Recent Publications
in press
Hilário S, Pinto G, Monteiro P, Santos L, Alves A (2023) The impact of two Diaporthe species on Vaccinium corymbosum physiological performance under different water availability scenarios. European Journal of Plant Pathology (in press).
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2023
Silva I, Rodrigues ET, Tacão M, Henriques I (2023) Microplastics accumulate priority antibiotic-resistant pathogens: Evidence from the riverine plastisphere. Environmental Pollution, 332: 121995
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Oliveira AS, Alves M, Leitão F, Tacão M, Henriques I, Castro PML, Amorim CL (2023) Bioremediation of coastal aquaculture effluents spiked with florfenicol using microalgae-based granular sludge – a promising solution for recirculating aquaculture systems. Water Research 233: 119733
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Queirós L, Aguiar N, Pereira P, Gonçalves FJM, Alves A, Pereira JL (in press). Recommended rates of azoxystrobin and tebuconazole seem to be environmentally safe but ineffective against target fungi. Ecotoxicology 32(1): 102–113.
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Abraúl M, Alves A, Hilário S, Melo T, Conde T, Domingues MR, Rey F (2023). Evaluation of Lipid Extracts from the Marine Fungi Emericellopsis cladophorae and Zalerion maritima as a source of anti-inflammatory, antioxidant and antibacterial compounds. Marine Drugs 21(4): 199.
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Bregant C, Batista E, Hilário S, Linaldeddu BT, Alves A (2023) Phytophthora species involved in Alnus glutinosa decline in Portugal. Pathogens 12(2): 276.
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Rocha R, Lopes T, Fidalgo C, Alves A, Cardoso P, Figueira E (2023) Bacteria associated to the roots of common bean (Phaseolus vulgaris L.) at different development stages: diversity and plant growth promotion. Microorganisms 11 (1): 57.
Batista E, Lopes A, Miranda P, Alves A (2023) Can species distribution models be used for risk assessment analyses of fungal plant pathogens? A case study with three Botryosphaeriaceae species. European Journal of Plant Pathology 165(1): 41–56.
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2022
Tavares DSR, Tacão M, Ramalheira E, Ferreira S, Henriques I (2022). Report and comparative genomics of an NDM-5-producing Escherichia coli in a Portuguese hospital: Complex class 1 integrons as important players in blaNDM spread. Microorganisms 10(11): 2243
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Esteves E, Mendes AK, Barros M, Figueiredo C, Andrade J, Capelo J, Novais A, Rebelo C, Soares R, Nunes A, Ferreira A, Lemos J, Duarte AS, Silva RM, Bernardino LI, Correia MJ, Esteves AC, Rosa N (2022) Population wide testing pooling strategy for SARS-CoV-2 detection 1 using saliva. PLoS ONE, 17(1): e0263033.
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Dinis LT, Jesus C, Amaral J, Gómez-Cadenas A, Correia B, Alves A, Pinto G (2022). Water deficit timing differentially affects physiological responses of grapevines infected with Lasiodiplodia theobromae. Plants 11(15): 1961.
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Pour FN, Pedrosa B, Oliveira M, Fidalgo C, Devreese B, Van Driessche G, Félix C, Rosa N, Alves A, Duarte AS, Esteves AC (2022) Unveiling the secretome of the fungal plant pathogen Neofusicoccum parvum induced by in vitro host mimicry. Journal of Fungi 8 (9): 971.
Tacão M, Laço J, Teixeira P, Henriques I (2022). CTX-M-producing bacteria isolated from a highly polluted river system in Portugal. International Journal of Emvironmental Research And Public Health 19(19): 11858
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Hilário S, Gonçalves MFM, Fidalgo C, Tacão M, Alves A (2022). Genome analyses of two blueberry pathogens: Diaporthe amygdali CAA958 and Diaporthe eres CBS 160.32. Journal of Fungi 8: 804
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Amaral J, Valledor L, Alves A, MartÃn-GarcÃa J, Pinto G (2022). Studying tree response to biotic stress using a multi-disciplinary approach: the pine pitch canker case study. Frontiers in Plant Science 13: 916138.
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Magalhães J, Correia MJ, Silva RM, Esteves AC, Alves A, Duarte AS (2022). Molecular techniques and target selection for the identification of Candida spp. in oral samples. Applied Sciences 12(18): 9204.
Guarnaccia V, Kraus C, Markakis E, Alves A., Armengol J., Eichmeier A., Compant S., Gramaje D. (2022). Fungal trunk diseases of fruit trees in Europe: pathogens, spread and future directions. Phytopathologia Mediterranea 61(3): 563–599.
