Book Chapters
Coelho P, Farinhó M, Alabaça C, Sousa N, Carlier J, Leitão J, Monteiro A. (2011) Caracterização genética e molecular da resistência ao míldio na couve-brócolo. In: Santos Pereira L, de Varennes A, Oliveira C, Ferreira-Dias S (Eds.) Engenharia dos Biossistemas: Cem anos de investigação no centenário do ISA. Edições Colibri (Extra-colecção) e CEER, Lisboa. pp. 271-274
Carlier JD, Coppens d’Eeckenbrugge G, Leitão JM (2007) Pineapple. In: Kole C (ed) Genome Mapping & Molecular Breeding Vol. IV. Springer, Heidelberg, Germany. pp. 331-342
Peer-Reviewed International Papers in proceedings of international congresses
Nobahar A, Melka AB, Carlier JD, Costa MC (2021) Solvent Extraction to Recover Copper from Extreme Acid Mine Drainage. In Proceedings of the 14th IMWA Congress – “Mine Water Management for Future Generations”, 12–15 July, Cymru, Wales. Stanley P, Wolkersdorfer C, Wolkersdorfer K (Editors). Pp 406-411. https://www.imwa.info/docs/imwa_2021/IMWA2021_Nobahar_406.pdf
Carlier JD, Sathityatiwati S, Melka AB, Miguel MG, Lourenço JP, Nogueira CA, Paiva AP, Costa MC (2019b) Combining Chemical and Biological Strategies for the recovery of metals from metas bearing wastewaters (METALCHEMBIO). In Proceedings of the 17th International Waste Management and Landfill Symposium, 29 September-5 October, Forte Village, Santa Margherita di Pula, Sardinia, Italy. 18pp. https://www.tuhh.de/iue/iwwg/infos-materials/conference-proceedings/sardinia-2019.html
Carlier J, Alabaça C, Rodrigues C and Leitão J (2013) On the Way to the Identification of a Downy Mildew Resistance Gene in Brassica oleracea L. Acta Horticulturae (ISHS). Acta Horticulturae (ISHS). 1005: 233-237. https://doi.org/10.17660/ActaHortic.2013.1005.25
Carlier J, Cabrita L, Sousa RM, Sousa AT and Leitão J (2011) ISSR and AFLP Characterization of Phomopsis amygdali ((Del.)) Tuset & Portilla Accessions. Acta Horticulturae (ISHS). 912: 645-650. https://doi.org/10.17660/ActaHortic.2011.912.97
Apostolova E, Carlier J, leitão J and Svetleva D (2008) Identification of RAPD markers linked to the Fin and P loci in Phaseolus vulgaris L. Acta Horticulturae (ISHS). 830: 101-106. https://doi.org/10.17660/ActaHortic.2009.830.12
Carlier JD, Nancheva D, Coppens d’Eeckenbrugge G, Leitão JM (2006) Genetic mapping of DNA markers in pineapple. Acta Horticulturae (ISHS). 702: 79-86. https://doi.org/10.17660/ActaHortic.2006.702.9
Coppens d´Eeckenbrugge G, Cabral JRS, de Matos AP, Carlier J, Leitão J, Duval MF, Noyer JL, Ferreira FR, Leal F, Maggioni L, Suárez Z (2005) Main results from the EU-FUNDED Project “Evaluation and utilization of pineapple genetic resources from the Amazon to breed resistant varieties”. Acta Horticulturae (ISHS). 666: 77-82. https://doi.org/10.17660/ActaHortic.2005.666.7
Leitão JM, Elisiário PJ, Cabrita LF, Justo EM, Pereira GM, Carlier JD, Farinhó MJ (2000) Molecular markers in genetic variability assessment, cultivar fingerprinting and hybrid identification in fruits and vegetables. Acta Horticulturae (ISHS). 521: 185-192. https://doi.org/10.17660/ActaHortic.2000.521.20
Coppens d’ Eeckenbrugge G, Cabral JRS, Carlier J, Duval MF, Ferreira FR, Leal F, Leitão J, Matos Apde, Noyer JL, Suárez Z (2000) The EU-funded project “Evaluation and utilization of pineapple genetic resources from the Amazon to breed resistant varieties”. Acta Horticulturae (ISHS). 529: 169-174. https://doi.org/10.17660/ActaHortic.2000.529.20
