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2024
- Paiva, N. M., Ribeiro, S. C., Rosa, H. J., & Silva, C. C. (2024). Comparative study of the bacterial community of organic and conventional cow's milk. Food Microbiology, 104488.
- do Vale Pereira, G., Teixeira, C., Couto, J., Dias, J., Rema, P., & Gonçalves, A. T. (2024). Dietary Protein Quality Affects the Interplay between Gut Microbiota and Host Performance in Nile Tilapia. Animals, 14(5), 714.
- Paiva, D. S., Fernandes, L., Portugal, A., & Trovão, J. (2024). First Genome Sequence of the Microcolonial Black Fungus Saxispiralis lemnorum MUM 23.14: Insights into the Unique Genomic Traits of the Aeminiaceae Family. Microorganisms, 12(1), 104.
- . Silva, I., Dias, L., Salvador, C., Miller, A. Z., Candeias, A., & Caldeira, A. T. (2024). Microbial induced stone discoloration in alcobaça monastery: A comprehensive study. Journal of Cultural Heritage, 67, 248-257.
- Perdigão, R., Tomasino, M. P., Magalhães, C., Carvalho, M. F., Almeida, C. M. R., & Mucha, A. P. (2024). Microbial response to a port fuel spill: Community dynamics and potential for bioremediation. Marine Pollution Bulletin, 203, 116434.
- Cameirão, C., Costa, D., Rufino, J., Pereira, J. A., Lino-Neto, T., & Baptista, P. (2024). Diversity, Composition, and Specificity of the Philaenus spumarius Bacteriome. Microorganisms, 12(2), 298.
- Trovão, J., & Portugal, A. (2024). The impact of stone position and location on the microbiome of a marble statue. The Microbe, 2, 100040.
- Santos, B., Afonso, L., Alves, F., Dinis, A., Ferreira, R., Correia, A., ... & Tomasino, M. P. (2024). Hidden in the blow-a matrix to characterise cetaceans’ respiratory microbiome: Short-finned pilot whale as model species. ARPHA Preprints, 5, e121514.
- Roxo, I., Amaral, A., Portugal, A., & Trovão, J. (2024). Draft genome sequence and comparative genomic analysis of Penicillium pancosmium MUM 23.27 isolated from raw honey. Archives of Microbiology, 206(1), 36.
- Ribeiro, R., Moreira, J. N., & Goncalves, J. (2024). Development of a new affinity maturation protocol for the construction of an internalizing anti-nucleolin antibody library. Scientific Reports, 14(1), 10608.
- Ferreiro, E., Monteiro, M., Pereira, F., Barroso, C., Egas, C., Macedo, P., ... & Oliveira, P. J. (2024). Age-dependent energy metabolism and transcriptome changes in urine-derived stem cells. Mechanisms of Ageing and Development, 218, 111912.
- Lavrador, A. S., Amaral, F. G., Moutinho, J., Vieira, P. E., Costa, F. O., & Duarte, S. (2024). DNA metabarcoding-based detection of non-indigenous invertebrates in recreational marinas: influence of sample type and seasonal variation. bioRxiv, 2024-01.
- Pires, R. H. M., Tomasino, M. P., Simon, S., Buzier, R., GUIBAUD, G., Almeida, C. M. R., & Mucha, A. P. Impact of Trace Elements Added to Anaerobic Digestion Reactors on Their Activity and Microbial Community Structure. Available at SSRN 4819852.
- Sierra-García, I. N., Ferreira, M. J., Torres-Ballesteros, A., Louvado, A., Gomes, N., & Cunha, A. (2024). Brevibacterium EB3 inoculation enhances rhizobacterial community interactions leading to improved growth of Salicornia europaea. Applied Soil Ecology, 196, 105306.
- Rosa, N., Leite, S., Alves, J., Carvalho, A., Oliveira, D., Santos, F., ... & Prazeres, H. (2024). Knowledge Innovation Ecosystem for the Promotion of User-Centre Health Innovations: Living Lab Methodology and Lessons Learned Through the Proposal of Standard Good Practices. bioRxiv, 2024-01.
2023
- Ribeiro I, Antunes JT, Alexandrino DAM, Tomasino MP, Almeida E, Hilário A, Urbatzka R, Leão PN, Mucha AP and Carvalho MF (2023) Actinobacteria from Arctic and Atlantic deep-sea sediments—Biodiversity and bioactive potential. Front. Microbiol. 14:1158441. doi: 10.3389/fmicb.2023.1158441
- Coelho MC, Malcata FX, Silva CCG. Distinct Bacterial Communities in São Jorge Cheese with Protected Designation of Origin (PDO). Foods. 2023; 12(5):990. https://doi.org/10.3390/foods12050990
- Paiva, Nuno M. L. and Ribeiro, Susana C. and Rosa, Henrique J. D. and Silva, Celia Costa Gomes, Comparative Study of the Bacterial Community of Organic and Conventional Milk. Available at SSRN: https://ssrn.com/abstract=4573793.
- Duarte, S.; Vieira, P.E.; Leite, B.R.; Teixeira, M.A.L.; Neto, J.M.; Costa, F.O. Macrozoobenthos monitoring in Portuguese transitional waters in the scope of the water framework directive using morphology and DNA metabarcoding. Estuar. Coast. Shelf Sci. 2023, 281, 108207
- Lavrador AS, Fontes JT, Vieira PE, Costa FO, Duarte S. Compilation, Revision, and Annotation of DNA Barcodes of Marine Invertebrate Non-Indigenous Species (NIS) Occurring in European Coastal Regions. Diversity. 2023; 15(2):174. https://doi.org/10.3390/d15020174
- Moutinho J, Carreira-Flores D, Gomes PT, Costa FO, Duarte S. Assessing the Seasonal and Spatial Dynamics of Zooplankton through DNA Metabarcoding in a Temperate Estuary. Animals. 2023; 13(24):3876. https://doi.org/10.3390/ani13243876
- Leite BR, Duarte S, Troncoso JS, Costa FO. Artificial Seaweed Substrates Complement ARMS in DNA Metabarcoding-Based Monitoring of Temperate Coastal Macrozoobenthos. Diversity. 2023; 15(5):657. https://doi.org/10.3390/d15050657
- Marques, J.; Ares, A.; Costa, J.; Marques, M.P.M.; de Carvalho, L.A.E.B.; Bessa, F. Plastisphere assemblages differ from the surrounding bacterial communities in transitional coastal environments. Sci. Total Environ. 2023, 869, 161703
- Roxo, I., Amaral, A., Portugal, A. et al. A preliminary metabarcoding analysis of Portuguese raw honeys. Arch Microbiol 205, 386 (2023). https://doi.org/10.1007/s00203-023-03725-3
- Esteves AR, Munoz-Pinto MF, Nunes-Costa D, Candeias E, Silva DF, Magalhães JD, Pereira-Santos AR, Ferreira IL, Alarico S, Tiago I, Empadinhas N, Cardoso SM. Footprints of a microbial toxin from the gut microbiome to mesencephalic mitochondria. Gut. 2023 Jan;72(1):73-89. doi: 10.1136/gutjnl-2021-326023.
