Biotechnology

Molecular Mycobacteriology and Microbiome

Molecular Microbiology

Biosynthesis

Mycobacteria

Metabolites

Microbiome


Research lines

Biosynthesis of mycobacterial polysaccharides

Biology of nontuberculous mycobacteria

Microbiome studies in chronic diseases

Overview

Despite the monumental advances in science in recent decades, infectious diseases remain one of the leading causes of death in the world. This pressing situation is exacerbated by the rapidly growing antimicrobial resistance trend in synergy with an aged population and an increasing prevalence of chronic diseases. Consequently, integrated approaches that include the role of the human gut microbiome became essential to investigate infectious diseases and other disorders.

Mycobacteria have been killing millions of humans for far too long and new treatments are more urgent than ever (WHO, 2017). Although the genomes of Mycobacterium tuberculosis and of nontuberculous mycobacteria (NTM) have been available for several years, the functions of many genes remain undisclosed, delaying the path toward new therapies. Considering that we are daily exposed to NTM in a looming but neglected public health threat, we will continue investigating the biosynthesis of vital mycobacterial polysaccharides in a quest for new targets for innovative therapies and will also explore the biology of adaptation of NTM to anthropogenic environments.

Our group is also focused on deciphering microbiome signatures of the dysbiotic gut in neurodegenerative and other chronic diseases in view of preventive or bacteriotherapeutic approaches combining NGS data and unique microbial culture collections recently created at CNC. In this context we are also interested in identifying the microbial pathways for biosynthesis of neuroactive metabolites and how they modulate microbiota homeostasis and host susceptibility to disease.

Publications

Show less

Information about journal articles, updated at 17-10-2021, from platform CIÊNCIAVITAE.

Improved diabetic wound healing by bovine lactoferricin is associated with relevant changes in the skin immune response and microbiota

Mouritzen MV, 2021. Molecular Therapy - Methods & Clinical Development. 2021. https://www.sciencedirect.com/science/article/pii/S2329050121000231 . 10.1016/j.omtm.2021.02.008 . published Molecular Therapy - Methods & Clinical Development

The Mitochondrial Ribosome: A World of Opportunities for Mitochondrial Dysfunction Toward Parkinson's Disease

Gonçalves AM, 2021. Antioxidants & Redox Signaling. 694 - 711. 8. 34. 2021. https://www.liebertpub.com/doi/10.1089/ars.2019.7997 . 10.1089/ars.2019.7997 . published Antioxidants & Redox Signaling

A genuine mycobacterial thermophile: Mycobacterium hassiacum growth, survival and GpgS stability at near-pasteurization temperatures

Alarico, Susana; Nunes-Costa, Daniela; Silva, Alexandra; Costa, Mafalda; Macedo-Ribeiro, Sandra; Empadinhas, Nuno, 2020. Microbiology. 474 - 483. 5. 166. 2020. https://doi.org/10.1099/mic.0.000898 . 10.1099/mic.0.000898 . published Microbiology

Microbial BMAA elicits mitochondrial dysfunction, innate immunity activation and Alzheimer's disease features in cortical neurons

Silva DF, 2020. Journal of Neuroinflammation. 332. 17. 2020. http://dx.doi.org/10.1186/s12974-020-02004-y . 10.1186/s12974-020-02004-y . published Journal of Neuroinflammation

Editorial: Interplay Between Nutrition, the Intestinal Microbiota and the Immune System

Oriá RB, 2020. Frontiers in Immunology. 11. 2020. http://dx.doi.org/10.3389/fimmu.2020.01758 . 10.3389/fimmu.2020.01758 . published Frontiers in Immunology

Stabilization of blood for long-term storage can affect antibody-based recognition of cell surface markers

Silva MB; Färnert A, 2020. Journal of Immunological Methods. 481. 2020. http://dx.doi.org/10.1016/j.jim.2020.112792 . 10.1016/j.jim.2020.112792 . published Journal of Immunological Methods