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Teixeira P, Pinto N, Henriques I, Tacão M (2022) KPC-3-, GES-5-, and VIM-1 producing Enterobacterales isolated from urban ponds. International Journal of Environmental Research and Public Health 19 (10): 5848
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Silva I, Alves M, Malheiro C, Silva ARR, Loureiro S, Henriques I, Gonzalez N (2022). Short-Term responses of soil microbial communities to changes in air temperature, soil moisture and UV radiation. Genes 13 (5): 850
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Rodrigues L, Coelho E, Madeira R, Teixeira P, Henriques I, Coimbra MA (2022) Food ingredients derived from lemongrass byproduct hydrodistillation: essential oil, hydrolate, and decoction. Molecules 27 (8): 2493
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Rocha J, Henriques I, Godmila M, Manaia CM (2022) Common and distinctive genomic features of Klebsiella pneumoniae thriving in the natural environment or in clinical settings. Scientific Reports 12: 10441.
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Reis P, Gaspar A, Alves A, Fontaine F, Rego C (2022). Response of different grapevine cultivars to infection by Lasiodiplodia theobromae and Lasiodiplodia mediterranea. Plant Disease 106(5): 1350–1357.
Reis P, Mondello V, Diniz I, Alves A, Rego C, Fontaine F (2022). Effect of the combined treatments with LC2017 and Trichoderma atroviride strain I-1237 on disease development and defense responses in vines infected by Lasiodiplodia theobromae. Agronomy 12(5): 996
Batista E, Lopes A, Alves A (2022). How good are we at describing a new fungal species? A case study based on the family Botryosphaeriaceae (Dothideomycetes). Mycological Progress 21(3): 40.
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Alcaide EQ, Rodrigues CF, Henriques I, Hilário A (2022). Microbial associations of abyssal gorgonians and anemones (>4000 meters depth) at Clarion-Clipperton Fracture Zone. Frontiers in Microbiology 13: 828469
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Rocha J, Ferreira C, Mil-Homens D, Busquets A, Fialho AM, Henriques I, Gomila M, Manaia CM (2022). Third generation cephalosporin-resistant Klebsiella pneumoniae thriving in patients and in wastewater: what do they have in common? BMC Genomics 23: 72
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Teixeira P, Tacão M, Henriques I (2022). Occurrence and distribution of Carbapenem-resistant Enterobacterales and carbapenemase genes along a highly polluted hydrographic basin. Environmental Pollution 300:118958
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Leitão F, Pinto G, Amaral J, Monteiro P, Henriques I (2022). New insights into the role of constitutive bacterial rhizobiome and phenolic compounds in two Pinus spp with contrasting susceptibility to pine pitch canker Tree Physiology tpab 119
Santos J, Hilário S, Pinto G, Alves A (2022). Diversity and pathogenicity of pestalotioid fungi associated with blueberry plants in Portugal, with description of three novel species of Neopestalotiopsis European Journal of Plant Pathology 162(3): 539–555
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Hilário S, Santos L, AJL Phillips, Alves A (2022). Caveats of the Internal Transcribed Spacer region as a barcode to resolve species boundaries in Diaporthe. Fungal Biology 126(1): 54–74
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Monteiro P, Gonçalves MFM, Pinto G, Silva B, MartÃn-GarcÃa J, DÃez JJ, Alves A (2022). Three novel species of fungi associated with pine species showing needle blight-like disease symptoms. European Journal of Plant Pathology 162(1): 183–202
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Gonçalves MFM, Hilário S, van de Peer Y, Esteves AC, Alves A (2022). Genomic and metabolomic analyses of the marine fungus Emericellopsis cladophorae: insights into saltwater adaptability mechanisms and its biosynthetic potential. Journal of Fungi 8(1): 31
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Peixoto S, Loureiro S, Henriques I (2022). The impact of silver sulfide nanoparticles and silver ions in soil microbiome. Journal of Hazardous Materials 422:126793
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Peixoto S , Oliveira JMM, Henriques I, Morgado R, Soares AMVM, Loureiro S (2022). Pollution- induced community tolerance framework - disc diffusion method to assess the impact of silver nanoparticles in soils: Potential relevance for risk assessment. Applied Soil Ecology 169:104185
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2021
Covas CF, Almeida B, Esteves AC, Lourenço J, Domingues P, Caetano T, Mendo S (2021) Casein peptone, an antagonist of nonribosomal peptide synthesis: the case study of pedopeptins of Pedobacter lusitanus NL19. New Biotechnology. 60: 62-71.