- M.J.Ferreira, I.N., Sierra-Garcia, J. Cremades, C. António, A.M. Rodrigues, D.C.G.A. Pinto, H. Silva, Â. Cunha. Biostimulation of Salicornia europaea L. crops with plant growth-promoting bacteria in laboratory and field conditions: effects on growth and metabolite profile. J. Appl. Microbiol., 134 (2023), doi:10.1093/jambio/lxad036
- Bôto, M. L., Dias, S. M., Crespo, R. D., Mucha, A. P., & Almeida, C. M. R. (2023). Removing chemical and biological pollutants from swine wastewater through constructed wetlands aiming reclaimed water reuse. Journal of Environmental Management, 326, 116642. https://doi.org/10.1016/j.jenvman.2022.116642
- Porras-Socias, Pau and Tomasino, Maria Paola and Fernandes, Joana P. and De Menezes, Alexandre B. and Fernández, Belén and Collins, Gavin and Alves, Maria João and Castro, Ricardo and Gomes, Carlos R. and Almeida, C. Marisa R. and Mucha, Ana Paula, Removal of Metals and Emergent Contaminants from Liquid Digestates in Constructed Wetlands for Agricultural Reuse. Available at SSRN: https://ssrn.com/abstract=4668623 or http://dx.doi.org/10.2139/ssrn.4668623
- Ferreira MJ, Sierra-Garcia IN, Louvado A, Gomes NCM, Figueiredo S, Patinha C, Pinto DCGA, Cremades J, Silva H, Cunha A. 2023. Journal of Applied Microbiology, 134(8), lxad178, https://doi.org/10.1093/jambio/lxad178
- Usié, A., Serra, O., Barros, P.M. et al. An improved reference genome and first organelle genomes of Quercus suber. Tree Genetics & Genomes 19, 54 (2023). https://doi.org/10.1007/s11295-023-01624-8.
- Albuquerque A, Garrido N, Charneca R, Egas C, Martin L, Ramos A, Costa F, Marmelo C, Martins JM. Influence of Sex and a High-Fiber Diet on the Gut Microbiome of Alentejano Pigs Raised to Heavy Weights. Veterinary Sciences. 2023; 10(11):641. https://doi.org/10.3390/vetsci10110641
- Ordóñez, C.D., Mayoral-Campos, C., Egas, C., Redrejo-Rodríguez, M. A primer-independent DNA polymerase-based method for competent whole-genome amplification of intermediate to high GC sequences, NAR Genomics and Bioinformatics, Volume 5, Issue 3, September 2023, lqad073, https://doi.org/10.1093/nargab/lqad073
- Martins, D., Egas, C., Arrais, J.P. (2023). The Impact of Schizophrenia Misdiagnosis Rates on Machine Learning Models Performance. In: Rocha, M., Fdez-Riverola, F., Mohamad, M.S., Gil-González, A.B. (eds) Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023). PACBB 2023. Lecture Notes in Networks and Systems, vol 743. Springer, Cham. https://doi.org/10.1007/978-3-031-38079-2_1
- Cardoso JMS, Esteves I, Egas C, Braga MEM, de Sousa HC, Abrantes I and Maleita C (2023) Transcriptome analysis reveals the high ribosomal inhibitory action of 1,4-naphthoquinone on Meloidogyne luci infective second-stage juveniles. Front. Plant Sci. 14:1191923. doi: 10.3389/fpls.2023.1191923
- Pessoa J, Belew GD, Barroso C, Egas C, Jones JG. The Gut Microbiome Responds Progressively to Fat and/or Sugar-Rich Diets and Is Differentially Modified by Dietary Fat and Sugar. Nutrients. 2023; 15(9):2097. https://doi.org/10.3390/nu15092097
- Sinninghe Damsté JS, Rijpstra WIC, Huber KJ, Albuquerque L, Egas C, Bale NJ (2023) Dominance of mixed ether/ester, intact polar membrane lipids in five species of the order Rubrobacterales: another group of bacteria not obeying the “lipid divide.” Syst Appl Microbiol 46(2):126404. https://doi.org/10.1016/j.syapm.2023.126404
- Garcia-Pelaez, J., Barbosa-Matos, R., Lobo, S., Dias, A., Garrido, L., Castedo, S., Sousa, S., Pinheiro, H., Sousa, L., Monteiro, R., Maqueda, J.J., Fernandes, S., Carneiro, F., Pinto, N., Lemos, C., Pinto, C., Teixeira, M.R., Aretz, S., Bajalica-Lagercrantz, S., Balmaña, J., Blatnik, A., Benusiglio, P.R., Blanluet, M., Bours, V., Brems, H., Brunet, J., Calistri, D., Capellá, G., Carrera, S., Colas, C., Dahan, K., de Putter, R., Desseignés, C., Domínguez-Garrido, E., Egas, C., Evans, D.G., Feret, D., Fewings, E., Fitzgerald, R.C., Florence, C., Garcia-Barcina, M., Genuardi, M., Golmard, L., Hackmann, K., Hanson, H., Holinski-Feder, E., Hüneburg, R., Krajc, M., Lagerstedt-Robinson, R., Lázaro, C., Ligtenberg, M.J.L, Martínez-Bouzas, C., Merino, S., Michils, G., Novaković, S., Patiño-García, S., Ranzani, G.N., Schröck, E., Silva, I., Silveira, C., Soto, J.L., Spier, I., Steinke-Lange, V., Tedaldi, G., Tejada, M-I., Woodward, E.R., Tischkowitz, M., Hoogerbrugge, N., Oliveira, C. (2022). A genotype-first approach in carriers of CDH1 rare germline variants: a European Reference Network on Genetic Tumour Risk Syndromes (ERN-GENTURIS) multicentre study. Lancet Oncology.
- Almeida, J.F.; Marques, M.; Oliveira, V.; Egas, C.; Mil-Homens, D.; Viana, R.; Cleary, D.F.R.; Huang, Y.M.; Fialho, A.M.; Teixeira, M.C.; Gomes, N.C.M.; Costa, R.; Keller-Costa, T. Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens. Mar. Drugs.
- Beatriz M, Rodrigues RJ, Vilaça R, Egas C, Pinheiro PS, Daley GQ, Schlaeger TM, Raimundo N, Rego AC, Lopes C. Extracellular vesicles improve GABAergic transmission in Huntington's disease iPSC-derived neurons. Theranostics. 2023 Jun 26;13(11):3707-3724. doi: 10.7150/thno.81981.