A genuine mycobacterial thermophile: Mycobacterium hassiacum growth, survival and GpgS stability at near-pasteurization temperatures

Alarico S, 2020. Microbiology. 474 - 483. 5. 166. 2020. http://dx.doi.org/10.1099/mic.0.000898 . 10.1099/mic.0.000898 . published Microbiology

Microbial BMAA and the Pathway for Parkinson's Disease Neurodegeneration

Nunes-Costa D, 2020. Frontiers in Aging Neuroscience. 12. 2020. http://dx.doi.org/10.3389/fnagi.2020.00026 . 10.3389/fnagi.2020.00026 . published Frontiers in Aging Neuroscience

The structural characterization of a glucosylglycerate hydrolase provides insights into the molecular mechanism of mycobacterial recovery from nitrogen starvation

Cereija TB, 2019. IUCrJ. 572 - 585. 4. 6. 2019. https://doi.org/10.1107/S2052252519005372 . 10.1107/S2052252519005372 . IUCrJ

High-Quality Draft Genome Sequences of Rare Nontuberculous Mycobacteria Isolated from Surfaces of a Hospital

Tiago I, 2019. Microbiology Resource Announcements. 21. 8. 2019. https://doi.org/10.1128/MRA.00496-19 . 10.1128/MRA.00496-19 . published Microbiology Resource Announcements

Molecular Fingerprints for a Novel Enzyme Family in Actinobacteria with Glucosamine Kinase Activity

Manso JA, 2019. mBio. 2019. https://doi.org/10.1128/mBio.00239-19 . 10.1128/mBio.00239-19 . mBio

Biosynthesis of mycobacterial methylmannose polysaccharides requires a unique 1-O-methyltransferase specific for 3-O-methylated mannosides

Ripoll-Rozada J; Pereira PJB; Empadinhas N, 2019. Proceedings of the National Academy of Sciences. 201813450 - 201813450. 2019. https://www.pnas.org/content/116/3/835.long . 10.1073/pnas.1813450116 . Proceedings of the National Academy of Sciences

Molecular Fingerprints for a Novel Enzyme Family in Actinobacteria with Glucosamine Kinase Activity

Manso, José A; Nunes-Costa, Daniela; Macedo-Ribeiro, Sandra; Empadinhas, Nuno; Barbosa Pereira, Pedro José, 2019. mBio. 3. 10. 2019. https://doi.org/10.1128/mBio.00239-19 . 10.1128/mBio.00239-19 . published mBio

Studies of antimicrobial resistance in rare mycobacteria from a nosocomial environment

Pereira SG, 2019. BMC Microbiology. 1. 19. 2019. http://dx.doi.org/10.1186/s12866-019-1428-4 . 10.1186/s12866-019-1428-4 . published BMC Microbiology

The Microbiome-Mitochondria Dance in Prodromal Parkinson’s Disease

Cardoso SM, Empadinhas N, 2018. Frontiers in Physiology. 9. 2018. https://www.frontiersin.org/articles/10.3389/fphys.2018.00471/full . 10.3389/fphys.2018.00471 . Frontiers in Physiology

Production, crystallization and structure determination of a mycobacterial glucosylglycerate hydrolase

Cereija TB, 2017. Acta Crystallographica Section F Structural Biology Communications. 536 - 540. 9. 73. 2017. https://doi.org/10.1107%2Fs2053230x17012419 . 10.1107/S2053230X17012419 . Acta Crystallographica Section F Structural Biology Communications

Hospital microbial surface colonization revealed during monitoring of Klebsiella spp., Pseudomonas aeruginosa, and non-tuberculous mycobacteria

Farias PG, 2017. Antonie van Leeuwenhoek. 863 - 876. 7. 110. 2017. http://dx.doi.org/10.1007/s10482-017-0857-z . 10.1007/s10482-017-0857-z . published Antonie van Leeuwenhoek

