.; Gomes, N.C.. "Temporal dynamics of sediment bacterial communities in monospecific stands of Juncus maritimus and Spartina maritima". Plant biology (Stuttgart, Germany) 18 5 (2016): 824-834. http://www.scopus.com/inward/record.url?eid=2-s2.0-85027937765&partnerID=MN8TOARS.
    10.1111/plb.12459
  35. Coelho, F.J.; Cleary, D.F.; Costa, R.; Ferreira, M.; Polónia, A.R.; Silva, A.M.; Simões, M.M.; Oliveira, V.; Gomes, N.C.. "Multitaxon activity profiling reveals differential microbial response to reduced seawater pH and oil pollution". Molecular ecology 25 18 (2016): 4645-4659. http://www.scopus.com/inward/record.url?eid=2-s2.0-85028260171&partnerID=MN8TOARS.
    10.1111/mec.13779
  36. Cleary, D.F.R.; Becking, L.E.; Polónia, A.R.M.; Freitas, R.M.; Gomes, N.C.M.. "Jellyfish-associated bacterial communities and bacterioplankton in Indonesian Marine lakes". FEMS Microbiology Ecology 92 5 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84964811029&partnerID=MN8TOARS.
    10.1093/femsec/fiw064
  37. Gomes, Newton. "Effect of chemical stress and ultraviolet radiation in the bacterial communities of zebrafish embryos". Environmental Pollution (2015):
    10.1016/j.envpol.2015.10.039
  38. A. Louvado; N.C.M. Gomes; M.M.Q. Simões; A. Almeida; D.F.R. Cleary; A. Cunha. "Polycyclic aromatic hydrocarbons in deep sea sediments: Microbe–pollutant interactions in a remote environment". Science of The Total Environment 526 (2015): 312-328. http://dx.doi.org/10.1016/j.scitotenv.2015.04.048.
    10.1016/j.scitotenv.2015.04.048
  39. Gomes, Newton. "Development of a molecular methodology for fast detection of Photobacterium damselae subspecies in water samples". Aquaculture (2015):
    10.1016/j.aquaculture.2014.09.028
  40. Polõnia, A.R.M.; Cleary, D.F.R.; Freitas, R.; De Voogd, N.J.; Gomes, N.C.M.. "The putative functional ecology and distribution of archaeal communities in sponges, sediment and seawater in a coral reef environment". Molecular Ecology 24 2 (2015): 409-423. http://www.scopus.com/inward/record.url?eid=2-s2.0-84920971199&partnerID=MN8TOARS.
    10.1111/mec.13024
  41. Coelho, F.J.R.C.; Cleary, D.F.R.; Rocha, R.J.M.; Calado, R.; Castanheira, J.M.; Rocha, S.M.; Silva, A.M.S.; et al. "Unraveling the interactive effects of climate change and oil contamination on laboratory-simulated estuarine benthic communities". Global Change Biology 21 5 (2015): 1871-1886. http://www.scopus.com/inward/record.url?eid=2-s2.0-84927959320&partnerID=MN8TOARS.
    10.1111/gcb.12801
  42. Pegoraro, N.; Calado, R.; Duarte, L.N.; Manco, S.C.; Fernandes, F.J.; Polónia, A.R.M.; Cleary, D.F.R.; Gomes, N.C.M.. "Molecular analysis of skin bacterial assemblages from codfish and pollock after dry-salted fish production". Journal of Food Protection 78 5 (2015): 983-989. http://www.scopus.com/inward/record.url?eid=2-s2.0-84929103845&partnerID=MN8TOARS.
    10.4315/0362-028X.JFP-14-390
  43. de Voogd, N.J.; Cleary, D.F.; Polónia, A.R.; Gomes, N.C.. "Bacterial community composition and predicted functional ecology of sponges, sediment and seawater from the thousand islands reef complex, West Java, Indonesia". FEMS microbiology ecology 91 4 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84942693960&partnerID=MN8TOARS.
    10.1093/femsec/fiv019
  44. Cleary, D.F.R.; de Voogd, N.J.; Polónia, A.R.M.; Freitas, R.; Gomes, N.C.M.. "Composition and Predictive Functional Analysis of Bacterial Communities in Seawater, Sediment and Sponges in the Spermonde Archipelago, Indonesia". Microbial Ecology 70 4 (2015): 889-903. http://www.scopus.com/inward/record.url?eid=2-s2.0-84946486234&partnerID=MN8TOARS.
    10.1007/s00248-015-0632-5
  45. Polónia, A.R.M.; Cleary, D.F.R.; de Voogd, N.J.; Renema, W.; Hoeksema, B.W.; Martins, A.; Gomes, N.C.M.. "Habitat and water quality variables as predictors of community composition in an Indonesian coral reef: A multi-taxon study in the Spermonde Archipelago". Science of the Total Environment 537 (2015): 139-151. http://www.scopus.com/inward/record.url?eid=2-s2.0-84941249401&partnerID=MN8TOARS.
    10.1016/j.scitotenv.2015.07.102
  46. Silva, Y.J.; Manco, S.; Costa, R.; Rodrigues, V.; Dias, J.; Ferreira, H.; Pousão-Ferreira, P.; et al. "Effect of different culture conditions on the structural diversity of prokaryote communities in the sediment of earth ponds stocked with gilthead seabream Sparus aurata (Linnaeus, 1758)". Aquaculture Research 46 7 (2015): 1760-1769. http://www.scopus.com/inward/record.url?eid=2-s2.0-84930823700&partnerID=MN8TOARS.
    10.1111/are.12336
  47. Oliveira, V.; Gomes, N.C.; Almeida, A.; Silva, A.M.; Silva, H.; Cunha, Â. "Microbe-assisted phytoremediation of hydrocarbons in estuarine environments". Microbial ecology 69 1 (2015): 1-12. http://www.scopus.com/inward/record.url?eid=2-s2.0-84941745613&partnerID=MN8TOARS.
    10.1007/s00248-014-0455-9
  48. Oliveira, Vanessa; Silva, A.P.; Marques, Bruna; Almeida, Adelaide; Gomes, Newton C. Marcial; Lillebo, A. I.; Cunha, Angela. "Microcosm Assessment of the Effect of an Acute Mercury Contamination Event on the Structure and Activity of Sediment Bacterial Communities". Applied Microbiology: open access 01 01 (2015): http://dx.doi.org/10.4172/2471-9315.1000102.
    10.4172/2471-9315.1000102
  49. Silva, Y.J.; Costa, L.; Pereira, C.; Mateus, C.; Cunha, Â.; Calado, R.; Gomes, N.C.M.; et al. "Phage therapy as an approach to prevent Vibrio anguillarum infections in fish larvae production". PLoS ONE 9 12 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84914689045&partnerID=MN8TOARS.
    10.1371/journal.pone.0114197
  50. Silva, Y.J.; Costa, L.; Pereira, C.; Cunha, A.; Calado, R.; Gomes, N.C.M.; Almeida, A.. "Influence of environmental variables in the efficiency of phage therapy in aquaculture". Microbial Biotechnology 7 5 (2014): 401-413. http://www.scopus.com/inward/record.url?eid=2-s2.0-84892901006&partnerID=MN8TOARS.
    10.1111/1751-7915.12090
  51. Oliveira, V.; Gomes, N.C.M.; Cleary, D.F.R.; Almeida, A.; Silva, A.M.S.; Simões, M.M.Q.; Silva, H.; Cunha, A.. "Halophyte plant colonization as a driver of the composition of bacterial communities in salt marshes chronically exposed to oil hydrocarbons". FEMS Microbiology Ecology 90 3 (2014): 647-662. http://www.scopus.com/inward/record.url?eid=2-s2.0-84914820941&partnerID=MN8TOARS.
    10.1111/1574-6941.12425
  52. Rocha, J.; Coelho, F.J.R.C.; Peixe, L.; Gomes, N.C.M.; Calado, R.. "Optimization of preservation and processing of sea anemones for microbial community analysis using molecular tools". Scientific Reports 4 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84925250469&partnerID=MN8TOARS.
    10.1038/srep06986
  53. Gomes, N.C.M.; Cleary, D.F.R.; Pires, A.C.C.; Almeida, A.; Cunha, A.; Mendonça-Hagler, L.C.S.; Smalla, K.. "Assessing variation in bacterial composition between the rhizospheres of two mangrove tree species". Estuarine, Coastal and Shelf Science 139 (2014): 40-45. http://www.scopus.com/inward/record.url?eid=2-s2.0-84893363659&partnerID=MN8TOARS.
    10.1016/j.ecss.2013.12.022
  54. Polónia, A.R.; Cleary, D.F.; Duarte, L.N.; de Voogd, N.J.; Gomes, N.C.. "Composition of Archaea in seawater, sediment, and sponges in the Kepulauan Seribu reef system, Indonesia.". Microbial ecology 67 3 (2014): 553-567. http://www.scopus.com/inward/record.url?eid=2-s2.0-84910004272&partnerID=MN8TOARS.
    10.1007/s00248-013-0365-2