- Albuquerque L, and Egas C. Miltoncostaeales. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023. Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
- Albuquerque L, and Egas C. Gaiellaceae. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023, Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
- Albuquerque L, and Egas C. Miltoncostaea. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023, Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
- Albuquerque L, and Egas C. Gaiellales. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023, Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
- Albuquerque L, and Egas C. Calidithermus. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023, Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
- Albuquerque L, and Egas C. Miltoncostaeaceae. In: Trujillo ME, Dedysh S, De Vos P, Hedlund B, Kämpfer P, Rainey, FA, Whitman WB (Eds), 2023, Bergey's Manual of Systematics of Archaea and Bacteria. Published by John Wiley & Sons, Inc., in association with Bergey's Manual Trust.
2022
- Adrião A, Santana I, Ribeiro C, Cancela ML, Conceição N, Grazina M. Identification of a novel mutation in MEF2C gene in an atypical patient with frontotemporal lobar degeneration. Neurol Sci. 2022;43(1):319-326. doi:10.1007/S10072-021-05269-0/FIGURES/5
- Almeida JF, Marques M, Oliveira V, et al. Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens. Mar Drugs. 2022;21(1):34. doi:10.3390/MD21010034/S1
- Bastos Almeida D, Semedo M, Magalhães C, Blanquet I, Mucha AP. The network of nitrifying and pathogenic prokaryotic interactions in a recirculating aquaculture system of a sole (Solea senegalensis) hatchery. Front Mar Sci. 2022;9:2445. doi:10.3389/FMARS.2022.1038196/BIBTEX
- Beatriz M, Rodrigues R, Vilaça R, et al. Extracellular vesicles improve GABAergic transmission in Huntington’s disease iPSC-derived neurons. bioRxiv. December 2022:2022.12.18.520919. doi:10.1101/2022.12.18.520919
- Cardoso H, Campos C, Grzebelus D, Egas C, Peixe A. Understanding the Role of PIN Auxin Carrier Genes under Biotic and Abiotic Stresses in Olea europaea L. Biol 2022, Vol 11, Page 1040. 2022;11(7):1040. doi:10.3390/BIOLOGY11071040
- Castro J, Costa D, Tavares RM, Baptista P, Lino-Neto T. Olive Fungal Epiphytic Communities Are Affected by Their Maturation Stage. Microorg 2022, Vol 10, Page 376. 2022;10(2):376. doi:10.3390/MICROORGANISMS10020376
- Costa D, Tavares RM, Baptista P, Lino-Neto T. The influence of bioclimate on soil microbial communities of cork oak. BMC Microbiol. 2022;22(1):1-17. doi:10.1186/S12866-022-02574-2/FIGURES/7
- Costa J, Sierra-Garcia IN, Cunha A. A Culture-Independent Comparison of Microbial Communities of Two Maturating Craft Beers Styles. Microbiol Biotechnol Lett. 2022;50(3):404-413. doi:10.48022/mbl.2204.04002
- de Figueiredo DR, Lopes AR, Pereira MJ, et al. Bacterioplankton Community Shifts during a Spring Bloom of Aphanizomenon gracile and Sphaerospermopsis aphanizomenoides at a Temperate Shallow Lake. Hydrobiology. 2022;1(4):499-517. doi:10.3390/hydrobiology1040030
- Guerra V, Tiago I, Aires A, et al. The gastrointestinal microbiome of browsing goats (Capra hircus). PLoS One. 2022;17(10):e0276262. doi:10.1371/journal.pone.0276262
- Hageskal G, Heggeset TMB, Nguyen GS, et al. Flow-based method for biofilm microbiota enrichment and exploration of metagenomes. AMB Express. 2022;12(1):1-11. doi:10.1186/S13568-022-01377-Y/FIGURES/5
- Lopes AR, Bunin E, Viana AT, et al. In silico prediction of the enzymes involved in the degradation of the herbicide molinate by Gulosibacter molinativorax ON4T. Sci Rep. 2022;12(1):15502. doi:10.1038/s41598-022-18732-5
- Paiva DS, Fernandes L, Trovão J, Mesquita N, Tiago I, Portugal A. Uncovering the Fungal Diversity Colonizing Limestone Walls of a Forgotten Monument in the Central Region of Portugal by High-Throughput Sequencing and Culture-Based Methods. Appl Sci. 2022;12(20):10650. doi:10.3390/APP122010650/S1
- Ribeirinho-Soares S, Moreira NFF, Graça C, Pereira MFR, Silva AMT, Nunes OC. Overgrowth control of potentially hazardous bacteria during storage of ozone treated wastewater through natural competition. Water Res. 2022;209:117932. doi:10.1016/J.WATRES.2021.117932
- Ribeiro H, Wijaya IMW, Soares-Santos V, et al. Microbial community composition, dynamics, and biogeochemistry during the start-up of a partial nitritation-anammox pathway in an upflow reactor. Sustain Environ Res. 2022;32(1):1-11. doi:10.1186/S42834-022-00130-1/FIGURES/4
- Sanches-Fernandes GMM, Califano G, Castanho S, et al. Effects of live feed manipulation with algal-derived antimicrobial metabolites on fish larvae microbiome assembly: A molecular-based assessment. Aquac Res. 2022;53(3):1062-1083. doi:10.1111/ARE.15648
- Serra D, Henriques JF, Sousa FJ, et al. Attenuation of Autism-like Behaviors by an Anthocyanin-Rich Extract from Portuguese Blueberries via Microbiota–Gut–Brain Axis Modulation in a Valproic Acid Mouse Model. Int J Mol Sci 2022, Vol 23, Page 9259. 2022;23(16):9259. doi:10.3390/IJMS23169259
- Silva NC, Madureira AR, Pintado M, Moreira PR. Biocontamination and diversity of epilithic bacteria and fungi colonising outdoor stone and mortar sculptures. Appl Microbiol Biotechnol. 2022;106(9-10):3811-3828. doi:10.1007/S00253-022-11957-4/FIGURES/7
- Soares F, Trovão J, Portugal A. Phototrophic and fungal communities inhabiting the Roman cryptoporticus of the national museum Machado de Castro (UNESCO site, Coimbra, Portugal). World J Microbiol Biotechnol. 2022;38(9):157. doi:10.1007/s11274-022-03345-x
2021
- Adrião A, Santana I, Ribeiro C, Cancela ML, Conceição N, Grazina M. Identification of a novel mutation in MEF2C gene in an atypical patient with frontotemporal lobar degeneration. Neurol Sci. 2021:1-8. doi:10.1007/s10072-021-05269-0
- Albuquerque L, Egas C. Ampullimonas. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2021:1-7. doi:10.1002/9781118960608.gbm01905
- Albuquerque L, Egas C. Raineya. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2021:1-8. doi:10.1002/9781118960608.gbm01902