Microbiota of Chronic Diabetic Wounds: Ecology, Impact, and Potential for Innovative Treatment Strategies

Pereira SG, 2017. Frontiers in Microbiology. 8. 2017. https://doi.org/10.3389%2Ffmicb.2017.01791 . 10.3389/fmicb.2017.01791 . published Frontiers in Microbiology

The looming tide of nontuberculous mycobacterial infections in Portugal and Brazil

Nunes-Costa D, 2016. Tuberculosis. 107 - 119. 96. 2016. http://dx.doi.org/10.1016/j.tube.2015.09.006 . 10.1016/j.tube.2015.09.006 . published Tuberculosis

Glucosylglycerate metabolism, bioversatility and mycobacterial survival

Nunes-Costa D, 2016. Glycobiology. 213 - 227. 27. 2016. http://dx.doi.org/10.1093/glycob/cww132 . 10.1093/glycob/cww132 . published Glycobiology

Structure of mycobacterial maltokinase, the missing link in the essential GlgE-pathway

Fraga JS, 2015. Scientific Reports. 5. 2015. https://doi.org/10.1038/srep08026 . 10.1038/srep08026 . published Scientific Reports

Octanoylation of early intermediates of mycobacterial methylglucose lipopolysaccharides

Maranha A; Clarke AJ, Empadinhas N, 2015. Scientific Reports. 1. 5. 2015. http://dx.doi.org/10.1038/srep13610 . 10.1038/srep13610 . published Scientific Reports

Structure of Mycobacterium thermoresistibile GlgE defines novel conformational states that contribute to the catalytic mechanism

Mendes V, 2015. Scientific Reports. 1. 5. 2015. http://dx.doi.org/10.1038/srep17144 . 10.1038/srep17144 . published Scientific Reports

Mycobacterium hassiacum recovers from nitrogen starvation with up-regulation of a novel glucosylglycerate hydrolase and depletion of the accumulated glucosylglycerate

Alarico S, 2014. Scientific Reports. 1. 4. 2014. http://dx.doi.org/10.1038/srep06766 . 10.1038/srep06766 . published Scientific Reports

The molecular biology of mycobacterial trehalose in the quest for advanced tuberculosis therapies

Nobre A, 2014. Microbiology (United Kingdom). 1547 - 1570. PART 8. 160. 2014. https://doi.org/10.1099/mic.0.075895-0 . 10.1099/mic.0.075895-0 . published Microbiology (United Kingdom)

Autophagy in the fight against tuberculosis

Bento CF, 2014. DNA and Cell Biology. 228 - 242. 4. 34. 2014. https://doi.org/10.1089/dna.2014.2745 . 10.1089/dna.2014.2745 . published DNA and Cell Biology

A new bacterial hydrolase specific for the compatible solutes alpha-D-mannopyranosyl-(1,2)-D-glycerate and alpha-D-glucopyranosyl-(1,2)-D-glycerate

Alarico S, 2013. Enzyme and Microbial Technology. 77 - 83. 2. 52. 2013. http://dx.doi.org/10.1016/j.enzmictec.2012.10.008 . 10.1016/j.enzmictec.2012.10.008 . published Enzyme and Microbial Technology

The plant Selaginella moellendorffii possesses enzymes for synthesis and hydrolysis of the compatible solutes mannosylglycerate and glucosylglycerate

Nobre A, 2013. Planta. 891 - 901. 3. 237. 2013. https://doi.org/10.1007/s00425-012-1808-6 . 10.1007/s00425-012-1808-6 . published Planta

Genome sequence of Mycobacterium hassiacum DSM 44199, a rare source of heat-stable mycobacterial proteins

Tiago I, 2012. Journal of Bacteriology. 7010 - 7011. 24. 194. 2012. DOI: https://doi.org/10.1128/JB.01880-12 . 10.1128/JB.01880-12 . published Journal of Bacteriology