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Monteiro HR, Moutinho AB, Campos MJ, Esteves AC, Lemos MFL (2021) Insights into the restoration of tributyltin contaminated environments using marine bacteria from Portuguese fishing ports. Applied Sciences. 11(14): 6411.
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Bulai IM, Esteves AC, Lima F, Venturino E (2021) A mathematical modeling approach to assess biological control of an orange tree disease. Applied Mathematics Letters. 118: 107140.
Lopes R, Fuentes-Castillo D, Fontana H, Rodrigues L, Dantas K, Cerdeira L, Henriques I, Lincopan N (2021) Endophytic lifestyle of clones of extended-spectrum beta-lactamase-producing priority pathogens in fresh vegetables: a Trojan Horse strategy favoring human colonization? mSystems 9:e01125-20
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Gabriel A, Costa S, Henriques I, Lopes I (2021) Effects of long-term exposure to increased salinity on the amphibian skin bacterium Erwinia toletana. Archives Of Environmental Contamination And Toxicology, 80: 779-788
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Dias MF, de Castro GM, de Paiva MC, Reis MP, Facchin S, do Carmo AO, Alves MS, Suhadolnik ML, Motta A, Henriques I, Kalapothakis E, Lobo FP, Nascimento AMA (2021) Exploring antibiotic resistance in environmental integron-cassettes through intI-attC amplicons deep sequencing. Brazilian Journal of Microbiology
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Araújo S, Tacão M, Baraúna R, Ramos R, Silva A, Henriques I (2021) Genome analysis of two multidrug-resistant Escherichia coli O8:H9-ST48 strains isolated from lettuce. Gene, 785: 145603
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Almeida AR,Tacão M, Soares J, Domingues I, Henriques I (2021) Tetracycline-resistant bacteria selected from water and zebrafish after antibiotic exposure. International Journal of Environmental Research And Public Health, 18 (6): 3218
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Almeida AR, Domingues I, Henriques I (2021) Zebrafish and water microbiome recovery after oxytetracycline exposure. Environmental Pollution, 272: 116371
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Gonçalves MFM, Hilário S, Tacão M, van de Peer Y, Alves A, Esteves AC (2021). Genome and metabolome MS-based mining of a marine strain of Aspergillus affinis Journal of Fungi 7(12): 1091
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Hilário S, Santos L, Alves A (2021). Diversity and pathogenicity of Diaporthe species revealed from a survey of blueberry orchards in Portugal. Agriculture 11 (12): 1271
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Araújo S, Azenha SR, Henriques I, Tacão M (2021). qnrA gene diversity in Shewanella spp Microbiology 167: 12
Oliveira JMM, Henriques I , Read DS , Gweon HS, Morgado RG, Peixoto S, Correia A, Soares AMV M, Loureiro S (2021). Gut and faecal bacterial community of the terrestrial isopod Porcellionides pruinosus: potential use for monitoring exposure scenarios. Ecotoxicology 30
Reis P, Gaspar A, Alves A, Fontaine F, Rego C (2021). Combining a HA + Cu(II) site-targeted copper-based product with a pruning wound protection program to prevent infection with Lasiodiplodia spp in grapevine. Plants 10(11): 2376
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Amaral J, Lamelas L, Valledor L, Castillejo MA, Alves A, Pinto G (2021). Comparative proteomics of Pinus-Fusarium circinatum interactions reveal metabolic clues to biotic stress resistance. Physiologia Plantarum 173(4): 2142–2154
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Arkam M, Alves A , Lopes A , Čechová J, Pokluda R, Eichmeier A, Zitouni A, Mahamedi AE, Berraf-Tebbal A (2021). Diversity of Botryosphaeriaceae causing grapevine trunk diseases and their spatial distribution under different climatic conditions in Algeria. European Journal of Plant Pathology 161(4): 933–952
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Salvatore MM, DellaGreca M, Nicoletti R, Salvatore F, Tuzi A, De Tomaso G, Alves A, Mahamedi AE, Berraf-Tebbal A, Andolfi A (2021). Mitidjospirone, a new spirodioxynaphthalene and GC-MS screening of secondary metabolites produced by strains of Lasiodiplodia mitidjana associated to Citrus sinensis dieback. Natural Product Research, Sep 13, 1-10