  55. Santos, A.L.; Baptista, I.; Gomes, N.C.M.; Henriques, I.; Almeida, A.; Correia, A.; Cunha, A.. "Contribution of chemical water properties to the differential responses of bacterioneuston and bacterioplankton to ultraviolet-B radiation". FEMS Microbiology Ecology 87 2 (2014): 517-535. http://www.scopus.com/inward/record.url?eid=2-s2.0-84895073877&partnerID=MN8TOARS.
    10.1111/1574-6941.12239
  56. Santos, L.; Santos, A.L.; Coelho, F.J.R.C.; Marcial Gomes, N.C.; Dias, J.M.; Cunha, Â.; Almeida, A.. "Heterotrophic activities of neustonic and planktonic bacterial communities in an estuarine environment (Ria de Aveiro)". Journal of Plankton Research 36 1 (2014): 230-242. http://www.scopus.com/inward/record.url?eid=2-s2.0-84892756804&partnerID=MN8TOARS.
    10.1093/plankt/fbt084
  57. Oliveira, V.; Gomes, N.C.M.; Almeida, A.; Silva, A.M.S.; Simões, M.M.Q.; Smalla, K.; Cunha, A.. "Hydrocarbon contamination and plant species determine the phylogenetic and functional diversity of endophytic degrading bacteria". Molecular Ecology 23 6 (2014): 1392-1404. http://www.scopus.com/inward/record.url?eid=2-s2.0-84896341631&partnerID=MN8TOARS.
    10.1111/mec.12559
  58. Santos, L.; Vaz, L.; Marcial Gomes, N.C.; Vaz, N.; Dias, J.M.; Cunha, T.; Almeida, A.. "Impact of freshwater inflow on bacterial abundance and activity in the estuarine system Ria de Aveiro". Estuarine, Coastal and Shelf Science 138 (2014): 107-120. http://www.scopus.com/inward/record.url?eid=2-s2.0-84893391072&partnerID=MN8TOARS.
    10.1016/j.ecss.2013.12.021
  59. Baptista, I.; Santos, A.L.; Pereira, C.; Santos, L.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Influence of incubation conditions on bacterial production estimates in an estuarine system". Aquatic Ecology 48 3 (2014): 327-336. http://www.scopus.com/inward/record.url?eid=2-s2.0-84905731547&partnerID=MN8TOARS.
    10.1007/s10452-014-9487-y
  60. Mendes, Carlos; Santos, Luísa; Cunha, Ângela; Gomez, Newton C. M.; Almeida, Adelaide. "Proportion of prokaryotes enumerated as viruses by epifluorescence microscopy". Annals of Microbiology 64 2 (2013): 773-778. http://dx.doi.org/10.1007/s13213-013-0713-y.
    10.1007/s13213-013-0713-y
  61. Gonçalves, S.F.; Calado, R.; Gomes, N.C.M.; Soares, A.M.V.M.; Loureiro, S.. "An ecotoxicological analysis of the sediment quality in a European Atlantic harbor emphasizes the current limitations of the Water Framework Directive". Marine Pollution Bulletin 72 1 (2013): 197-204. http://www.scopus.com/inward/record.url?eid=2-s2.0-84879880782&partnerID=MN8TOARS.
    10.1016/j.marpolbul.2013.04.003
  62. Coelho, F.J.R.C.; Rocha, R.J.M.; Pires, A.C.C.; Ladeiro, B.; Castanheira, J.M.; Costa, R.; Almeida, A.; et al. "Development and validation of an experimental life support system for assessing the effects of global climate change and environmental contamination on estuarine and coastal marine benthic communities". Global Change Biology 19 8 (2013): 2584-2595. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880132597&partnerID=MN8TOARS.
    10.1111/gcb.12227
  63. Costa, R.; Keller-Costa, T.; Gomes, N.C.M.; da Rocha, U.N.; van Overbeek, L.; van Elsas, J.D.. "Evidence for Selective Bacterial Community Structuring in the Freshwater Sponge Ephydatia fluviatilis". Microbial Ecology 65 1 (2013): 232-244. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872340581&partnerID=MN8TOARS.
    10.1007/s00248-012-0102-2
  64. Coelho, F.J.R.C.; Santos, A.L.; Coimbra, J.; Almeida, A.; Cunha, A.; Cleary, D.F.R.; Calado, R.; Gomes, N.C.M.. "Interactive effects of global climate change and pollution on marine microbes: The way ahead". Ecology and Evolution 3 6 (2013): 1808-1818. http://www.scopus.com/inward/record.url?eid=2-s2.0-84886245555&partnerID=MN8TOARS.
    10.1002/ece3.565
  65. Martins, P.; Cleary, D.F.R.; Pires, A.C.C.; Rodrigues, A.M.; Quintino, V.; Calado, R.; Gomes, N.C.M.. "Molecular analysis of bacterial communities and detection of potential pathogens in a recirculating aquaculture system for Scophthalmus maximus and Solea senegalensis". PLoS ONE 8 11 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84893458519&partnerID=MN8TOARS.
    10.1371/journal.pone.0080847
  66. Alves, E.; Faustino, M.A.F.; Tomé, J.P.C.; Neves, M.G.P.M.S.; Tomé, A.C.; Cavaleiro, J.A.S.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Nucleic acid changes during photodynamic inactivation of bacteria by cationic porphyrins". Bioorganic and Medicinal Chemistry 21 14 (2013): 4311-4318. http://www.scopus.com/inward/record.url?eid=2-s2.0-84879006082&partnerID=MN8TOARS.
    10.1016/j.bmc.2013.04.065
  67. Alves, E.; Melo, T.; Simões, C.; Faustino, M.A.; Tomé, J.P.; Neves, M.G.; Cavaleiro, J.A.; et al. "Photodynamic oxidation of Staphylococcus warneri membrane phospholipids: new insights based on lipidomics.". Rapid communications in mass spectrometry : RCM 27 14 (2013): 1607-1618. http://www.scopus.com/inward/record.url?eid=2-s2.0-84887003568&partnerID=MN8TOARS.
  68. Cleary, D.F.R.; Becking, L.E.; de Voogd, N.J.; Pires, A.C.C.; Polónia, A.R.M.; Egas, C.; Gomes, N.C.M.. "Habitat- and host-related variation in sponge bacterial symbiont communities in Indonesian waters". FEMS Microbiology Ecology 85 3 (2013): 465-482. http://www.scopus.com/inward/record.url?eid=2-s2.0-84881483035&partnerID=MN8TOARS.
    10.1111/1574-6941.12135
  69. Ribeiro, A.; Ramalheira, E.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Incidence of Rotavirus and Adenovirus: Detection by molecular and immunological methods in Human faeces". Journal of Pure and Applied Microbiology 7 3 (2013): 1505-1513. http://www.scopus.com/inward/record.url?eid=2-s2.0-84888790898&partnerID=MN8TOARS.
  70. Santos, Ana L.; Oliveira, Vanessa; Baptista, Ines; Henriques, Isabel; Gomes, Newton C. M.; Almeida, Adelaide; Correia, Antonio; Cunha, Angela. "Wavelength dependence of biological damage induced by UV radiation on bacteria". Archives of Microbiology 195 1 (2013): 63-74.
    10.1007/s00203-012-0847-5
  71. Pinheiro, J. C.; Marques, C. R.; Pinto, G.; Bouguerra, S.; Mendo, S.; Gomes, N. C.; Goncalves, F.; et al. "The performance of Fraxinus angustifolia as a helper for metal phytoremediation programs and its relation to the endophytic bacterial communities". Geoderma 202 (2013): 171-182.
    10.1016/j.geoderma.2013.03.014
  72. Santos, Ana L.; Gomes, Newton C. M.; Henriques, Isabel; Almeida, Adelaide; Correia, Antonio; Cunha, Angela. "Role of Transition Metals in UV-B-Induced Damage to Bacteria". Photochemistry and Photobiology 89 3 (2013): 640-648.
    10.1111/php.12049
  73. Santos, Ana L.; Gomes, Newton C. M.; Henriques, Isabel; Almeida, Adelaide; Correia, Antonio; Cunha, Angela. "Growth conditions influence UVB sensitivity and oxidative damage in an estuarine bacterial isolate". Photochemical & Photobiological Sciences 12 6 (2013): 974-986.
    10.1039/c3pp25353h
  74. Salvador, Angelo C.; Baptista, Ines; Barros, Antonio S.; Gomes, Newton C. M.; Cunha, Angela; Almeida, Adelaide; Rocha, Silvia M.. "Can Volatile Organic Metabolites Be Used to Simultaneously Assess Microbial and Mite Contamination Level in Cereal Grains and Coffee Beans?". Plos One 8 4 (2013):
    10.1371/journal.pone.0059338
  75. Gomes, N.C.M.; Manco, S.C.; Pires, A.C.C.; Gonçalves, S.F.; Calado, R.; Cleary, D.F.R.; Loureiro, S.. "Richness and composition of sediment bacterial assemblages in an Atlantic port environment". Science of the Total Environment 452-453 (2013): 172-180. http://www.scopus.com/inward/record.url?eid=2-s2.0-84875259833&partnerID=MN8TOARS.