Biosynthesis of mycobacterial methylglucose lipopolysaccharides

Mendes V, 2012. Natural Product Reports. 834 - 844. 8. 29. 2012. https://doi.org/10.1039/C2NP20014G . 10.1039/c2np20014g . published Natural Product Reports

Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis

Mendes V, 2011. Scientific Reports. 1. 1. 2011. http://dx.doi.org/10.1038/srep00177 . 10.1038/srep00177 . published Scientific Reports

Functional and structural characterization of a novel mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus reveals its dual substrate specificity

Empadinhas N, 2011. Molecular Microbiology. 76 - 93. 1. 79. 2011. https://doi.org/10.1111/j.1365-2958.2010.07432.x . 10.1111/j.1365-2958.2010.07432.x . published Molecular Microbiology

Diversity, biological roles and biosynthetic pathways for sugar-glycerate containing compatible solutes in bacteria and archaea

Empadinhas N, da Costa MS, 2011. Environmental Microbiology. 2056 - 2077. 8. 13. 2011. https://doi.org/10.1111/j.1462-2920.2010.02390.x . 10.1111/j.1462-2920.2010.02390.x . published Environmental Microbiology

Two alternative pathways for the synthesis of the rare compatible solute mannosylglucosylglycerate in Petrotoga mobilis

Fernandes C, 2010. Journal of Bacteriology. 1624 - 1633. 6. 192. 2010. https://doi.org/10.1128/JB.01424-09 . 10.1128/JB.01424-09 . published Journal of Bacteriology

Biochemical characterization of the maltokinase from Mycobacterium bovis BCG

Mendes V, 2010. BMC Biochemistry. 2010. https://doi.org/10.1186/1471-2091-11-21 . 10.1186/1471-2091-11-21 . published BMC Biochemistry

Identification of the mycobacterial glucosyl-3-phosphoglycerate synthase

Empadinhas N, 2008. FEMS Microbiology Letters. 195 - 202. 2. 280. 2008. https://doi.org/10.1111/j.1574-6968.2007.01064.x . 10.1111/j.1574-6968.2007.01064.x . published FEMS Microbiology Letters

Crystallization and preliminary crystallographic analysis of mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus

Sá-Moura B, 2008. Acta Crystallographica Section F: Structural Biology and Crystallization Communications. 760 - 763. 8. 64. 2008. https://doi.org/10.1107/S1744309108021490 . 10.1107/S1744309108021490 . published Acta Crystallographica Section F: Structural Biology and Crystallization Communications

To be or not to be a compatible solute: Bioversatility of mannosylglycerate and glucosylglycerate

Empadinhas N, da Costa MS, 2008. Systematic and Applied Microbiology. 159 - 168. 3. 31. 2008. https://doi.org/10.1016/j.syapm.2008.05.002 . 10.1016/j.syapm.2008.05.002 . published Systematic and Applied Microbiology

Osmoadaptation mechanisms in prokaryotes: Distribution of compatible solutes

Empadinhas N, da Costa MS, 2008. International Microbiology. 151 - 161. 3. 11. 2008. https://europepmc.org/article/med/18843593 . 10.2436/20.1501.01.55 . published International Microbiology

Mycobacterium tuberculosis glucosyl-3-phosphoglycerate synthase: Structure of a key enzyme in methylglucose lipopolysaccharide biosynthesis

Pereira PJB, 2008. PLoS ONE. 11. 3. 2008. https://doi.org/10.1371/journal.pone.0003748 . 10.1371/journal.pone.0003748 . published PLoS ONE

Molecular and physiological role of the trehalose-hydrolyzing a-glucosidase from Thermus thermophilus HB27

Alarico S, 2008. Journal of Bacteriology. 2298 - 2305. 7. 190. 2008. http://www.scopus.com/inward/record.url?eid=2-s2.0-41549086172&partnerID=MN8TOARS . 10.1128/JB.01794-07 . published Journal of Bacteriology

A Unique Combination of Genetic Systems for the Synthesis of Trehalose in Rubrobacter xylanophilus: Properties of a Rare Actinobacterial TreT