- Albuquerque L, Egas C. Tepidimonas. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2021:1-18. doi:10.1002/9781118960608.gbm00959.pub2
- Alexandrino, D. A. M., Mucha, A. P., Tomasino, M. P., Almeida, C. M. R., & Carvalho, M. F. (2021). Combining Culture-Dependent and Independent Approaches for the Optimization of Epoxiconazole and Fludioxonil-Degrading Bacterial Consortia. Microorganisms 2021, Vol. 9, Page 2109, 9(10), 2109. doi:10.3390/MICROORGANISMS9102109
- Almeida DB, Magalhães C, Sousa Z, et al. Microbial community dynamics in a hatchery recirculating aquaculture system (RAS) of sole (Solea senegalensis). Aquaculture. 2021;539:736592. doi:10.1016/J.AQUACULTURE.2021.736592
- Ares A, Costa J, Joaquim C, et al. Effect of Low-Input Organic and Conventional Farming Systems on Maize Rhizosphere in Two Portuguese Open-Pollinated Varieties (OPV), “Pigarro” (Improved Landrace) and “SinPre” (a Composite Cross Population). Front Microbiol. 2021;0:173. doi:10.3389/FMICB.2021.636009
- Bellisario B, Fais M, Duarte S, Vieira PE, Canchaya C, Costa FO. The spatial network structure of intertidal meiofaunal communities derived from environmental DNA metabarcoding surveys in Northwest Iberia. bioRxiv. 2021:2021.03.16.435605. doi:10.1101/2021.03.16.435605
- Bôto ML, Magalhães C, Perdigão R, et al. Harnessing the Potential of Native Microbial Communities for Bioremediation of Oil Spills in the Iberian Peninsula NW Coast. Front Microbiol. 2021;0:879. doi:10.3389/FMICB.2021.633659
- Esteves, A Raquel, Mário F Munoz-Pinto, Daniela Nunes-Costa, Emanuel Candeias, Diana F Silva, João D Magalhães, A Raquel Pereira-Santos, et al. 2021. “Footprints of a Microbial Toxin from the Gut Microbiome to Mesencephalic Mitochondria.” Gut 0 (November): gutjnl-2021-326023. doi:10.1136/GUTJNL-2021-326023.
- Leal C, Fontaine F, Aziz A, Egas C, Clément C, Trotel-Aziz P. Genome sequence analysis of the beneficial Bacillus subtilis PTA-271 isolated from a Vitis vinifera (cv. Chardonnay) rhizospheric soil: assets for sustainable biocontrol. Environ Microbiomes. 2021;16(1):1-14. doi:10.1186/s40793-021-00372-3
- Miguel-Ruano V, Rivera I, Rajkovic J, et al. Biochemical and Structural Characterization of a novel thermophilic esterase EstD11 provide catalytic insights for the HSL family. Comput Struct Biotechnol J. 2021;19:1214-1232. doi:10.1016/J.CSBJ.2021.01.047
- Montenegro IPFM, Mucha AP, Tomasino MP, Gomes CR, Almeida CMR. Alkylphenols and Chlorophenols Remediation in Vertical Flow Constructed Wetlands: Removal Efficiency and Microbial Community Response. Water 2021, Vol 13, Page 715. 2021;13(5):715. doi:10.3390/W13050715
- Moreira NFF, Ribeirinho-Soares S, Viana AT, et al. Rethinking water treatment targets: Bacteria regrowth under unprovable conditions. Water Res. 2021;201. doi:10.1016/j.watres.2021.117374
- Nones, Stefano, Fernanda Simões, Cândida Sofia Trindade, José Matos, and Edmundo Sousa. 2021. “Microbiome Associated with the Mycangia of Female and Male Adults of the Ambrosia Beetle Platypus Cylindrus Fab. (Coleoptera: Curculionidae).” Insects 2021, Vol. 12, Page 881 12 (10): 881. doi:10.3390/INSECTS12100881.
- Oliveira, Jacinta M.M., Isabel Henriques, Daniel S. Read, Hyun S. Gweon, Rui G. Morgado, Sara Peixoto, António Correia, Amadeu M.V.M. Soares, and Susana Loureiro. 2021. “Gut and Faecal Bacterial Community of the Terrestrial Isopod Porcellionides Pruinosus: Potential Use for Monitoring Exposure Scenarios.” Ecotoxicology 2021 30:10 30 (10): 2096–2108. doi:10.1007/S10646-021-02477-4.
- Picó C, Reis F, Egas C, Mathias P, Matafome P. Lactation as a Programming Window for Metabolic Syndrome. Blackwell Publishing Ltd; 2021:13482. doi:10.1111/eci.13482
- Rocha, Rui, Manuela Vaz Velho, Joana Santos, and Paulo Fernandes. 2021. “Serra Da Estrela PDO Cheese Microbiome as Revealed by Next Generation Sequencing.” Microorganisms 2021, Vol. 9, Page 2007 9 (10): 2007doi:10.3390/MICROORGANISMS9102007.
- Semedo M, Lopes E, Baptista MS, et al. Depth Profile of Nitrifying Archaeal and Bacterial Communities in the Remote Oligotrophic Waters of the North Pacific. Front Microbiol. February 2021:319. doi:10.3389/FMICB.2021.624071
- Tomasino, Maria Paola, Mariana Aparício, Inês Ribeiro, Filipa Santos, Miguel Caetano, C. Marisa R. Almeida, Maria de Fátima Carvalho, and Ana P. Mucha. 2021. “Diversity and Hydrocarbon-Degrading Potential of Deep-Sea Microbial Community from the Mid-Atlantic Ridge, South of the Azores (North Atlantic Ocean).” Microorganisms 2021, Vol. 9, Page 2389 9 (11): 2389. doi:10.3390/MICROORGANISMS9112389.
2020
- Albuquerque L, Castelhano N, Raposo P, et al. Comparative genome sequence analysis of several species in the genus tepidimonas and the description of a novel species tepidimonas charontis sp. Nov. Int J Syst Evol Microbiol. 2020;70(3):1596-1604. doi:10.1099/ijsem.0.003942
- Albuquerque L, Egas C, Costa MS. Schleiferia. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2020:1-6. doi:10.1002/9781118960608.gbm01901
- Albuquerque L, Egas C, Costa MS. Schleiferiaceae. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2020:1-2. doi:10.1002/9781118960608.fbm00369
- Albuquerque L, Egas C, Froufe HJC, Costa MS. Hydrotalea. In: Kämpfer P, ed. Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2020:1-8. doi:10.1002/9781118960608.gbm01442
- Albuquerque L, Egas C. Cavicella. In: Bergey’s Manual of Systematics of Archaea and Bacteria. Wiley; 2020:1-6. doi:10.1002/9781118960608.gbm01904
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2019
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2018
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2017
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2016
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2015
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- Cleary DFR, Becking LE, Polónia ARM, Freitas RM, Gomes NCM. Composition and predicted functional ecology of mussel-associated bacteria in Indonesian marine lakes. Antonie Van Leeuwenhoek. 2015;107(3):821-34. doi:10.1007/s10482-014-0375-1.