Peixoto S, Henriques I, Loureiro S (2021). Long-term effects of Cu(OH)2 nanopesticide exposure on soil microbial communities. Environmental Pollution 269: 116113
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Silva I, Tacão M, Henriques I (2021). Selection of antibiotic resistance by metals in a riverine bacterial community. Chemosphere 263: 127936
Lopes AF, Batista E, Hilário S, Santos L, Alves A(2021). Occurrence of Diaporthe species in Eucalyptus globulus, Pinus pinaster and Quercus suber in Portugal. Forest Pathology 51 (2)
Gonçalves MFM, Abreu AC, Hilário S, Alves A (2021). Diversity of marine fungi associated with wood baits in the estuary Ria de Aveiro with descriptions of Paralulworthia halima comb nov, Remispora submersa sp nov and Zalerion pseudomaritima sp nov. Mycologia 113 (3): 664-683
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Hilário S, Santos L, Alves A (2021). Diaporthe amygdali, a species complex or a complex species? Fungal Biology 125 (7): 505-518
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Salvatore MM , Alves A, Andolfi A (2021). Secondary metabolites produced by Neofusicoccum species associated with plants: a review. Agriculture 11(2)
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Batista E, Lopes A, Alves A (2021). What Do We Know about Botryosphaeriaceae? An Overview of a Worldwide Cured Dataset. Forests 12(3)
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Zamora-Ballesteros C, Pinto G, Amaral J, Valledor L, Alves A, Diez JJ, MartÃn-GarcÃa J (2021). Dual RNA-sequencing analysis of resistant (Pinus pinea) and susceptible (Pinus radiata) hosts during Fusarium circinatum challenge. International Journal of Molecular Sciences 22 (10)
RodrÃguez-Gálvez E, Hilário S, Batista E, Lopes A, Alves A (2021). Lasiodiplodia species associated with dieback of avocado in the coastal area of Peru. European Journal of Plant Pathology 161: 219-232
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Araújo S , Sousa M , Tacão M , Baraúna R A , Silva A , Ramos R , Alves A , Manaia C M , Henriques I (2021). Carbapenem-resistant bacteria over a wastewater treatment process: Carbapenem-resistant Enterobacteriaceae in untreated wastewater and intrinsically-resistant bacteria in final effluent. Science Of The Total Environment 782: 146892
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Hilário S, Gonçalves MFM, Alves A (2021). Using Genealogical Concordance and Coalescent-Based Species Delimitation to Assess Species Boundaries in the Diaporthe eres Complex. Journal of Fungi 7 (7)
Gonçalves MFM, Paço A, Escada LF, Albuquerque MSF, Pinto CA, Saraiva J, Duarte AS, Rocha-Santos TAP, Esteves AC, Alves A (2021). Unveiling Biological Activities of Marine Fungi: The Effect of Sea Salt. Applied Sciences 11(13)
Garcia M, David B, Sierra-Garcia IN, Faustino MAF, Alves A, Esteves AC, Cunha A (2021). Photodynamic inactivation of Lasiodiplodia theobromae: lighting the way towards an environmentally friendly phytosanitary treatment. Biology Letters 17(4)
Vicente TFL, Gonçalves MFM, Brandão C, Fidalgo C, Alves A (2021). Diversity of fungi associated with macroalgae from an estuarine environment and description of Cladosporium rubrum sp nov and Hypoxylon aveirense sp nov. International journal of systematic and evolutionary microbiology 71(2)
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Amaral J, Correia B, Escandón M, Jesus C, Serôdio J, Valledor L, Hancock RD, Dinis L-T, Gomez-Cadenas A, Alves A, Pinto G (2021). Temporal physiological response of pine to Fusarium circinatum infection is dependent on host susceptibility level: the role of ABA catabolism. Tree physiology 41(5): 801-816
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Yurkov A, Alves A , Bai F -Y , Boundy-Mills K , Buzzini P , Čadež N , Cardinali G , Casaregola S , Chaturvedi V , Collin V , Fell J W , Girard V , Groenewald M , Hagen F , Hittinger C T , Kachalkin A V , Kostrzewa M , Kouvelis V , Libkind D , Liu X , Maier T , Meyer W , Péter G , Piątek M , Robert V , Rosa C A , Sampaio J P , Sipiczki M , Stadler M , Sugita T , Sugiyama J , Takagi H , Takashima M , Turchetti B , Wang Q -M , Boekhout T (2021). Nomenclatural issues concerning cultured yeasts and other fungi: why it is important to avoid unneeded name changes. IMA FUNGUS, 12
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