Nobre A, 2008. Journal of Bacteriology. 7939 - 7946. 24. 190. 2008. http://dx.doi.org/10.1128/jb.01055-08 . 10.1128/jb.01055-08 . published Journal of Bacteriology

Bifunctional CTP:inositol-1-phosphate cytidylyltransferase/CDP-inositol: Inositol-1-phosphate transferase, the key enzyme for di-myo-inositol-phosphate synthesis in several (hyper)thermophiles

Rodrigues MV, 2007. Journal of Bacteriology. 5405 - 5412. 15. 189. 2007. http://www.scopus.com/inward/record.url?eid=2-s2.0-34547629796&partnerID=MN8TOARS . 10.1128/JB.00465-07 . published Journal of Bacteriology

Glucosylglycerate biosynthesis in the deepest lineage of the Bacteria: Characterization of the thermophilic proteins GpgS and GpgP from Persephonella marina

Costa J, 2007. Journal of Bacteriology. 1648 - 1654. 5. 189. 2007. http://www.scopus.com/inward/record.url?eid=2-s2.0-33947366922&partnerID=MN8TOARS . 10.1128/JB.00841-06 . published Journal of Bacteriology

Single-step pathway for synthesis of glucosylglycerate in Persephonella marina

Fernandes C, 2007. Journal of Bacteriology. 4014 - 4019. 11. 189. 2007. http://www.scopus.com/inward/record.url?eid=2-s2.0-34249786874&partnerID=MN8TOARS . 10.1128/JB.00075-07 . published Journal of Bacteriology

Organic solutes in Rubrobacter xylanophilus: The first example of di-myo-inositol-phosphate in a thermophile

Empadinhas N, 2007. Extremophiles. 667 - 673. 5. 11. 2007. http://www.scopus.com/inward/record.url?eid=2-s2.0-34548303944&partnerID=MN8TOARS . 10.1007/s00792-007-0084-z . published Extremophiles

Mannosylglycerate is essential for osmotic adjustment in Thermus thermophilus strains HB27 and RQ-1

Alarico S, 2007. Extremophiles. 833 - 840. 6. 11. 2007. http://www.scopus.com/inward/record.url?eid=2-s2.0-35748948644&partnerID=MN8TOARS . 10.1007/s00792-007-0106-x . published Extremophiles

Diversity and biosynthesis of compatible solutes in hyper/thermophiles

Empadinhas N, da Costa MS, 2006. International Microbiology. 199 - 206. 3. 9. 2006. http://www.scopus.com/inward/record.url?eid=2-s2.0-33750584278&partnerID=MN8TOARS . published International Microbiology

Characterization of the biosynthetic pathway of glucosylglycerate in the archaeon Methanococcoides burtonii

Costa J, 2006. Journal of Bacteriology. 1022 - 1030. 3. 188. 2006. http://www.scopus.com/inward/record.url?eid=2-s2.0-31344453995&partnerID=MN8TOARS . 10.1128/JB.188.3.1022-1030.2006 . published Journal of Bacteriology

Distribution of genes for synthesis of trehalose and mannosylglycerate in Thermus spp. and direct correlation of these genes with halotolerance

Alarico S, 2005. Applied and Environmental Microbiology. 2460 - 2466. 5. 71. 2005. http://www.scopus.com/inward/record.url?eid=2-s2.0-18444382346&partnerID=MN8TOARS . 10.1128/AEM.71.5.2460-2466.2005 . published Applied and Environmental Microbiology

Meiothermus timidus sp. nov., a new slightly thermophilic yellow-pigmented species

Pires AL, 2005. FEMS Microbiology Letters. 39 - 45. 1. 245. 2005. http://www.scopus.com/inward/record.url?eid=2-s2.0-15744405109&partnerID=MN8TOARS . 10.1016/j.femsle.2005.02.011 . published FEMS Microbiology Letters