    10.1016/j.scitotenv.2013.02.017
  76. Domingues, P.M.; Louvado, A.; Oliveira, V.; Coelho, F.J.C.R.; Almeida, A.; Gomes, N.C.M.; Cunha, A.. "Selective cultures for the isolation of biosurfactant producing bacteria: Comparison of different combinations of environmental inocula and hydrophobic carbon sources". Preparative Biochemistry and Biotechnology 43 3 (2013): 237-255. http://www.scopus.com/inward/record.url?eid=2-s2.0-84873659399&partnerID=MN8TOARS.
    10.1080/10826068.2012.719848
  77. Oliveira, Vanessa; Santos, Ana L.; Aguiar, Claudia; Santos, Luisa; Salvador, Angelo C.; Gomes, Newton C. M.; Silva, Helena; et al. "Prokaryotes in salt marsh sediments of Ria de Aveiro: Effects of halophyte vegetation on abundance and diversity". Estuarine Coastal and Shelf Science 110 (2012): 61-68.
    10.1016/j.ecss.2012.03.013
  78. Cleary, D. F. R.; Oliveira, V.; Gomes, N. C. M.; Pereira, A.; Henriques, I.; Marques, B.; Almeida, A.; et al. "Impact of sampling depth and plant species on local environmental conditions, microbiological parameters and bacterial composition in a mercury contaminated salt marsh". Marine Pollution Bulletin 64 2 (2012): 263-271.
    10.1016/j.marpolbul.2011.11.020
  79. Nogueira, V.; Lopes, I.; Rocha-Santos, T.; Santos, A.L.; Rasteiro, G.M.; Antunes, F.; Gonçalves, F.; et al. "Impact of organic and inorganic nanomaterials in the soil microbial community structure". Science of the Total Environment 424 (2012): 344-350. http://www.scopus.com/inward/record.url?eid=2-s2.0-84859775809&partnerID=MN8TOARS.
    10.1016/j.scitotenv.2012.02.041
  80. António, L.; Coelho, F.J.R.C.; Domingues, P.; Santos, A.L.; Gomes, N.C.M.; Almeida, A.; Cunha, A.. "Isolation of surfactant-resistant pseudomonads from the estuarine surface microlayer". Journal of Microbiology and Biotechnology 22 3 (2012): 283-291. http://www.scopus.com/inward/record.url?eid=2-s2.0-84930475453&partnerID=MN8TOARS.
    10.4014/jmb.1110.10041
  81. Santos, A.L.; Baptista, I.; Lopes, S.; Henriques, I.; Gomes, N.C.M.; Almeida, A.; Correia, A.; Cunha, A.. "The UV responses of bacterioneuston and bacterioplankton isolates depend on the physiological condition and involve a metabolic shift". FEMS Microbiology Ecology 80 3 (2012): 646-658. http://www.scopus.com/inward/record.url?eid=2-s2.0-84860687900&partnerID=MN8TOARS.
    10.1111/j.1574-6941.2012.01336.x
  82. Leal, M.C.; Puga, J.; Serôdio, J.; Gomes, N.C.M.; Calado, R.. "Trends in the discovery of new marine natural products from invertebrates over the last two decades - where and what are we bioprospecting?". PLoS ONE 7 1 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84856034997&partnerID=MN8TOARS.
    10.1371/journal.pone.0030580
  83. Prata, C.; Ribeiro, A.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Ultracentrifugation as a direct method to concentrate viruses in environmental waters: Virus-like particle enumeration as a new approach to determine the efficiency of recovery". Journal of Environmental Monitoring 14 1 (2012): 64-70. http://www.scopus.com/inward/record.url?eid=2-s2.0-84855391746&partnerID=MN8TOARS.
    10.1039/c1em10603a
  84. Santos, A.L.; Oliveira, V.; Baptista, I.; Henriques, I.; Gomes, N.C.M.; Almeida, A.; Correia, A.; Cunha, A.. "Effects of UV-B radiation on the structural and physiological diversity of bacterioneuston and bacterioplankton". Applied and Environmental Microbiology 78 6 (2012): 2066-2069. http://www.scopus.com/inward/record.url?eid=2-s2.0-84857831854&partnerID=MN8TOARS.
    10.1128/AEM.06344-11
  85. Vieira, A.; Silva, Y.J.; Cunha, Â.; Gomes, N.C.M.; Ackermann, H.-W.; Almeida, A.. "Phage therapy to control multidrug-resistant Pseudomonas aeruginosa skin infections: In vitro and ex vivo experiments". European Journal of Clinical Microbiology and Infectious Diseases 31 11 (2012): 3241-3249. http://www.scopus.com/inward/record.url?eid=2-s2.0-84868000158&partnerID=MN8TOARS.
    10.1007/s10096-012-1691-x
  86. Pereira, J.B.; Carvalho, E.F.A.; Faustino, M.A.F.; Fernandes, R.; Neves, M.G.P.M.S.; Cavaleiro, J.A.S.; Gomes, N.C.M.; et al. "Phthalocyanine thio-pyridinium derivatives as antibacterial photosensitizers". Photochemistry and Photobiology 88 3 (2012): 537-547. http://www.scopus.com/inward/record.url?eid=2-s2.0-84860697025&partnerID=MN8TOARS.
    10.1111/j.1751-1097.2012.01113.x
  87. Cleary, D.F.R.; Smalla, K.; Mendonça-Hagler, L.C.S.; Gomes, N.C.M.. "Assessment of variation in bacterial composition among microhabitats in a mangrove environment using DGGE fingerprints and barcoded pyrosequencing". PLoS ONE 7 1 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84855706676&partnerID=MN8TOARS.
    10.1371/journal.pone.0029380
  88. Martins, P.; Lopes, M.L.; Rodrigues, A.M.; Gomes, N.C.M.; Quintino, V.. "Bacterial communities associated with the decomposition of Fucus vesiculosus in transitional waters". Estuarine, Coastal and Shelf Science 110 (2012): 116-124. http://www.scopus.com/inward/record.url?eid=2-s2.0-84865334934&partnerID=MN8TOARS.
    10.1016/j.ecss.2012.04.003
  89. Pires, A.C.C.; Cleary, D.F.R.; Almeida, A.; Cunha, A.; Dealtry, S.; Mendonça-Hagler, L.C.S.; Smalla, K.; Gomes, N.C.M.. "Denaturing gradient gel electrophoresis and barcoded pyrosequencing reveal unprecedented archaeal diversity in mangrove sediment and rhizosphere samples". Applied and Environmental Microbiology 78 16 (2012): 5520-5528. http://www.scopus.com/inward/record.url?eid=2-s2.0-84866146323&partnerID=MN8TOARS.
    10.1128/AEM.00386-12
  90. Santos, Ana L.; Gomes, Newton C. M.; Henriques, Isabel; Almeida, Adelaide; Correia, Antonio; Cunha, Angela. "Contribution of reactive oxygen species to UV-B-induced damage in bacteria". Journal of Photochemistry and Photobiology B-Biology 117 (2012): 40-46.
    10.1016/j.jphotobiol.2012.08.016
  91. Santos, Luisa; Santos, Ana L.; Coelho, Francisco J. R. C.; Marcial Gomes, Newton C.; Dias, Joao Miguel; Cunha, Angela; Almeida, Adelaide. "Relation between bacterial activity in the surface microlayer and estuarine hydrodynamics". Fems Microbiology Ecology 77 3 (2011): 636-646.
    10.1111/j.1574-6941.2011.01147.x
  92. Gomes, Newton Cm; Cleary, Daniel Fr; Calado, Ricardo; Costa, Rodrigo. "Mangrove bacterial richness.". Communicative & integrative biology 4 4 (2011): 419-23.
    10.4161/cib.4.4.15253
  93. Tavares, Anabela; Dias, Sandra R. S.; Carvalho, Carla M. B.; Faustino, Maria A. F.; Tome, Joao P. C.; Neves, Maria G. P. M. S.; Tome, Augusto C.; et al. "Mechanisms of photodynamic inactivation of a Gram-negative recombinant bioluminescent bacterium by cationic porphyrins". Photochemical & Photobiological Sciences 10 10 (2011): 1659-1669.
    10.1039/c1pp05097d
  94. Costa, Liliana; Tome, Joao P. C.; Neves, Maria G. P. M. S.; Tome, Augusto C.; Cavaleiro, Jose A. S.; Faustino, Maria A. F.; Cunha, Angela; Gomes, Newton C. M.; Almeida, Adelaide. "Evaluation of resistance development and viability recovery by a non-enveloped virus after repeated cycles of aPDT". Antiviral Research 91 3 (2011): 278-282.
    10.1016/j.antiviral.2011.06.007
  95. Santos, A. L.; Lopes, S.; Baptista, I.; Henriques, I.; Gomes, N. C. M.; Almeida, A.; Correia, A.; Cunha, A.. "Diversity in UV sensitivity and recovery potential among bacterioneuston and bacterioplankton isolates". Letters in Applied Microbiology 52 4 (2011): 360-366.