- Cleary DFR, de Voogd NJ, Polónia ARM, Freitas R, Gomes NCM. Composition and Predictive Functional Analysis of Bacterial Communities in Seawater, Sediment and Sponges in the Spermonde Archipelago, Indonesia. Microb Ecol. 2015;70(4):889-903. doi:10.1007/s00248-015-0632-5.
- Coelho FJRC, Cleary DFR, Rocha RJM, et al. Unraveling the interactive effects of climate change and oil contamination on laboratory-simulated estuarine benthic communities. Glob Chang Biol. 2015;21(5):1871-86. doi:10.1111/gcb.12801.
- Cruz A, Rodrigues R, Pinheiro M, Mendo S. Transcriptomes analysis of Aeromonas molluscorum Av27 cells exposed to tributyltin (TBT): Unravelling the effects from the molecular level to the organism. Mar Environ Res. 2015;109:132-9. doi:10.1016/j.marenvres.2015.06.017.
- de Voogd NJ, Cleary DFR, Polónia ARM, Gomes NCM. Bacterial community composition and predicted functional ecology of sponges, sediment and seawater from the thousand islands reef complex, West Java, Indonesia. FEMS Microbiol Ecol. 2015;91(4):fiv019. doi:10.1093/femsec/fiv019.
- DUARTE A, MALEITA C, ABRANTES I, CURTIS R. Tomato root exudates induce transcriptional changes of Meloidogyne hispanica genes. Phytopathol Mediterr. 2015;54(1):104-108. doi:10.14601/Phytopathol_Mediterr-14595.
- Duarte S, Bärlocher F, Trabulo J, Cássio F, Pascoal C. Stream-dwelling fungal decomposer communities along a gradient of eutrophication unraveled by 454 pyrosequencing. Fungal Divers. 2014;70(1):127-148. doi:10.1007/s13225-014-0300-y.
- Fernandes I, Pereira A, Trabulo J, Pascoal C, Cássio F, Duarte S. Microscopy- or DNA-based analyses: Which methodology gives a truer picture of stream-dwelling decomposer fungal diversity? Fungal Ecol. 2015;18:130-134. doi:10.1016/j.funeco.2015.08.005.
- Landi M, Araújo A, Lobo J, et al. Ancient DNA in Archaeological Garum Remains from the South of Portugal. In: Oliveira C, Morais R, Cerdán ÁM, eds. Chromatography and DNA analysis in archaeology. Esposende: Municipio de Esposende; 2015.
- Martins MJF, Lago-Leston A, Anjos A, et al. A transcriptome resource for Antarctic krill (Euphausia superba Dana) exposed to short-term stress. Mar Genomics. 2015;23:45-7. doi:10.1016/j.margen.2015.04.008.
- Martins P, Navarro RVV, Coelho FJRC, Gomes NCM. Development of a molecular methodology for fast detection of Photobacterium damselae subspecies in water samples. Aquaculture. 2015;435:137-142. doi:10.1016/j.aquaculture.2014.09.028.
- Miguel A, de Vega-Bartol J, Marum L, et al. Characterization of the cork oak transcriptome dynamics during acorn development. BMC Plant Biol. 2015;15(1):158. doi:10.1186/s12870-015-0534-1.
- Oliveira J, Negrão L, Fineza I, et al. New splicing mutation in the choline kinase beta (CHKB) gene causing a muscular dystrophy detected by whole-exome sequencing. J Hum Genet. 2015;60(6):305-12. doi:10.1038/jhg.2015.20.
- Pearson GA, Lago-Leston A, Cánovas F, et al. Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula. ISME J. 2015;9(10):2275-89. doi:10.1038/ismej.2015.40.
- Pegoraro N, Calado R, Duarte LN, et al. Molecular analysis of skin bacterial assemblages from codfish and pollock after dry-salted fish production. J Food Prot. 2015;78(5):983-9. doi:10.4315/0362-028X.JFP-14-390.
- Pereira R, Oliveira J, Ferraz L, Barros A, Santos R, Sousa M. Mutation analysis in patients with total sperm immotility. J Assist Reprod Genet. 2015;32(6):893-902. doi:10.1007/s10815-015-0474-6.
- Pinto C, Pinho D, Cardoso R, et al. Wine fermentation microbiome: a landscape from different Portuguese wine appellations. Front Microbiol. 2015;6:905. doi:10.3389/fmicb.2015.00905.
- Polónia ARM, Cleary DFR, Freitas R, de Voogd NJ, Gomes NCM. The putative functional ecology and distribution of archaeal communities in sponges, sediment and seawater in a coral reef environment. Mol Ecol. 2015;24(2):409-23. doi:10.1111/mec.13024.
- Ramos AA, Weydmann A, Cox CJ, Canário AVM, Serrão EA, Pearson GA. A transcriptome resource for the copepod Calanus glacialis across a range of culture temperatures. Mar Genomics. 2015;23:27-9. doi:10.1016/j.margen.2015.03.014.
- Riquelme C, Câmara S, Dapkevicius M de LNE, et al. Characterization of the bacterial biodiversity in Pico cheese (an artisanal Azorean food). Int J Food Microbiol. 2015;192:86-94. doi:10.1016/j.ijfoodmicro.2014.09.031.
- Rosado T, Mirão J, Candeias A, Caldeira AT. Characterizing microbial diversity and damage in mural paintings. Microsc Microanal. 2015;21(1):78-83. doi:10.1017/S1431927614013439.
- Serrazina S, Santos C, Machado H, et al. Castanea root transcriptome in response to Phytophthora cinnamomi challenge. Tree Genet Genomes. 2015;11(1):6. doi:10.1007/s11295-014-0829-7.
- Vaz-Moreira I, Varela AR, Pereira T V., Fochat RC, Manaia CM. Multidrug Resistance in Quinolone-Resistant Gram-Negative Bacteria Isolated from Hospital Effluent and the Municipal Wastewater Treatment Plant. Microb Drug Resist. 2015:mdr.2015.0118. doi:10.1089/mdr.2015.0118.