Specialized Roles of the Two Pathways for the Synthesis of Mannosylglycerate in Osmoadaptation and Thermoadaptation of Rhodothermus marinus

Borges N, 2004. Journal of Biological Chemistry. 9892 - 9898. 11. 279. 2004. http://www.scopus.com/inward/record.url?eid=2-s2.0-1642279326&partnerID=MN8TOARS . 10.1074/jbc.M312186200 . published Journal of Biological Chemistry

A gene from the mesophilic bacterium Dehalococcoides ethenogenes encodes a novel mannosylglycerate synthase

Empadinhas N, 2004. Journal of Bacteriology. 4075 - 4084. 13. 186. 2004. http://www.scopus.com/inward/record.url?eid=2-s2.0-3042523198&partnerID=MN8TOARS . 10.1128/JB.186.13.4075-4084.2004 . published Journal of Bacteriology

The bacterium Thermus thermophilus, like hyperthermophilic archaea, uses a two-step pathway for the synthesis of mannosylglycerate

Empadinhas N, 2003. Applied and Environmental Microbiology. 3272 - 3279. 6. 69. 2003. http://www.scopus.com/inward/record.url?eid=2-s2.0-0038655499&partnerID=MN8TOARS . published Applied and Environmental Microbiology

Gamma-Proteobacteria Aquicella lusitana gen. nov., sp. nov., and Aquicella siphonis sp. nov. Infect Protozoa and Require Activated Charcoal for Growth in Laboratory Media

Santos P, 2003. Applied and Environmental Microbiology. 6533 - 6540. 11. 69. 2003. http://www.scopus.com/inward/record.url?eid=2-s2.0-0242573382&partnerID=MN8TOARS . 10.1128/AEM.69.11.6533-6540.2003 . published Applied and Environmental Microbiology

Rubritepida flocculans gen. nov., sp. nov., a new slightly thermophilic member of the alpha-1 subclass of the Proteobacteria

Alarico S, 2002. Systematic and Applied Microbiology. 198 - 206. 2. 25. 2002. http://www.scopus.com/inward/record.url?eid=2-s2.0-0036671222&partnerID=MN8TOARS . published Systematic and Applied Microbiology

Albidovulum inexpectatum gen. nov., sp. nov., a nonphotosynthetic and slightly thermophilic bacterium from a marine hot spring that is very closely related to members of the photosynthetic genus Rhodovulum

Albuquerque L, 2002. Applied and Environmental Microbiology. 4266 - 4273. 9. 68. 2002. http://www.scopus.com/inward/record.url?eid=2-s2.0-0036729238&partnerID=MN8TOARS . 10.1128/AEM.68.9.4266-4273.2002 . published Applied and Environmental Microbiology

Pathway for the synthesis of mannosylglycerate in the hyperthermophilic archaeon Pyrococcus horikoshii: Biochemical and genetic characterization of key enzymes

Empadinhas N, 2001. Journal of Biological Chemistry. 43580 - 43588. 47. 276. 2001. http://www.scopus.com/inward/record.url?eid=2-s2.0-0035941355&partnerID=MN8TOARS . 10.1074/jbc.M108054200 . published Journal of Biological Chemistry

Biosynthesis of mannosylglycerate in the thermophilic bacterium Rhodothermus marinus. Biochemical and genetic characterization of a mannosylglycerate synthase

Martins LO, 1999. Journal of Biological Chemistry. 35407 - 35414. 50. 274. 1999. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033544948&partnerID=MN8TOARS . 10.1074/jbc.274.50.35407 . Journal of Biological Chemistry

Awards

2017

Thomé-Villar Award, Sociedade Portuguesa de Pneumologia/Boehringer Ingelheim

2016

Prémio Santa Casa Neurociências Mantero Belard, Santa Casa da Misericórdia de Lisboa

2012

19th Exploratory Research Grant, Mizutani Foundation for Glycoscience, Japan

We use cookies to improve your visit to our website.