    10.1111/j.1472-765X.2011.03011.x
  96. Alexandrino, Maria; Macias, Francisco; Costa, Rodrigo; Gomes, Newton C. M.; Canario, Adelino V. M.; Costa, Maria C.. "A bacterial consortium isolated from an Icelandic fumarole displays exceptionally high levels of sulfate reduction and metals resistance". Journal of Hazardous Materials 187 1-3 (2011): 362-370.
    10.1016/j.jhazmat.2011.01.035
  97. Baptista, I.; Luísa Santos, A.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Bacterial biomass production in an estuarine system: High variability of leucine conversion factors and changes in bacterial community structure during incubation". Aquatic Microbial Ecology 62 3 (2011): 299-310. http://www.scopus.com/inward/record.url?eid=2-s2.0-79956325300&partnerID=MN8TOARS.
    10.3354/ame01472
  98. Alves, E.; Faustino, M.A.F.; Tomé, J.P.C.; Neves, M.G.P.M.S.; Tomé, A.C.; Cavaleiro, J.A.S.; Cunha, A.; Gomes, N.C.M.; Almeida, A.. "Photodynamic antimicrobial chemotherapy in aquaculture: Photoinactivation studies of Vibrio fischeri". PLoS ONE 6 6 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-79959193585&partnerID=MN8TOARS.
    10.1371/journal.pone.0020970
  99. Gomes, M.C.; Woranovicz-Barreira, S.M.; Faustino, M.A.F.; Fernandes, R.; Neves, M.G.P.M.S.; Tomé, A.C.; Gomes, N.C.M.; et al. "Photodynamic inactivation of Penicillium chrysogenum conidia by cationic porphyrins". Photochemical and Photobiological Sciences 10 11 (2011): 1735-1743. http://www.scopus.com/inward/record.url?eid=2-s2.0-80455176460&partnerID=MN8TOARS.
    10.1039/c1pp05174a
  100. Santos, A.L.; Henriques, I.; Gomes, N.C.M.; Almeida, A.; Correia, A.; Cunha, A.. "Effects of ultraviolet radiation on the abundance, diversity and activity of bacterioneuston and bacterioplankton: Insights from microcosm studies". Aquatic Sciences 73 1 (2011): 63-77. http://www.scopus.com/inward/record.url?eid=2-s2.0-79251609461&partnerID=MN8TOARS.
    10.1007/s00027-010-0160-9
  101. Pereira, C.; Salvador, S.; Arrojado, C.; Silva, Y.; Santos, A.L.; Cunha, A.; Gomes, N.; Almeida, A.. "Evaluating seasonal dynamics of bacterial communities in marine fish aquaculture: A preliminary study before applying phage therapy". Journal of Environmental Monitoring 13 4 (2011): 1053-1058. http://www.scopus.com/inward/record.url?eid=2-s2.0-79953873702&partnerID=MN8TOARS.
    10.1039/c0em00434k
  102. Coelho, F.J.R.C.; Sousa, S.; Santos, L.; Santos, A.L.; Almeida, A.; Gomes, N.C.M.; Cunha, Â.. "Exploring hydrocarbonoclastic bacterial communities in the estuarine surface microlayer". Aquatic Microbial Ecology 64 2 (2011): 185-195. http://www.scopus.com/inward/record.url?eid=2-s2.0-84859063192&partnerID=MN8TOARS.
    10.3354/ame01526
  103. Arrojado, C.; Pereira, C.; Tomé, J.P.C.; Faustino, M.A.F.; Neves, M.G.P.M.S.; Tomé, A.C.; Cavaleiro, J.A.S.; et al. "Applicability of photodynamic antimicrobial chemotherapy as an alternative to inactivate fish pathogenic bacteria in aquaculture systems". Photochemical and Photobiological Sciences 10 10 (2011): 1691-1700. http://www.scopus.com/inward/record.url?eid=2-s2.0-80054001363&partnerID=MN8TOARS.
    10.1039/c1pp05129f
  104. Pereira, C.; Silva, Y.J.; Santos, A.L.; Cunha, Â.; Gomes, N.C.M.; Almeida, A.. "Bacteriophages with potential for inactivation of fish pathogenic bacteria: Survival, host specificity and effect on bacterial community structure". Marine Drugs 9 11 (2011): 2236-2255. http://www.scopus.com/inward/record.url?eid=2-s2.0-82655166474&partnerID=MN8TOARS.
    10.3390/md9112236
  105. Rocha, J.; Peixe, L.; Gomes, N.C.M.; Calado, R.. "Cnidarians as a source of new marine bioactive compounds - An overview of the last decade and future steps for bioprospecting". Marine Drugs 9 10 (2011): 1860-1886. http://www.scopus.com/inward/record.url?eid=2-s2.0-80054901242&partnerID=MN8TOARS.
    10.3390/md9101860
  106. Gomes, N. C. M.; Landi, L.; Smalla, K.; Nannipieri, P.; Brookes, P. C.; Renella, G.. "Effects of Cd- and Zn-enriched sewage sludge on soil bacterial and fungal communities". Ecotoxicology and Environmental Safety 73 6 (2010): 1255-1263.
    10.1016/j.ecoenv.2010.07.027
  107. Tavares, A.; Carvalho, C.M.B.; Faustino, M.A.; Neves, M.G.P.M.S.; Tomé, J.P.C.; Tomé, A.C.; Cavaleiro, J.A.S.; et al. "Antimicrobial photodynamic therapy: Study of bacterial recovery viability and potential development of resistance after treatment". Marine Drugs 8 1 (2010): 91-105. http://www.scopus.com/inward/record.url?eid=2-s2.0-76149106860&partnerID=MN8TOARS.
    10.3390/md8010091
  108. Oliveira, V.; Santos, A.L.; Coelho, F.; Gomes, N.C.M.; Silva, H.; Almeida, A.; Cunha, A.. "Effects of monospecific banks of salt marsh vegetation on sediment bacterial communities". Microbial Ecology 60 1 (2010): 167-179. http://www.scopus.com/inward/record.url?eid=2-s2.0-77955420482&partnerID=MN8TOARS.
    10.1007/s00248-010-9678-6
  109. Gomes, N.C.; Flocco, C.G.; Costa, R.; Junca, H.; Vilchez, R.; Pieper, D.H.; Krögerrecklenfort, E.; et al. "Mangrove microniches determine the structural and functional diversity of enriched petroleum hydrocarbon-degrading consortia". FEMS Microbiology Ecology 74 2 (2010): 276-290. http://www.scopus.com/inward/record.url?eid=2-s2.0-78649383108&partnerID=MN8TOARS.
    10.1111/j.1574-6941.2010.00962.x
  110. Gomes, N.C.M.; Cleary, D.F.R.; Pinto, F.N.; Egas, C.; Almeida, A.; Cunha, A.; Mendonça-Hagler, L.C.S.; Smalla, K.. "Taking root: Enduring effect of rhizosphere bacterial colonization in mangroves". PLoS ONE 5 11 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-78649519700&partnerID=MN8TOARS.
    10.1371/journal.pone.0014065
  111. Santos, A.L.; Mendes, C.; Gomes, N.C.M.; Henriques, I.; Correia, A.; Almeida, A.; Cunha, A.. "Short-term variability of abundance, diversity and activity of estuarine bacterioneuston and bacterioplankton". Journal of Plankton Research 31 12 (2009): 1545-1555. http://www.scopus.com/inward/record.url?eid=2-s2.0-70449625322&partnerID=MN8TOARS.
    10.1093/plankt/fbp083
  112. Flocco, C.G.; Gomes, N.C.M.; Mac Cormack, W.; Smalla, K.. "Occurrence and diversity of naphthalene dioxygenase genes in soil microbial communities from the Maritime Antarctic". Environmental Microbiology 11 3 (2009): 700-714. http://www.scopus.com/inward/record.url?eid=2-s2.0-61449162196&partnerID=MN8TOARS.
    10.1111/j.1462-2920.2008.01858.x
  113. Almeida, A.; Cunha, Â.; Gomes, N.C.M.; Alves, E.; Costa, L.; Faustino, M.A.F.. "Phage therapy and photodynamic therapy: Low environmental impact approaches to inactivate microorganisms in fish farming plants". Marine Drugs 7 3 (2009): 268-313. http://www.scopus.com/inward/record.url?eid=2-s2.0-70349585685&partnerID=MN8TOARS.
    10.3390/md7030268
  114. Weinert, N.; Meincke, R.; Gottwald, C.; Heuer, H.; Gomes, N.C.M.; Schloter, M.; Berg, G.; Smalla, K.. "Rhizosphere communities of genetically modified zeaxanthin-accumulating potato plants and their parent cultivar differ less than those of different potato cultivars". Applied and Environmental Microbiology 75 12 (2009): 3859-3865. http://www.scopus.com/inward/record.url?eid=2-s2.0-67149088390&partnerID=MN8TOARS.
    10.1128/AEM.00414-09
  115. Marcial Gomes, N.C.; Borges, L.R.; Paranhos, R.; Pinto, F.N.; Mendonça-Hagler, L.C.S.; Smalla, K.. "Exploring the diversity of bacterial communities in sediments of urban mangrove forests". FEMS Microbiology Ecology 66 1 (2008): 96-109. http://www.scopus.com/inward/record.url?eid=2-s2.0-51649087221&partnerID=MN8TOARS.