- Yim B, Winkelmann T, Ding G-C, Smalla K. Different bacterial communities in heat and gamma irradiation treated replant disease soils revealed by 16S rRNA gene analysis - contribution to improved aboveground apple plant growth? Front Microbiol. 2015;6:1224. doi:10.3389/fmicb.2015.01224.
2014
- M. Adam, A. Westphal, J. Hallmann, and H. Heuer. (2014) Specific Microbial Attachment to Root Knot Nematodes in Suppressive Soil. Appl. Environ. Microbiol. 80:2679-2686. doi:10.1128/AEM.03905-13.
- A. C. Alves, A. Etxebarria, A. K. Soutar, C. Martin, and M. Bourbon. (2014) Novel functional APOB mutations outside LDL-binding region causing familial hypercholesterolaemia. Hum. Mol. Genet. 23 (7): 1817-1828. DOI:10.1093/hmg/ddt573.
- S. Arnaud-Haond, R. Candeias, E. A. Serrão, S. J. L. Teixeira. (2014) Microsatellite markers developed through pyrosequencing allow clonal discrimination in the invasive alga Caulerpa taxifolia. Conservation Genetics Resources 5:667-669. doi:10.1007/s12686-013-9878-8.
- Bettencourt, R., Rodrigues, M., Barros, I., Cerqueira, T., Freitas, C., Costa, V., Pinheiro, M., Egas, C., Santos, R. S. (2014) Site-related differences in gene expression and bacterial densities in the mussel Bathymodiolus azoricus from the Menez Gwen and Lucky Strike deep-sea hydrothermal vent sites. Fish & Shellfish Immunology. 39:343-353. doi:10.1016/j.fsi.2014.05.024.
- N. C. Coelho, E. A. Serrão, F. Alberto. (2014) Characterization of fifteen microsatellite markers for the kelp Laminaria ochroleuca and cross species amplification within the genus. Conservation Genet Resour. 6:949-950. doi:10.1007/s12686-014-0249-x.
- Ding G-C, Radl V, Schloter-Hai B, Jechalke S, Heuer H, Smalla K, Schloter M (2014) Dynamics of Soil Bacterial Communities in Response to Repeated Application of Manure Containing Sulfadiazine. PLoS ONE 9(3): e92958. doi: 10.1371/journal.pone.0092958.
- Egas, C., Barroso, C., Froufe, H., Pacheco, J., Albuquerque, L., da Costa, M. (2014) Complete genome sequence of the radiation-resistant bacterium Rubrobacter radiotolerans RSPS-4. Standards in Genomic Sciences. 9(3). doi:10.4056/sigs.5661021.
- Newton C.M. Gomes, Daniel F.R. Cleary, Ana C.C. Pires, Adelaide Almeida, Angela Cunha, Leda C.S. Mendonça-Hagler, Kornelia Smalla. (2014) Assessing variation in bacterial composition between the rhizospheres of two mangrove tree species. Estuarine, Coastal and Shelf Science.139:40-45. doi.org/10.1016/j.ecss.2013.12.022.
- Pinto C, Pinho D, Sousa S, Pinheiro M, Egas C, et al. (2014) Unravelling the Diversity of Grapevine Microbiome. PLoS ONE 9(1): e85622. doi:10.1371/journal.pone.0085622.
- Hardoim C, Cúcio ACB, Esteves AIS, Berg G, Xavier JR, Cox CJ and Costa R. Effects of sample handling and cultivation bias on the specificity of bacterial communities in keratose marine sponges Front Microbiol. 2014; 5:611. doi: 10.3389/fmicb.2014.00611.
- Hardoim, C. C. P. and Costa, R. (2014), Temporal dynamics of prokaryotic communities in the marine sponge Sarcotragus spinosulus. Molecular Ecology, 23: 3097–3112. doi: 10.1111/mec.12789.
- Lopes, A. R., Manaia, C. M. and Nunes, O. C. (2014) Bacterial community variations in an alfalfa-rice rotation system revealed by 16S rRNA gene 454-pyrosequencing. FEMS Microbiology Ecology, 87: 650–663. doi: 10.1111/1574-6941.12253.
- J. M. Marques, T. F. da Silva, R. E. Vollu, A. F. Blank, G. Ding, L. Seldin, and K. Smalla. (2014) Plant age and genotype affect the bacterial community composition in the tuber rhizosphere of field-grown sweet potato plants. FEMS Microbiology Ecology. 2014. 88:424–435. doi: 10.1111/1574-6941.12313.
- F. O. Morais-Silva, A. M. Rezende, C. Pimentel, C. I. Santos, C. Clemente, A. Varela–Raposo, D. M. Resende, S. M. da Silva, L. M. de Oliveira, M. Matos, D. A. Costa, O. Flores, J. C. Ruiz and C. Rodrigues-Pousada. (2014) Genome sequence of the model sulfate reducer Desulfovibrio gigas: a comparative analysis within the Desulfovibrio genus. MicrobiologyOpen 2014; 3(4): 513–530 doi:10.1002/mbo3.184.
- V. Oliveira, Newton C.M. Gomes, Daniel F.R. Cleary, A. Almeida, Artur M.S. Silva, Mário M.Q. Simões, H. Silva, A. Cunha. Halophyte plant colonization as a driver of the composition of bacterial communities in salt marshes chronically exposed to oil hydrocarbons. FEMS Microbiology Ecology. 2014, 90 (3) 647-662; DOI:10.1111/1574-6941.12425.
- J. B. Pereira-Leal, I. A. Abreu, C. S. Alabaça, M. H. Almeida, P. Almeida, T. Almeida, M. I. Amorim, S. Araújo, H. Azevedo, A. Badia, D. Batista, A. Bohn, T. Capote, I. Carrasquinho, I. Chaves, A. C. Coelho, M. M. R. Costa, R. Costa, A. Cravador, C. Egas, C. Faro, A. M. Fortes, A. S. Fortunato, M. J. Gaspar, S. Gonçalves, J. Graça, M. Horta, V. Inácio, J. M. Leitão, T. Lino-Neto, L. Marum, J. Matos, D. Mendonça, A. Miguel, C. M. Miguel, L. Morais-Cecílio, I. Neves, F. Nóbrega, M. M. Oliveira, R. Oliveira, M. S. Pais, J. A. Paiva, O. S. Paulo, M. Pinheiro, J. A. P. Raimundo, J. C. Ramalho, A. I. Ribeiro, T. Ribeiro, M. Rocheta, A. I. Rodrigues, J. C. Rodrigues, N. J. M. Saibo, T. E. Santo, A. M. Santos, P. Sá-Pereira, M. Sebastiana, F. Simões, R. S. Sobral, R. Tavares, R. Teixeira, C. Varela, M. M. Veloso and C. P. P. Ricardo. (2014) A comprehensive assessment of the transcriptome of cork oak (Quercus suber) through EST sequencing. BMC Genomics, 15:371. doi:10.1186/1471-2164-15-371.