DNA Sequences in public data bases
genes zntR and 16S rRNA of Serratia marcescens CCMA 1010 published in the NCBI GenBank with assessment codes MH844628 and ON454114, respectively. https://www.ncbi.nlm.nih.gov/nuccore/?term=carlier+Serratia+marcescens
297826 partial sequences (reads) of the 16S rRNA gene sequenced by Next Generation Sequencing for taxonomic studies of bacterial communities in 9 water samples from water bodies contaminated with acid mine drainage in the São Domingos mining area, published at the NCBI Sequence Read Archive (SRA). https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA472343
443835 partial sequences (reads) of the 16S rRNA gene sequenced by Next Generation Sequencing for taxonomic studies of bacterial communities from batch tests using a mineral salt medium with 50 mg/L paracetamol as the only carbon source inoculated with 10% (v/v) of WWTP oxidation ditch sludge, in which high removal rates of this drug were observed, published at the NCBI Sequence Read Archive (SRA). https://www.ncbi.nlm.nih.gov/bioproject/PRJNA418409/
100949 partial sequences (reads) of the 16S rRNA gene sequenced by Next Generation Sequencing for taxonomic studies of bacterial communities from batch tests using Olive Mill Wastewaters as carbon source for Sulphate Reducing Bacteria (SRB) in the treatment of Acid Mine Drainage (AMD), published at the NCBI Sequence Read Archive (SRA). http://www.ncbi.nlm.nih.gov/bioproject/PRJNA304303/
264 16S rRNA gene OTUs for taxonomic studies of bacteria from anaerobic bioreactors. URL: http://www.ncbi.nlm.nih.gov/nuccore/?term=Uncultured+bacterium+clone+Carlier+Martins
34 sequences of cloned 16S rRNA gene amplicons obtained for taxonomic studies of palladium(II) removal bacteria (GenBank accession numbers KT452863 to KT452896) http://www.ncbi.nlm.nih.gov/nuccore/?term=Carlier+palladium
198856 Arbutus unedo Restriction-Site Associated DNA (RAD) fragments sequenced by Next Generation Sequencing, published at the NCBI Sequence Read Archive (SRA) http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=viewer&m=data&s=viewer&run=SRR959291
1085 Arbutus unedo microsatellite sequences published at NCBI data bases. URL: http://www.ncbi.nlm.nih.gov/nuccore/?term=arbutus+unedo+microsatellite+carlier
414 Pisum sativum microsatellite sequences published at NCBI data bases. URL: http://www.ncbi.nlm.nih.gov/nuccore/?term=microsatellite%20pisum%20carlier
178 Brassica oleracea BAC-end sequences published at NCBI data bases. URL: http://www.ncbi.nlm.nih.gov/sites/entrez?db=nucgss&cmd=search&term=carlier%20algarve
90 RAPD, ISSR or AFLP Ananas sp. Sequences published at NCBI data bases. URL: http://www.ncbi.nlm.nih.gov/nuccore?term=carlier+ananas
Other publications
An integrated genetic map (constructed by J. Carlier and J. Leitão) was published in the chapter “Pineapple” (authors Jose Ramon Botella and Mike Smith) of the book “Genomics of Tropical Crop Plants”, Ray Ming (Ed.), Springer Verlag (September/2007). Pp. 441-451.
-Communications
Oral Communications (as speaker)
Carlier JD, Nobahar A, Costa MC (2021). Valorization of acid mine water through metal recovery. 8th Interdisciplinary Day at the São Domingos Mine: Mines, technologies and education: convergences (Valorização da água ácida de mina através da recuperação de metais. 8ª Jornada Interdisciplinar da Mina de São Domingos: Minas, tecnologias e educação: convergências). 3th December, São Domingos mine, Portugal.