    10.1111/j.1574-6941.2008.00519.x
  116. Gomes, Newton C. Marcial; Borges, Ludmila R.; Paranhos, Rodolfo; Pinto, Fernando N.; Kroegerrecklenfort, Ellen; Mendonca-Hagler, Leda C. S.; Smalla, Kornelia. "Diversity of ndo genes in mangrove sediments exposed to different sources of polycyclic aromatic hydrocarbon pollution". Applied and Environmental Microbiology 73 22 (2007): 7392-7399.
    10.1128/AEM.01099-07
  117. Costa, R.; Gomes, N.C.M.; Krögerrecklenfort, E.; Opelt, K.; Berg, G.; Smalla, K.. "Pseudomonas community structure and antagonistic potential in the rhizosphere: Insights gained by combining phylogenetic and functional gene-based analyses". Environmental Microbiology 9 9 (2007): 2260-2273. http://www.scopus.com/inward/record.url?eid=2-s2.0-34547686154&partnerID=MN8TOARS.
    10.1111/j.1462-2920.2007.01340.x
  118. Binh, C.T.T.; Heuer, H.; Gomes, N.C.M.; Kotzerke, A.; Fulle, M.; Wilke, B.-M.; Schloter, M.; Smalla, K.. "Short-term effects of amoxicillin on bacterial communities in manured soil". FEMS Microbiology Ecology 62 3 (2007): 290-302. http://www.scopus.com/inward/record.url?eid=2-s2.0-35948933107&partnerID=MN8TOARS.
    10.1111/j.1574-6941.2007.00393.x
  119. Costa, Rodrigo; Gomes, Newton C. M.; Peixoto, Raquel S.; Rumjanek, Norma; Berg, Gabriele; Mendonca-Hagler, Leda C. S.; Smalla, Kornelia. "Diversity and antagonistic potential of Pseudomonas spp. associated to the rhizosphere of maize grown in a subtropical organic farm". Soil Biology & Biochemistry 38 8 (2006): 2434-2447.
    10.1016/j.soilbio.2006.03.003
  120. Oros-Sichler, M; Gomes, NCM; Neuber, G; Smalla, K. "A new semi-nested PCR protocol to amplify large 18S rRNA gene fragments for PCR-DGGE analysis of soil fungal communities". Journal of Microbiological Methods 65 1 (2006): 63-75.
    10.1016/j.mimet.2005.06.014
  121. Sousa, O.V.; Macrae, A.; Menezes, F.G.R.; Gomes, N.C.M.; Vieira, R.H.S.F.; Mendonça-Hagler, L.C.S.. "The impact of shrimp farming effluent on bacterial communities in mangrove waters, Ceará, Brazil". Marine Pollution Bulletin 52 12 (2006): 1725-1734. http://www.scopus.com/inward/record.url?eid=2-s2.0-33751407160&partnerID=MN8TOARS.
    10.1016/j.marpolbul.2006.07.006
  122. Götz, M.; Gomes, N.C.M.; Dratwinski, A.; Costa, R.; Berg, G.; Peixoto, R.; Mendonça-Hagler, L.; Smalla, K.. "Survival of gfp-tagged antagonistic bacteria in the rhizosphere of tomato plants and their effects on the indigenous bacterial community". FEMS Microbiology Ecology 56 2 (2006): 207-218. http://www.scopus.com/inward/record.url?eid=2-s2.0-33646014149&partnerID=MN8TOARS.
    10.1111/j.1574-6941.2006.00093.x
  123. Gomes, NCM; Kosheleva, IA; Abraham, WR; Smalla, K. "Effects of the inoculant strain Pseudomonas putida KT2442 (pNF142) and of naphthalene contamination on the soil bacterial community". Fems Microbiology Ecology 54 1 (2005): 21-33.
    10.1016/j.femsec.2005.02.005
  124. Souza-Fagundes, EM; Rosa, LH; Gomes, NCM; Santos, MH; Pimentel, PF. "Thiocyanate degradation by pure and mixed cultures of microorganisms". Brazilian Journal of Microbiology 35 4 (2004): 333-336.
    10.1590/S1517-83822004000300012
  125. Costa, R.; Gomes, N.C.M.; Milling, A.; Smalla, K.. "An optimized protocol for simultaneous extraction of DNA and RNA from soils". Brazilian Journal of Microbiology 35 3 (2004): 230-234. http://www.scopus.com/inward/record.url?eid=2-s2.0-19944409539&partnerID=MN8TOARS.
  126. Marcial Gomes, N.C.; Fagbola, O.; Costa, R.; Gouvea Rumjanek, N.; Buchner, A.; Mendona-Hagler, L.; Smalla, K.. "Dynamics of fungal communities in bulk and maize rhizosphere soil in the tropics". Applied and Environmental Microbiology 69 7 (2003): 3758-3766. http://www.scopus.com/inward/record.url?eid=2-s2.0-0038493638&partnerID=MN8TOARS.
    10.1128/AEM.69.7.3758-3766.2003
  127. Gomes, N.C.M.; Rosa, C.A.; Pimentel, P.F.; Mendonça-Hagler, L.C.S.. "Uptake of free and complexed silver ions by different strains of Rhodotorula mucilaginosa". Brazilian Journal of Microbiology 33 1 (2002): 62-66. http://www.scopus.com/inward/record.url?eid=2-s2.0-14844304521&partnerID=MN8TOARS.
  128. Gomes, N.C.M.; Heuer, H.; Schönfeld, J.; Costa, R.; Mendonça-Hagler, L.; Smalla, K.. "Bacterial diversity of the rhizosphere of maize (Zea mays) grown in tropical soil studied by temperature gradient gel electrophoresis". Plant and Soil 232 1-2 (2001): 167-180. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034948012&partnerID=MN8TOARS.
    10.1023/A:1010350406708
  129. Dias, M.A.; Castro, H.F.; Pimentel, P.F.; Gomes, N.C.M.; Rosa, C.A.; Linardi, V.R.. "Removal of heavy metals from stainless steel effluents by waste biomass from Brazilian alcoholic beverage production". World Journal of Microbiology and Biotechnology 16 1 (2000): 107-108. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034060482&partnerID=MN8TOARS.
    10.1023/A:1008976206629
  130. Gomes, NCM; Figueira, MM; Camargos, ERS; Mendonca-Hagler, LCS; Dias, JCT; Linardi, VR. "Cyano-metal complexes uptake by Aspergillus niger". Biotechnology Letters 21 6 (1999): 487-490.
    10.1023/A:1005531818539
  131. Gomes, N.C.M.; Rosa, C.A.; Pimentel, P.F.; Linardi, V.R.; Mendonça-Hagler, L.C.S.. "Uptake of free and complexed silver ions by yeasts isolated from a gold mining industry in Brazil". Journal of General and Applied Microbiology 45 3 (1999): 121-124. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033378356&partnerID=MN8TOARS.
  132. Brandão, R.L.; Castro, I.M.; Bambirra, E.A.; Amaral, S.C.; Fietto, L.G.; Tropia, M.J.M.; Neves, M.J.; et al. "Intracellular signal triggered by cholera toxin in Saccharomyces boulardii and Saccharomyces cerevisiae". Applied and Environmental Microbiology 64 2 (1998): 564-568. http://www.scopus.com/inward/record.url?eid=2-s2.0-0031938213&partnerID=MN8TOARS.
  133. Gomes, N.C.M.; Camargos, E.R.S.; Dias, J.C.T.; Linardi, V.R.. "Short note: Gold and silver accumulation by Aspergillus niger from cyanide-containing solution obtained from the gold mining industry". World Journal of Microbiology and Biotechnology 14 1 (1998): http://www.scopus.com/inward/record.url?eid=2-s2.0-0031911523&partnerID=MN8TOARS.
    10.1023/A:1008805423811
  134. Gomes, N.C.M.; Mendonça-Hagler, L.C.S.; Savvaidis, I.. "Metal bioremediation by microorganisms". Revista de Microbiologia 29 2 (1998): 85-92. http://www.scopus.com/inward/record.url?eid=2-s2.0-0032469099&partnerID=MN8TOARS.
  135. Gomes, N.C.M.; Linardi, V.R.. "Removal of gold, silver and copper by living and nonliving fungi from leach liquor obtained from the gold mining industry". Revista de Microbiologia 27 4 (1996): 218-222. http://www.scopus.com/inward/record.url?eid=2-s2.0-0001658634&partnerID=MN8TOARS.
  136. Linardi, V.R.; Amancio, M.C.; Gomes, N.C.M.. "Maintenance of Rhodotorula rubra isolated from liquid samples of gold mine effluents". Folia Microbiologica 40 5 (1995): 487-489. http://www.scopus.com/inward/record.url?eid=2-s2.0-51249169090&partnerID=MN8TOARS.
    10.1007/BF02814728
  137. Rosa, C.A.; Hagler, A.N.; Mendonça-Hagler, L.C.S.; de Morais, P.B.; Gomes, N.C.M.; Monteiro, R.F.. "Clavispora opuntiae and other yeasts associated with the moth Sigelgaita sp. in the cactus Pilosocereus arrabidae of Rio de Janeiro, Brazil". Antonie van Leeuwenhoek 62 4 (1992): 267-272. http://www.scopus.com/inward/record.url?eid=2-s2.0-0027080421&partnerID=MN8TOARS.
    10.1007/BF00572594