- Rocheta M, Sobral R, Magalhães J, Amorim MI, Ribeiro T, Pinheiro M, Egas C, Morais-Cecílio L, Costa MMR. 2014. Comparative transcriptomic analysis of male and female flowers of monoecious Quercus suber. Frontiers in Plant Science. 5. Doi:10.3389/fpls.2014.00599.
- S. Schreiter, G-C. Ding, R. Grosch, S. Kropf, K. Antweiler, K. Smalla. Soil type-dependent effects of a potential biocontrol inoculant on indigenous bacterial communities in the rhizosphere of field-grown lettuce. FEMS Microbiology Ecology. 2014, 90 (3) 718-730; DOI:10.1111/1574-6941.12430.
- S. Schreiter, G. Ding, H. Heuer, G. Neumann, M. Sandmann, R. Grosch, S. Kropf and K. Smalla. (2014) Effect of the soil type on the microbiome in the rhizosphere of field-grown lettuce. Front Microbiol. 2014; 5:144. doi:10.3389/fmicb.2014.00144.
- Sebastiana M, Vieira B, Lino-Neto T, Monteiro F, Figueiredo A, et al. (2014) Oak Root Response to Ectomycorrhizal Symbiosis Establishment: RNA-Seq Derived Transcript Identification and Expression Profiling. PLoS ONE 9(5): e98376. doi: 10.1371/journal.pone.0098376.
- Simoes MJ, Lobo C., Egas C, Nunes S, Carmona S, Costa MA, Duarte T, Ribeiro L, Faro C, Cunha-Vaz J. Genetic variants in ICAM1, PPARGC1A and MTHFR are potentially associated with different phenotypes of diabetic retinopathy. Ophthalmologica 2014. 232(3):156-62. doi: 10.1159/000365229.
- Sergio Stefanni, Raul Bettencourt, Miguel Pinheiro, Gianluca De Moro, Lucia Bongiorni, and Alberto Pallavicini. 2014. Transcriptome of the Deep-Sea Black Scabbardfish, Aphanopus carbo (Perciformes: Trichiuridae): Tissue-Specific Expression Patterns and Candidate Genes Associated to Depth Adaptation. International Journal of Genomics 2014, Article ID 267482, 21 pages. doi:10.1155/2014/267482.
- Teixeira, R. T., Fortes, A. M., Pinheiro, C., and Pereira, H. (2014) Comparison of good- and bad-quality cork: application of high-throughput sequencing of phellogenic tissue. J Exp Bot. 2014 Sep;65(17):4887-905. doi: 10.1093/jxb/eru252.
- A. Weydmann, N. C. Coelho, A. A. Ramos, E. A. Serrão, G. A. Pearson. (2014) Microsatellite markers for the Arctic copepod Calanus glacialis and cross-amplification with C. finmarchicus. Conservation Genet Resour. 6:1003-1005.
2013
- Abbasi, M., Paquete, L., Liefooghe, A., Pinheiro, M. and Matias P. (2013) Improvements on bicriteria pairwise sequence alignment: algorithms and applications. Bioinformatics 29(8):996-1003 doi:10.1093/bioinformatics/btt098.
- Aires, T., Serrão, E. A., Kendrick, G., Duarte, C. M. and Arnaud-Haond, S. (2013). Invasion is a community affair: Clandestine followers in the bacterial community associated to green algae, Caulerpa racemosa, track the invasion source. PloS One, 8(7):e68429. doi:10.1371/journal.pone.0068429.
- Arnaud-Haond, S., Candeias, R., Serrão, E. A. and Teixeira, S. J. (2013). Microsatellite markers developed through pyrosequencing allow clonal discrimination in the invasive alga Caulerpa taxifolia. Conservation Genetics Resources, 5(3):667–669. doi:10.1007/s12686-013-9878-8.
- Bettencourt, R., Rodrigues, M. I., Barros, I., Cerqueira, T., Freitas, C., Costa, V., Pinheiro, M., Egas, C. and Santos, R. S. (2013). Differential gene expression in the mussel Bathymodiolus azoricus from the Menez Gwen and Lucky Strike deep-sea hydrothermal vent sites. Biogeosciences Discussions, 10(2):2013–2038. doi:10.5194/bgd-10-2013-2013.
- Carneiro, A. R., Jucá Ramos, R. T., Baraúna, R. A., de Sá, P. H., Marinho Almeida, D., Barbosa, S., Pereira A, Alves, A., Egas, C., Correia, A., Henriques, I. and Silva, A. (2013). Draft Genome Sequence of Serratia fonticola LMG 7882T Isolated from Freshwater. Genome Announcements, 1(6). doi:10.1128/genomeA.00971-13.
- Cleary, D. F. R., Becking, L. E., de Voogd, N. J., Pires, A. C. C., Polónia, A. R. M., Egas, C. and Gomes, N. C. M. (2013). Habitat- and host-related variation in sponge bacterial symbiont communities in Indonesian waters. FEMS Microbiology Ecology, 85(3):465–82. doi:10.1111/1574-6941.12135.
- Coelho, F.J., Rocha, R.J., Pires, A.C., Ladeiro, B., Castanheira, J.M., Costa, R., Almeida, A., Cunha, A., Lillebø, A.I., Ribeiro, R., Pereir,a R., Lopes, I., Marques, C., Moreira-Santos, M., Calado, R., Cleary, D.F. and Gomes, N.C. (2013). 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): 2584–95. doi:10.1111/gcb.12227.
- Ding, G.-C., Pronk, G. J., Babin, D., Heuer, H., Heister, K., Kögel-Knabner, I. and Smalla, K. (2013). Mineral composition and charcoal determine the bacterial community structure in artificial soils. FEMS Microbiology Ecology, 86(1):15–25. doi:10.1111/1574-6941.12070.
- Figueiredo, J., Simões, M. J., Gomes, P., Barroso, C., Pinho, D., Conceição, L., Fonseca, L., Abrantes, I., Pinheiro, M. and Egas, C. (2013). Assessment of the Geographic Origins of Pinewood Nematode Isolates via Single Nucleotide Polymorphism in Effector Genes. PloS One, 8(12):e83542. doi:10.1371/journal.pone.0083542.
- Gomes, N. C. M., Manco, S. C., Pires, A. C. C., Gonçalves, S. F., Calado, R., Cleary, D. F. R. and Loureiro, S. (2013). Richness and composition of sediment bacterial assemblages in an Atlantic port environment. The Science of the Total Environment, 452-453:172–80. doi:10.1016/j.scitotenv.2013.02.017.