Carlier JD, Luís AT, Alexandre LM, Costa MC (2020c) Feasibility of Co-treating Olive Mill Wastewater and Acid Mine Drainage. 2020 CCMAR Symposium, Centre of Marine Sciences of the Algarve (CCMAR). December 18. Online Zoom.
Carlier JD, Ferreira H, Costa MC (2017a) Pilot plant at São Domingos mine for the biological treatment of acid mine drainage. 4th Interdisciplinary Day at the São Domingos Mine: Mines, technologies and education: convergences (4ª Jornada Interdisciplinar da Mina de São Domingos: Minas, tecnologias e educação: convergências). 24th November, São Domingos mine, Portugal.
Alexandre LM, Carlier JD, Luís AT, Costa MC (2016) Screening of industrial sub-products as alternative carbon sources to sustain the growth and activity of sulphate-reducing bacteria – Part II. 11th conference on Sustainable Development of Energy, Water and Environment Systems – SDEWES. 4-9 September. Lisbon, Portugal.
Carlier JD, Farinhó M, Alabaça C, Coelho P, Ali D, Penev R, Monteiro A, Paterson A H, Leitão J (2010) Constructing a Physical Map of the Genomic Region Encompassing the Downy Mildew Resistance Gene Pp523 in Brassica oleracea L. 28th International Horticultural Congress. 22-27 August. Lisbon, Portugal.
Carlier JD, Nancheva D, Coppens d’Eeckenbrugge G, Leitão JM (2005) Genetic mapping of DNA markers in pineapple. 5th International Pineapple Symposium. April 10-15. Port Alfred, South Africa.
Carlier JDD, Nancheva D, d’Eeckenbrugge GC, Leitão JM (2005) Construção de um mapa genético de marcadores moleculares em ananás baseado numa população F2. V Congresso Ibérico de Ciências Hortícolas – IV Congresso Ibero-Americano de Ciências Hortícolas. 22-27 May. Oporto, Portugal.
Carlier JD, Fonseca F, Leitão JM (2004) Contribuição para o estudo taxonómico de Cistus palhinhae. 12º Congresso do Algarve. 28-30 October. Tavira, Portugal.
Carlier JD, Reis A, Duval MF, d´Eeckenbrugge GC, Leitão JM (2002) Genetic linkage mapping of RAPD, AFLP and ISSR markers in pineapple. XXVIth International Horticultural Congress & Exhibition. August 11-17. Toronto, Canada.
Carlier JD, Duval MF, d´Eckenbrugge GC, Leitão JM (1999) Resultados preliminares de mapeamento de marcadores moleculares RAPD e AFLP em ananás. 2º Workshop de Biotecnologia de Plantas. Universidade do Algarve. 6-7 May. Faro, Portugal.
Oral Communications (another speaker)
Nobahar A, Melka AB, das Neves LL, Carlier JD, Costa MC (2021) AliCy as Extractant to Remove Iron from Copper-Free Extreme AMD for Further Extraction of Zinc. 17th International Conference on Environmental Science and Technology CEST2021. 1- 4 September. Athens, Greece.
Nobahar A, Melka AB, Carlier JD, Costa MC (2021) Solvent Extraction to Recover Copper from Extreme Acid Mine Drainage. 14th IMWA Congress – “Mine Water Management for Future Generations”. 12–15 July. Cardiff, Wales.
Carlier JD, Sathityatiwati S, Melka AB, Miguel MG, Lourenço JP, Nogueira CA, Paiva AP, Costa MC (2019d) Combining Chemical and Biological Strategies for the recovery of metals from metals bearing wastewaters (METALCHEMBIO)”, 17th International Waste Management and Landfill Symposium, Forte Village, Santa Margherita di Pula, Sardinia, Italy, 29 September-5 October 2019.
Carlier JD, Miguel MG, Lourenço JP, Nogueira CA, Paiva AP, Costa MC (2019c) Separation and recovery of metals from metal bearing wastewaters by liquid-liquid extraction using commercial and novel plant based extractants (METALCHEMBIO PROJECT), 3rd International Conference & Expo on Green Chemistry and Engineering, Las Vegas, USA, 11-12 July 2019
Anucha CB, Alexandre LM, Carlier JD, Luís AT, Costa MC (2016) Batch tests to access the efficiency of beetroot and orange molasses as sources of nutrients to sustain bioremediation processes for acid mine drainage. 3rd International Congress on Water, Waste and Energy Management (EWWM). 18-20 July. Rome, Italy.