Intellectual property

Patent
  1. Gomes, NCM; Oliveira, V.J.; Coelho, F.J.R.C.; dos Santos, A.R.L.. 2017. "A portable device, a method to read authentication labels and their uses".
  2. Gomes, NCM. 2014. "Molecular label containing DNA molecules and process for marking and identifying the label".
  3. Rocha, S.M.; Costa, V.; Ferreira, J.; Almeida, A.; Cunha, A.; Gomes, N.C.M.; Stein, P.; Petronilho, S.; Baptista, I.. 2010. "Equipment and flow extraction process of biological and chemical contaminants".
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2019/05 Humic acid modulates bacterioplankton and fish microbiome in a recirculating aquaculture system (RAS). 5th Symposium on Bacterial Genetics and Ecology (BAGECO15)
(Lisbon, Portugal)
2018/10/03 The Researchers' Perspective: Patenting, the best way to protect knowledge? Lunch debate on Intellectual Property in the area of Materials.
University of Aveiro (Aveiro, Portugal)
2018/08 Fish-microbe interactions and aquaculture sustainability. 17th International Symposium on Microbial Ecology (ISME17)
(Leipzig, Germany)
2018/03 Environmental microbiology: from basic ecology to biotechnology. Center for Neuroscience and Cell Biology Seminars.
University of Coimbra. BIOCANT Biotechnology Park (Cantanhede, Portugal)
2018/02 Research in environmental microbiology and development of biotechnology product. Oceanus Seminar Series.
Interdisciplinary Centre of Marine and Environmental Research (CIIMAR) - University of Porto (Matosinhos, Portugal)
2017/06 Metagenomics and Biotechnology: practical cases and opportunities. Seminar in Metagenomic.
BIOCANT Biotechnology Park (Cantanhede, Portugal)
2017/05 Invited scientist-entrepreneur for a Round Table Discussions in NOE - SHARE KNOWLEDGE - 2017 NOE- Share Knowledge
University of Aveiro (Aveiro, Portugal)
2017/03 Marine Biotechnology: practical cases and opportunities - Blue Biotechnology. III Bioengineering Week at Higher Technical Institute (SBE IST).
Technical University of Lisbon (Lisboa, Portugal)
2017/03 Marine Biotechnology: practical cases and opportunities - Blue Biotechnology. III Bioengineering Week at Higher Technical Institute (SBE IST) Blue Biotechnology. III Bioengineering Week at Higher Technical Institute (SBE IST)
Technical University of Lisbon (Lisbon, Portugal)
2017/01 DNA TRUSTAG. Workshop “Contributions of CESAM to the intelligent valorisation of the sea” Workshop “Contributions of CESAM to the intelligent valorisation of the sea”
University of Aveiro (A, Portugal)
2016/12 The Aquaculture microbiome – integrating microbial ecological principles into aquaculture management. 1 st Advanced Seminars in Microbial Ecology Symbioses, biotechnology and industry in a changing climate. International Society for Microbial Ecology (ISME) Ambassador Programme
Higher Technical Institute of the Technical University of Lisbon (Lisboa, Portugal)
2016 Analysis of next-generation DNA sequencing data of microbial communities from marine environments Workshop "ARGUS & Environmental Modeling”
University of Aveiro (A, Portugal)
2016 DNA TRUSTAG-taking DNA beyond genetics The 2nd Sino-Portugal Advanced Materials Innovation Forum
University of Aveiro (A, Portugal)
2015 DNA codes for brands AtUAliza-te Marketing Conference (innovation panel)
University of Aveiro (A, Portugal)
2015 The role of universities in entrepreneurship development Brokerage Event INESPOII - Innovation Network Spain-Portugal
(Coimbra, Portugal)
2014 Synergistic effects of global climate change and oil pollution on estuarine sediment bacterial communities FEMS Microbiology Congress
(Liepzig, Germany)
2012 II Course on Entrepreneurship and Innovation in Biotechnology
State University of Santa Cruz (Ilhéus, Brazil)
2012 Seminar on Molecular studies of marine environments Post-graduation Program of biology and biotechnology of microorganisms
State University of Santa Cruz (Ilhéus, Brazil)
2011 Metagenomics Discipline of Genome Biology. Department of Biology
University of Aveiro (A, Portugal)
2009 Rhizosphere microbiology 1st Workshop of the Joint Doctoral Programme in Plant Biology – BioPLant
(Porto, Portugal)
2009 Rhizosphere Microbial Communities in Polluted Urban Mangroves: insights gained by massively parallel pyrosequencing Interdisciplinary Symposium: Biological responses to chemical contaminants: from molecular to community level
University of Aveiro (Aveiro, Portugal)
2008 Mangrove rhizosphere effect on bacterial communities inhabiting intertidal marine sediments Symposium of Biology Students in Europe (SymBioSE)
University of Aveiro (Aveiro, Portugal)
2008 Effects of hydrocarbon pollution on bacterial communities inhabiting mangrove sediments . International course on molecular methods to study complex microbial communities (1st MCoMIC)
(Aveiro, Portugal)
2008 Hydrocarbon pollution in urban mangroves: recent insights gained by molecular analysis of microbial communities VII Simposium of Post-graduation. Department of Biology
University of Aveiro (Aveiro, Portugal)
2004 Effect of naphthalene contamination and Pseudomonas putida strain KT2442 (pNF142) on the soil microbes. 9 th National Meeting of Environmental Microbiology (ENAMA)
(Curitiba, Brazil)
2002 Dynamics of fungal communities in the rhizosphere of maize grown in tropical soils. BIOspektrum 2002. Jahrestagung VAAM.
(Göttingen, Germany)
2002 Fungi population dynamics in the rhizosphere of maize determined by a cultivation-independent method. 8th National Meeting on Environmental Microbiology (ENAMA)
(Rio de Janeiro, Brazil)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2019 - Current Composition and function of benthic prokaryotic communities in tropical coral reef environments.
Supervisor
Universidade de Aveiro, Portugal
2017 - Current Sponge Microbes in a Changing World (Postdoc Supervision)
Co-supervisor of Ana Rita Moura Polónia
Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2017 - Current Assessing the ecology and function of plasmid assemblages in microbial symbionts of giant barrel sponge Xestospongia testudinaria.
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2015 - Current Cork oak microbiome: Deciphering the rhizosphere microbial community of Quercus suber
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2019 - 2021 Exploring the potential of microbes for modulating aquaculture bacterioplankton.
Supervisor
 Microbiologia (Master)
Universidade de Aveiro, Portugal
2014 - 2019 The impact of ocean acidification on oil hydrocarbon detoxification in coastal systems (Postdoc Supervision)
Supervisor
Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2013 - 2019 Molecular microbial community analyses of mangroves – Ecosystem health and Function
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2015 - 2018 Evaluation of the synergistic effects caused by global climate change and environmental pollution on bacterial plasmid diversity in marine demosponges inhabiting Portuguese estuaries: ecological and biotechnological implications (Postdoc Supervision)
Supervisor
Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
2013 - 2018 Molecular Microbiology in Aquaculture: the search of a healthy microbial community
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2013 - 2018 Bioengeneering bacterial communities from the sea surface microlayer to enhance oil hydrocarbon decontamination in marine environments
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2013 - 2018 Biosurfactant producing and hydrocarbon degrading anaerobic bacteria in designed consortia for oil bioremediation
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2016 - 2017 Endogenous plasmid isolation and evaluation of the biotechnological potential of sponge-associated bacteria
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2012 - 2016 Molecular analysis of microeukaryotic communities in intensive aquaculture systems
Supervisor
Universidade Estadual de Santa Cruz Departamento de Ciências Biológicas, Brazil
2011 - 2016 Molecular characterization of microbial communities in aquaculture
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2009 - 2015 Temporal and spatial variation in the microbial biota of sea anemones in the Portuguese coast - natural vs. abnormal shifts induced by global changes and its relevance for the screening of new marine drugs
Co-supervisor
Universidade do Porto, Portugal
2008 - 2015 Phytoremediation of Uranium in a Mining Area. (Postdoc Supervision)
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2013 - 2014 Contribution to the Study of Cod Gadus morhua
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2013 - 2014 Dynamic of estuarine prokaryotic communities and the Nitrogen cycle
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2013 - 2014 Combined effects of Ultraviolet radiation and xenobiotics on zebrafish
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2010 - 2014 Phage therapy, as a low environmental impact alternative to inactive pathogenic bacteria in fish-farming plants
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2008 - 2014 Marine surface microlayer as a source of viruses
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2008 - 2014 Microbe-mediated recovery of PAH contaminated estuarine ecosystems
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2012 - 2013 Detection of Photobacterium damselae ssp. piscicida and Photobacterium damselae ssp. damselae using the technique loop mediated isothermal amplification (LAMP)
Supervisor
Universidade de Aveiro Departamento de Química, Portugal
2012 - 2013 Bacteria, archaea and genes encoding for proteorhodopsins in the bacterioneuston
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2012 - 2013 Molecular characterization of bacterial skin communities from codfish
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2012 - 2013 Bacterial pathogens in aquaculture
Supervisor
Universidade de Aveiro Departamento de Ambiente e Ordenamento, Portugal
2012 - 2013 Sandwich Hibridization Assay (SHA) for detection of fungi in food samples
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2008 - 2013 Synergistic effects of global change and environmental pollution on estuarine microbial communities
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2008 - 2013 Clonal production of coral nubbins - the sustainable approach to use endangered species in marine biotechnology research
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2011 - 2012 Optimal sample size for assessing bacterioneuston structural diversity
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2011 - 2012 Isolation and Characterization of Hydrocarbonoclastic Biosurfactant producing Bacteria from Aveiro’s Estuarine system
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2010 - 2012 Study of the effect of ocean acidification on sediment micro-eukaryote communities using next generation sequencing
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2010 - 2011 Isolation and characterization of bacterial isolates resistant to surfactants
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2010 - 2011 Mangrove rhizosphere effect on sediment Archael communities
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2009 - 2011 Enteric Virus detection in human feces and waste water
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2009 - 2011 Impact of organic and inorganic nanomaterials in the soil microbial community structure
Co-supervisor
Universidade de Aveiro Departamento de Biologia, Portugal
2008 - 2009 The effects of fire on soil plant dynamics in forests, a review
Supervisor
Universidade de Aveiro Departamento de Biologia, Portugal