- Henriques, I., Jucá Ramos, R. T., Baraúna, R. A., de Sá, P. H., Marinho Almeida, D., Carneiro, A. R., Barbosa, S., Pereira, A., Alves, A., Saavedra, M.J., Egas, C., Silva, A. and Correia, A. (2013). Draft Genome Sequence of Serratia fonticola UTAD54, a Carbapenem-Resistant Strain Isolated from Drinking Water. Genome Announcements, 1(6). doi:10.1128/genomeA.00970-13.
- Lopes, A. R., Manaia, C. M. and Nunes, O. C. (2013). Bacterial community variations in an alfalfa-rice rotation system revealed by 16S rRNA gene 454-pyrosequencing. FEMS Microbiology Ecology. doi:10.1111/1574-6941.12253.
- Martins, P., Cleary, D. F. R., Pires, A. C. C., Rodrigues, A. M., Quintino, V., Calado, R. and Gomes, N. C. M. (2013). 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):e80847. doi:10.1371/journal.pone.0080847.
- Vaz-Moreira, I., Egas, C., Nunes, O. C. and Manaia, C. M. (2013). Bacterial diversity from the source to the tap: a comparative study based on 16S rRNA gene-DGGE and culture-dependent methods. FEMS Microbiology Ecology, 83(2):361–74. doi:10.1111/1574-6941.12002.
- Vieira, R., Simões, M. J., Carmona, S., Egas, C., Faro, C. and Figueiredo, A. (2013). Identification of DLEC1 D215N Somatic Mutation in Formalin Fixed Paraffin Embedded Melanoma and Melanocytic Nevi Specimens. Journal of Skin Cancer, ID 469671. doi:10.1155/2013/469671.
2012
- Aires, Tânia, Marbà, N., Serrão, E. A., Duarte, C. M. and Arnaud-Haond, S. (2012). Selective elimination of chloroplastidial DNA for metagenomics of bacteria associated with the green alga Caulerpa taxofolia (Bryopsidophyceae). Journal of Phycology, 48(2):483–490. doi:10.1111/j.1529-8817.2012.01124.x.
- Cleary, D. F. R., Smalla, K., Mendonça-Hagler, L. C. S. and Gomes, N. C. M. (2012). Assessment of variation in bacterial composition among microhabitats in a mangrove environment using DGGE fingerprints and barcoded pyrosequencing. PloS One, 7(1):e29380. doi:10.1371/journal.pone.0029380.
- Conceição, I. L., Tzortzakakis, E. A., Gomes, P., Abrantes, I. and Cunha, M. J. (2012). Detection of the root-knot nematode Meloidogyne ethiopica in Greece. European Journal of Plant Pathology, 134(3):451–457. doi:10.1007/s10658-012-0027-0.
- Costa-Matos, L., Batista, P., Monteiro, N., Simões, M., Egas, C., Pereira, J., Pinho, H., Santos, N., Ribeiro, J., Cipriano, MA., Henriques, P., Girão, F., Rodrigues, A. and Carvalho, A. (2012). Liver hepcidin mRNA expression is inappropriately low in alcoholic patients compared with healthy controls. European Journal of Gastroenterology and Hepatology, 24(10):1158–65. doi:10.1097/MEG.0b013e328355cfd0.
- Ding, G.-C., Heuer, H. and Smalla, K. (2012). Dynamics of bacterial communities in two unpolluted soils after spiking with phenanthrene: soil type specific and common responders. Frontiers in Microbiology, 3:290. doi:10.3389/fmicb.2012.00290.
- Egas, C., Pinheiro, M., Gomes, P., Barroso, C. and Bettencourt, R. (2012). The transcriptome of Bathymodiolus azoricus gill reveals expression of genes from endosymbionts and free-living deep-sea bacteria. Marine Drugs, 10(8):1765–83. doi:10.3390/md10081765.
- Maleita, C. M., Simões, M. J., Egas, C., Curtis, R. H. C. and Abrantes, I. M. (2012). Biometrical, Biochemical, and Molecular Diagnosis of Portuguese Meloidogyne hispanica Isolates. Plant Disease, 96(6):865–874. doi:10.1094/PDIS-09-11-0769-RE.
- Pires, A. C. C., Cleary, D. F. R., Almeida, A., Cunha, A., Dealtry, S., Mendonça-Hagler, L. C. S., Smalla, K. and Gomes, N. C. M. (2012). Denaturing gradient gel electrophoresis and barcoded pyrosequencing reveal unprecedented archaeal diversity in mangrove sediment and rhizosphere samples. Applied and Environmental Microbiology, 78(16):5520–8. doi:10.1128/AEM.00386-12.
- Santos, C. S., Pinheiro, M., Silva, A. I., Egas, C. and Vasconcelos, M. W. (2012). Searching for resistance genes to Bursaphelenchus xylophilus using high throughput screening. BMC Genomics, 13(1):599. doi:10.1186/1471-2164-13-599.
2011
- Gomes, N. C., Cleary, D. F., Calado, R. and Costa, R. (2011). Mangrove bacterial richness. Communicative and Integrative Biology, 4(4):419–23. doi:10.4161/cib.4.4.15253
- Vaz-Moreira, I., Egas, C., Nunes, O. C. and Manaia, C. M. (2011). Culture-dependent and culture-independent diversity surveys target different bacteria: a case study in a freshwater sample. Antonie van Leeuwenhoek, 100(2):245–57. doi:10.1007/s10482-011-9583-0
- Velada, I., Capela-Silva, F., Reis, F., Pires, E., Egas, C., Rodrigues-Santos, P. and Barros, M. T. (2011). Expression of genes encoding extracellular matrix macromolecules and metalloproteinases in avian tibial dyschondroplasia. Journal of comparative Pathology, 145(2-3):174–86. doi:10.1016/j.jcpa.2010.12.008.
2010
- Bettencourt, Raul, Pinheiro, M., Egas, C., Gomes, P., Afonso, M., Shank, T. and Santos, R. S. (2010). High-throughput sequencing and analysis of the gill tissue transcriptome from the deep-sea hydrothermal vent mussel Bathymodiolus azoricus. BMC Genomics, 11:559. doi:10.1186/1471-2164-11-559.
- Gomes, N, Clearly, D., Pinto, F., Egas, C., Almeida, A., Cunha, A., Mendonça-Hagler, L. and Smalla, K. (2010). Taking root: enduring effect of rhizosphere bacterial colonization in mangroves. PloS One, 5(11): e14065. doi:10.1371/journal.pone.0014065.
2009
- Soares, A. R., Pereira, P. M., Santos, B., Egas, C., Gomes, A.C., Arrais, J., Moura, G.R. and Santos, M.A.S. 2009. Parallel DNA pyrosequencing unveils new zebrafish microRNAs. BMC Genomics 10:195. (BMC Genomics highly accessed paper).
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