Carlier JD, Costa MC (2015b) Projetos de investigação envolvendo o tratamento de águas ácidas da mina de São Domingos (Research projects involving acidic water treatment at the São Domingos mine). II Jornadas Interdisciplinares Mina de São Domingos: Minas, Tecnologias e Educação: Convergências. 4th December 2015. Mina de São Domingos, Portugal.
Carlier JD, Luís AT, Costa MC (2015a) Screening of industrial sub-products as alternative carbon sources to sustain the growth and activity of sulphate-reducing bacteria. 10th conference on Sustainable Development of Energy, Water and Environment Systems – SDEWES. 27 September – 2 October. Dubrovnik, Croatia.
Carlier JD, Barros RJ, Costa MC (2014) Testing Sulphate Reducing Bacteria for the bioremediation of metal-contaminated wastewaters with relatively low sulphate concentrations. International Congress on Green Chemistry and Sustainable Engineering. 29 – 31 July. Barcelona, Spain.
Leitão J, Guerreiro P, Carlier J, Alabaça C, Farinhó M, Coelho P, Monteiro A (2008) Advances in positional cloning of PpALG1 and Pp523, two linked downy mildew adult-plant resistance genes in Brassica oleracea L. Plant Genomics European Meeting, 24-27 September. Albena, Bulgaria.
Leitão JM, Farinhó M, Carlier JD, Marques AC, Alabaça CS, Gambôa C, Sousa NF, Ribeiro R, Cadima S, Formiga S e Santo TE (2007) Da genómica de plantas à genética humana: o laboratório de genómica e de melhoramento genético, FERN, Ualg. 13º Congresso do Algarve, 15-17 November. Lagos, Portugal.
Leitão José M, Reis A, Pereira G, Carlier J, Cabrita L, Farinhó M and Talhinhas P, (2000) Molecular markers applications in production and genetic improvement of horticultural crops. International Symposium on Biotechnology Application in Horticultural Crops, 4-8 September. Beijing, China, p. 77.
Ferreira FR, Duval M-F, Bernasconi B, Cabral JRS, Carlier J, Ferreira ME, Leal F, Leitão J, de Matos AP, Suarez Z and G. Coppens d’Eeckenbrugge (1999) Avaliação e uso de germoplasma de abacaxi para obtenção de variedades melhoradas. Segundo Simpósio de Recursos Genéticos para América Latina e Caribe. Novembro 21-26. Brasilia, Brasil Abstract 249.
Leitão JM, Elisiário PJ, Cabrita LF, Justo EM, Pereira GM, Jacob AP, Carlier JD, Farinhó MJ (1998) Molecular markers in genetic variability assessment, cultivar fingerprinting and hybrid identification in fruits and vegetables. XXV International Horticultural Congress (IHC). 2-7 August. Brussels, Belgium.
Posters
Nobahar A, Carlier JD, Fitas ET; Costa MC (2021) Enrichment, isolation and characterization of acidophilic sulfate reducing bacteria from São Domingos mine. Microbiotec21 webconference – congress of microbiology and biotechnology 2021. 23-26 November, Lisbon, Portugal.
Nobahar A. Melka AB. Carlier JD. Lourenço JP. Costa MC (2021) Recovery of strategic metals from extreme acid mine drainage by combining solvent extraction methods and biological strategies. XXVII Encontro Nacional da Sociedade Portuguesa de Química. 14-16 July. Braga, Portugal.
Nobahar A, Rodrigues J, Carlier JD, Costa MC (2020) Metals recovery from extreme acid mine drainage using plants extracts. Encontro com a Ciência e Tecnologia em Portugal. 3 – 4 November 2020. Online. https://www.encontrociencia.pt/2020/
Carlier J, Costa MC, Ferreira H (2017b) Biologic pilot plant for the treatment of acid mine drainage at São Domingos mine: An overview of its development, scale-up and installation. 13th International Mine Water Association Congress – Mine Water & Circular Economy – A Green Congress. 23 – 30 June 2017. Rauha, Finland.