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2016 - Current Co-chair of the 1 st Advanced Seminars in Microbial Ecology Symbioses, biotechnology and industry in a changing climate. A workshop sponsored by the International Society for Microbial Ecology (ISME) Ambassador Programme at Higher Technical Institute of the Technical University of Lisbon, Lisbon (Portugal). December 16, 2016 (2016)
Workshop
2015 - Current Organizer of the Mini-Workshop Project AquaSafe - Development of new technologies for early detection of outbreaks and rapid diagnosis of diseases in aquaculture. Department of Biology, University of Aveiro (Aveiro, Portugal). November 25, 2015. (2015)
Workshop
2019 - 2019 Co-chair of the 15th Symposium on Bacterial Genetics and Ecology (BAGECO 15). "Ecosystem drivers in a changing planet". Lisbon, Portugal. (2019 - 2019)
Symposium (Co-organisor)
2018 - 2018 Convenor and Chair of the session Symbiosis (symbionts) in the 17th International Symposium on Microbial Ecology (ISME17). Leipzig, Germany. (2018 - 2018)
Symposium (Other)

Jury of academic degree

Topic
Role 		Candidate name (Type of degree)
Institution / Organization
2020 From genes to nutrition: lipid metabolism in the Brazilian teleost tambaqui (Colossoma macropomum).
(Thesis) Arguer
 Renato Barbosa Ferraz (PhD)
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2019 Insights into arsenolipids metabolism: from the model organism Mytilus galloprovincialis.
(Thesis) Arguer
 Fabiana Encarnação Pinto Freitas (PhD)
Universidade de Aveiro, Portugal
2018 Seaweeds as functional aquafeed ingredients: Modulation of nutrient metabolism and stress responsiveness in aquaculture species .
(Thesis) Main arguer
 Maria João Dias Peixoto (PhD)
Universidade do Porto, Portugal
2018 Metagenomics and functional genomics of bacterial symbionts of Spongia (Porifera, Dictyoceratida) specimens from the Algarvian shore (South Portugal).
(Thesis) Main arguer
 Elham Karimi (PhD)
Universidade do Algarve Faculdade de Ciências e Tecnologia, Portugal
2017 Arctic microbiome and N-functions during the winter-spring transition
(Thesis) Main arguer
 António Gaspar Gonçalves Sousa (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2017 Endogenous plasmid isolation and evaluation of the biotechnological potential of sponge-associated bacteria
Supervisor
 Daniel Boer Bonifácio (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2016 Contribution to the study of the application of commercial probiotics in aquaculture. Its use in the cultivation of species of commercial interest
(Thesis) Main arguer
 Maria Amélia Moreira da Silva Diegues Ramos (PhD)
Universidade de Trás-os-Montes e Alto Douro Escola de Ciências Agrárias e Veterinárias, Portugal
2016 Molecular characterization of microbial communities in aquaculture
Supervisor
 Patrícia Tavares (PhD)
Universidade de Aveiro Departamento de Biologia, Portugal
2014 Microbiome diversity and composition in the phylogenetic related marine sponges Sarcotragus spinosulus and Ircinia variabilis Cristiane Cassiolato Pires Hardoim (PhD)
Universidade do Algarve Centro de Investigação Marinha e Ambiental, Portugal
2014 Contribution to the Study of Cod Gadus morhua Fernando José Duarte Fernandes (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2014 Dynamic of estuarine prokaryotic communities and the Nitrogen cycle Maria Rovisco Correia Gonçalves Monteiro (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2014 Combined effects of Ultraviolet radiation and xenobiotics onzebrafish Ana Rita Marques Almeida (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2013 UV-induced stress in bacterioneuston: mechanisms and ecological implications Ana Luisa Santos (PhD)
Universidade de Aveiro Departamento de Biologia, Portugal
2013 Synergistic effects of global change and environmental pollution on estuarine microbial communities Francisco José Riso Da Costa Coelho (PhD)
Universidade de Aveiro Departamento de Biologia, Portugal
2013 Clonal production of coral nubbins - the sustainable approach to use endangered species in marine biotechnology research Rui Jorge Fernandes Miranda Rocha (PhD)
Universidade de Aveiro Departamento de Biologia, Portugal
2013 Detection of Photobacterium damselae ssp. piscicida and Photobacterium damselae ssp. damselae using the technique loop mediated isothermal amplification (LAMP) Soraia Andreia Coelho Mascarenhas (Master)
Universidade de Aveiro Departamento de Química, Portugal
2012 Diversity and structure of bacterial communities of environments contaminated with oil Ana Cácia Freire dos Santos (PhD)
Universidade Estadual de Santa Cruz, Brazil
2012 Bacteria, Archaea and genes of proteorhodopsin in estuarine neuston Veronika Lykoholat (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2012 The soil microbiome: influence of the phytosanitary state of cork oak Diogo Figueiredo Pinho (Master)
Universidade de Aveiro Departamento de Química, Portugal
2011 Response of microbial communities to hydrocarbon contamination in beaches affected by oil spills Izabela Luiza Reis (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2011 Effects of Metals in Fraxinus angustifolia and its endophytic community Jorge Nuno Martins Campos Pinheiro (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2009 Gene Expression of Gase, GSase and GDH in Misgurnus anguillicaudatus Alexandre Felipe Leitão (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2009 In-situ decomposition of Phragmites australis: bacterial communities Patrícia Tavares Martins (Master)
Universidade de Aveiro Departamento de Biologia, Portugal
2009 Importance of nitrogen-fixing bacteria in the rhizosphere of halophytes Nádia Isabel Almeida Osório (Master)
Universidade de Aveiro Departamento de Biologia, Portugal