Mbagag Neba D, Carlier JD, Costa MC (2016) Investigating the Biodegradation of Acetaminophen by Bacteria communities. 11th conference on Sustainable Development of Energy, Water and Environment Systems – SDEWES. September 4-9. Lisbon, Portugal.
Goossens G, Carlier JD, Assunção A, Costa MC (2016) Investigating the biotechnological potential of filamentous algae from extreme environments. 3rd International Congress on Water, Waste and Energy Management (EWWM). July 18-20. Rome, Italy.
Fazenda P, Carlier J, Jacinto R and Leitão J (2013) Identificação de marcadores SSR em medronheiro (Arbutus unedo L.) por sequenciação massiva paralela. Encontro Nacional do Medronho. December 13. Silves, Portugal.
Carlier J, Alabaça C, Rodrigues C and Leitão J (2012) On the Way to the Identification of a Downy Mildew Resistance Gene in Brassica oleracea L. 6th International Symposium on Brassica and 18th Crucifer Genetic Workshop. November 12 – 16. Catania, Italy.
Carlier J, Farinhó M, Alabaça C, Coelho P, Monteiro A and José Leitão (2011) Genomic mapping of a downy mildew resistance gene in Brassica oleracea L. XXXVI Jornadas Portuguesas de Genética. May 30 – June 1. Coimbra, Portugal.
Alabaça C, Sousa N, Coelho P, Monteiro A, Carlier J and José Leitão (2011) QTL mapping of downy mildew resistance in “Couve Algarvia”. XXXVI Jornadas Portuguesas de Genética. May 30 – June 1. Coimbra, Portugal.
Carlier J, Coelho P, Monteiro A and José Leitão (2009) Assigning the linkage groups of a Brassica ssessme L. map to physical chromosomes. Plant Genomics European Meeting, October 7-10. Lisbon, Portugal.
Carlier J, Farinhó M, Alabaça C, Coelho P, Monteiro A and José Leitão (2009) Exploiting the Brassica/Arabidopsis genomic synteny for BAC contig construction. Plant Genomics European Meeting, October 7-10. Lisbon, Portugal.
Santo T, Sousa N, Carlier J and José Leitão (2009) A new genetic map of pineapple (Ananas comosus L.) integrates data from an F1 and an F2 population. Plant Genomics European Meeting, October 7-10. Lisbon, Portugal.
Carlier J, Cabrita L, Sousa RM, Sousa AT and Leitão J (2009) ISSR and AFLP Characterization of Phomopsis amygdale (Del.) Tuset & Portilla Accessions. 5th International Symposium on Pistachios & Almonds, October 6 – 10, Sanliurfa – Turkey
Carlier J, Santo T, Sousa N and José Leitão (2008) An Integrated Genetic Map of Pineapple (Ananas comosus (L.) Merrill). Plant Genomics European Meeting, September 24-27. Albena, Bulgaria.
Santo T, Carlier J and José Leitão (2008) A Genetic Map of Pineapple (Ananas comosus L.) Constructed Using an F2 Population. Plant Genomics European Meeting, September 24-27. Albena, Bulgaria.
Farinhó M, Carlier J, Alabaça C, Guerreiro P, Coelho P, Monteiro A and José Leitão (2008) Progressing Towards the Map-Based Cloning of Downy Mildew Resistance Genes in Brassica oleracea L. 5th ISHS International Symposium on Brassicas and the 16thCrucifer Genetics Workshop. September 8 – 12. Lillehammer, Norway.
Apostolova E, Carlier J, Leitão J and Diana Svetleva (2008) Identification of RAPD markers linked to the Fin and P loci in Phaseolus vulgaris L. Ivth Balkan Symposium on Vegetables and Potatoes, September 9 – 12. Plovdiv, Bulgaria.
Carlier JD, Santo TE and José Leitão (2007) A linkage map of pineapple (Ananas comosus L.) constructed using an F2 progeny. 1º Encontro da Plataforma Nacional de Genómica Funcional de Plantas. Universidade do Algarve, FERN. July 12-13. Faro, Portugal.
Carlier J and José Leitão (2006) Constructing an integrated map of DNA markers in Pineapple. Plant & Animal Genomes XIV Conference. January 14-18. San Diego, CA, USA.
Handaji N, Carlier J, Cabrita L and José Leitão (2005) Molecular characterization of the Morocco mandarin “Nadorcott” using isozymes, ISSR, RAPD and AFLP. 7th International Congress of Citrus Nuresrymen. September 17–21. Cairo, Egypt.
Handaji N, Carlier J, Cabrita L, Yahia B and José Leitão (2005) ssessment of genetic diversity among mandarins germplasm from INRA Morocco using ISSR and AFLP. 7th International Congress of Citrus Nuresrymen. September 17–21. Cairo, Egypt.
Handaji N, Carlier J, Cabrita L, Ben Yahia H and Leitão JM (2005) Evaluation of genetic diversity among mandarins germplasm in INRA Morocco by molecular markers. 12th European Congress on Biotechnology. August 21-25. Copenhagen, Denmark.
Handaji N, Carlier J, Cabrita L, Ben Yahia H and Leitão JM (2005) Identification of Morocco hybrid mandarin “Nadorcott” using isozymes, ISSR, RAPD and AFLP. 12th European Congress on Biotechnology. August 21-25. Copenhagen, Denmark.
Handaji N, Carlier J and José Leitão (2004) DNA analysis of citrus cultivars from INRA Morocco germplasm with inter simple sequence repeat markers. 10Th International Society of Citriculture (ISC) Congress. February 15-20. Agadir, Morocco.
Carlier JD, Nancheva D, Reis A and José Leitão (2004) Preliminary Results of Mapping DNA markers in Pineapple using a F2 Population. XXXI Jornadas Portuguesas de Genética. February 5-6. Oeiras, Portugal.
Farinhó M, Carlier J, Coelho P, Svetleva D, Monteiro A and José Leitão (2004) Mapping a Downy Mildew Resistance Gene in Broccoli. XXXI Jornadas Portuguesas de Genética. February 5-6. Oeiras, Portugal.
Farinhó M, Carlier J, Svetleva D, Monteiro A and José Leitão (2002) Genetic linkage map of Broccoli based on AFLP, RAPD, SSR and ISSR markers linked to resistance against the Downy Mildew. XXVIth International Horticultural Congress & Exhibition. August 11-17. Toronto, Canada.
Reis A, Carlier JD, Duval MF, Coppens d´Eckenbrugge G and José Leitão (2000) Mapeamento genético de marcadores RAPD, AFLP e ISSR em Ananas spp. 4º Workshop de Biotecnologia de Plantas. April 27-28. Evora, Portugal.
Leitão J, Reis A, Pereira G, Fernandes J, Carlier J, Cabrita L and Mario Farinhó (1999) Use of molecular markers for selection, genotyping, genetic relatedness assessment and genome mapping in fruit and vegetable species. International symposium on plant genetics engineering. Centre for genetic engineering and biotechnology. December 6-10. Havana, Cuba.
Miguel G, Reis A, Carlier J, Venâncio F, Tavares A, Martins A, Duarte F and José Leitão (1999) Preliminary studies on genetic polymorphisms between two chemotypes of Thymus mastichina subsp. Mastichina. 30th International Symposium on Essential Oils. September 5-8. Leipzig, Germany.
Carlier JD, Duval MF, Coppens d´Eckenbrugge G and José Leitão (1999) Preliminary results of mapping RAPD and AFLP markers in pineapple. The 9th European Congress on Biotechnology. July 11-15. Brussels, Belgium.
Coppens d’ Eeckenbrugge G, Cabral JRS, Carlier J, Duval MF, Ferreira FR, Leal F, Leitão J, Matos Apde, Noyer JL and Zoraida Suárez (1998) The EU-funded project “Evaluation and utilization of pineapple genetic resources from the Amazon to breed resistant varieties”. Third International pineapple Symposium. November 20-24. Pattaya, Thailand.