Association member

Society Organization name Role
2020 - Current Founder and promoter of Innercore Microbiome a spin-off company of CESAM/University of Aveiro. Founder and promoter
2017/02 - Current Member of the Mentall® mentor network for entrepreneurship of the Technology Transfer Unit of the University of Aveiro (UATEC). MentAll® is a mentoring network created by UATEC, whose main objectives are to support and consolidate entrepreneurial initiatives and encourage knowledge share between entrepreneurs and mentors.
2016 - Current Advisory Council Member of Broto Biotechnology Incubator. A bi-institutional incubator of State University of Santa Cruz (UESC) and State University of Feira de Santana (UEFS), Brazil (http://www.brotobiotec.com.br) Advisory Council Member
2013 - Current Promoter/Facilitator of the Sea Technology Platform of University of Aveiro (http://www.ua.pt/ptmar/).This multidisciplinary platform integrates the vast knowledge available at the University of Aveiro in Marine Sciences and Technologies, with the aim to facilitate its transfer to the industry, government and the private sector in an integrated way.
2009 - Current Promoter of the business project ´´FishCare``. The project was awarded in 2010 with the Portuguese Innovation Prize (BES prize 2009 - Portugal) with the best business plan in the category of Ocean Economy.
2016 - 2018 Founder and promoter of DNA TRUSTAG a spin-off company of CESAM/University of Aveiro.

Committee member

Activity description
Role 		Institution / Organization
2020 - Current Member of the directive board of the Master course in Applied Marine Biology (MAMB).
Member
 Universidade de Aveiro, Portugal
2011 - 2011 Organizing Committee of the Jornadas da Ria de Aveiro 2011: Science and Technology, Socioeconomics, Planning and Management.
Member
 Universidade de Aveiro, Portugal

Consulting

Activity description Institution / Organization
2017 - 2018 Service for DNA tag compatibility tests. Service provided to evaluate the technology developed in my group -Molecular label containing DNA molecules and process for marking and identifying the label. Universidade de Aveiro, Portugal
2013 - 2014 Consulting activities and a technical report. Evaluation of Microbial community composition and detection of bacterial pathogens in a recirculating aquaculture system (RAS) - Safiestela - Sustainable Aqua Farming Investments, Lda., Portugal.
2011 - 2011 Technical report on the contamination of frozen shellfish with Vibrio provided to the company Friopesca - Refrigeração de Aveiro, S.A., Portugal

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2010 - 2017 Teaching classes TP. Discipline: Applied and Environmental Microbiology (code - 40896) Universidade de Aveiro, Portugal
2012 - 2016 Teaching the discipline Applied Environmental Microbiology (With focus on Bio-Entrepreneurship) Post-graduation Program of Biology and Biotechnology of Microorganisms (Postgraduate Certificate) Universidade Estadual de Santa Cruz Departamento de Ciências Biológicas, Brazil
2005 - 2005 Participation in the discipline Special Topics in Vegetal Biotechnology (Mini Symposium in New Approaches for Molecular Microbial Ecology) (Visiting Professor) Universidade Federal do Rio de Janeiro, Brazil
2004 - 2004 Participation in the discipline for the Post-Graduation Microbial Ecology and Environmental Microbiology IMG 703-2 Credits (Visiting Professor) (Postgraduate Certificate) Universidade Federal do Rio de Janeiro, Brazil
2003 - 2003 Participation in the discipline Special Topics in Vegetal Biotechnology (molecular microbial ecology) (Visiting Professor) (Postgraduate Certificate) Universidade Federal do Rio de Janeiro, Brazil
1998 - 1998 Teaching activities in the course Biometallurgy and Biodegradation. 20 hours during the period 14-18/12/1998 Pontifícia Universidade Católica de Minas Gerais, Brazil

Evaluation committee

Activity description
Role 		Institution / Organization Funding entity
2020 - 2020 Expert evaluator for the NordForsk.
Evaluator
 Nordforsk
2019 - 2019 Expert evaluator for the European Commission, Horizon2020 frame work Programm (H2020).
Evaluator
 EC - European Commission
2018 - 2018 Expert evaluator for the European Commission, Horizon2020 frame work Programm (H2020).
Evaluator
 EC - European Commission
2016 - 2016 Reviewer for the Swiss National Science Foundation (SNSF), Div. Mathematics, Physical and Engineering Sciences (Berne, Switzerland).
Evaluator
 Schweizerischer Nationalfonds zur Förderung der wissenschaftlichen Forschung
2016 - 2016 Reviewer for the French National Research Agency (ANR). Call "Functioning of fluid and solid Earth" (Paris, France)
Evaluator
 Agence nationale de la recherche
2015 - 2015 Reviewer for the Swiss National Science Foundation (SNSF), Div. Mathematics, Physical and Engineering Sciences (Berne, Switzerland)
Evaluator
 Schweizerischer Nationalfonds zur Förderung der wissenschaftlichen Forschung
2015 - 2015 Reviewer for the International Foundation for Science (IFS) (Stockholm, Sweden)
Evaluator
 International Foundation for Science
2013 - 2013 Reviewer for the University of Puerto Rico's Sea Grant College Program (UPR Sea Grant) (Mayagüez, Puerto Rico).
Evaluator
 Universidad de Puerto Rico

Journal scientific committee

Journal title (ISSN) Publisher
2009 - Current Revista Captar
2013 - 2017 Plos One

Mentoring / Tutoring

Topic Student name
2014 - 2015 Mentoring and coaching of entrepreneurial start-up project. Hélder Gomes and Daniela Fonseca
2013 - 2014 Mentoring and coaching of entrepreneurial start-up project. Vanessa Oliveira
2013 - 2014 Mentoring and coaching of entrepreneurial start-up project. Francisco José Riso da Costa Coelho
Distinctions

Award

2017 Seal of Excellence, SME Instrument Phase 2 - EU Framework Programme for Research and Innovation (Horizon 2020). Award granted by the European Commission to the project proposal DNA TRUSTAG.
European Commission, Belgium
2016 Seal of Excellence, SME Instrument Phase 1 - EU Framework Programme for Research and Innovation (Horizon 2020). Award granted by the European Commission to the project proposal DNA TRUSTAG.
European Commission, Belgium
2014 PROVE IT - Finantial support for development of a prototype
Universidade de Aveiro, Portugal
2014 Prototype awarded - I Transfrontier Contest for Prototypes Oriented to the Market (Prototransfer-INESPO II))
Universidade de Aveiro, Portugal
2011 Prize SPME 2011, 2ª edition of the best work in SPME in 2011 with the study “Can volatile organic metabolites be used to simultaneously assess microbial and mite contamination level of cereal grains and coffee beans”
Congresso Nacional de Cromatografia da Sociedade Portuguesa de Química, Portugal
2010 Business plan of ´´FishCare``. Awarded with National Innovation Prize (BES prize - Portugal) with the best Business Plan in the category of Ocean Economy. Portugal.
Banco Espírito Santo e Comercial de Lisboa, Portugal
2009 1º Award for best business idea of the University of Aveiro
Universidade de Aveiro, Portugal
2009 1º prize - Best value proposal of the University of Aveiro with the business project “FishCare - integrated system for aquaculture monitoring and water treatment”
16 business mentors in the scope of the 4th Technological-based Entrepreneurship Course (CEBT09) , Portugal
2004 Poster Award for the study “Survival of GFP-tagged antagonistic bacteria in the rhizosphere of tomato plants”

Other distinction

2015 University of Aveiro - 40 Years 40 Inventors 40 Entrepreneurs. Publication recognizing the work of 40 inventors and entrepreneurs from University of Aveiro in the last 40 years.
Universidade de Aveiro, Portugal