Publications

Publications with work performed at FCULMF, 2015 to present:

  1. Lim SH, Snider J, Birimberg-Schwartz L, Ip W, Serralha JC, Botelho HM, Lopes-Pacheco M, Pinto MC, Moutaoufik MT, Zilocchi M, Laselva O, Esmaeili M, Kotlyar M, Lyakisheva A, Tang P, Vázquez LL, Akula I, Aboualizadeh F, Wong V, Grozavu I, Opacak-Bernardi T, Yao Z, Mendoza M, Babu M, Jurisica I, Gonska T, Bear CE, Amaral MD, Stagljar I (2022) CFTR interactome mapping using the mammalian membrane two-hybrid high-throughput screening system. Mol Syst Biol, 18(2):e10629. DOI: 15252/msb.202110629
  2. Murtinheira F, Migueis M, Letra-Vilela R, Diallo M, Quezada A, Valente CA, Oliva A, Rodriguez C, Martin V, Herrera F (2022) Sacsin Deletion Induces Aggregation of Glial Intermediate Filaments. Cells, 11(2):299. DOI: 3390/cells11020299
  3. Lopes-Pacheco M, Bacalhau M, Ramalho SS, Silva IAL, Ferreira FC, Carlile GW, Thomas DY, Farinha CM, Hanrahan JW, Amaral MD (2022) Rescue of Mutant CFTR Trafficking Defect by the Investigational Compound MCG1516A. Cells, 11(1):136. DOI: 3390/cells11010136
  4. Ramalho SS, Silva IAL, Amaral MD, Farinha CM (2022) Rare Trafficking CFTR Mutations Involve Distinct Cellular Retention Machineries and Require Different Rescuing Strategies. Int J Mol Sci, 23(1):24. DOI: 3390/ijms23010024
  5. Pinto MC, Botelho HM, Silva IAL, Railean V, Neumann B, Pepperkok R, Schreiber R, Kunzelmann K, Amaral MD (2022) Systems Approaches to Unravel Molecular Function: High-content siRNA Screen Identifies TMEM16A Traffic Regulators as Potential Drug Targets for Cystic Fibrosis. J Mol Biol, 434(5):167436. DOI: 1016/j.jmb.2021.167436
  6. Simões FB, Kmit A, Amaral MD (2021) Cross-talk of inflammatory mediators and airway epithelium reveals the cystic fibrosis transmembrane conductance regulator as a major target. ERJ Open Res, 7(4):00247-2021. DOI: 1183/23120541.00247-2021
  7. Pinto MC, Quaresma MC, Silva IAL, Railean V, Ramalho SS, Amaral MD (2021) Synergy in Cystic Fibrosis Therapies: Targeting SLC26A9. Int J Mol Sci, 22(33):13064. DOI: 3390/ijms222313064
  8. Moreira GG, Cantrelle F-X, Quezada A, Carvalho FS, Cristóvão JS, Sengupta U, Puangmalai N, Carapeto AP, Rodrigues MS, Cardoso I, Fritz G, Herrera F, Kayed R, Landrieu I, Gomes CM (2021) Dynamic interactions and Ca2+-binding modulate the holdase-type chaperone activity of S100B preventing tau aggregation and seeding. Nat Commun, 12(1):6292. DOI: 1038/s41467-021-26584-2
  9. Ferreira M, Pinto SN, Aires-da-Silva F, Bettencourt A, Aguiar SI, Gaspar MM (2021) Liposomes as a Nanoplatform to Improve the Delivery of Antibiotics into Staphylococcus aureus Pharmaceutics, 13(3):321. DOI: 10.3390/pharmaceutics13030321
  10. Seabra SG, Rodrigues ASB, Silva SE, Neto AC, Pina-Martins F, Marabuto E, Thompson V, Wilson MR, Yurtsever S, Halkka A, Rebelo MT, Borges PAV, Quartau JA, Jiggins CD, Paulo OS (2021) Population structure, adaptation and divergence of the meadow spittlebug, Philaenus spumarius (Hemiptera, Aphrophoridae), revealed by genomic and morphological data. PeerJ, 9:e11425. DOI: 7717/peerj.11425
  11. Casimiro MH, Pereira A, Leal JP, Rodrigues G, Ferreira LM (2021) Chitosan/PVA Based Membranes Processed by Gamma Radiation as Scaffolding Materials for Skin Regeneration. Membranes, 11(8):561. DOI: 3390/membranes11080561
  12. Godinho-Pereira J, Garcia AR, Figueira I, Malhó R, Brito MA (2021) Behind Brain Metastases Formation: Cellular and Molecular Alterations and Blood-Brain Barrier Disruption. Int J Mol Sci, 22(13):7057. DOI: 3390/ijms22137057
  13. Figueira I, Galego S, Custódio-Santos T, Vicente R, Molnár K, Haskó J, Malhó R, Videira M, Wilhelm I, Krizbai I, Brito MA (2021) Picturing Breast Cancer Brain Metastasis Development to Unravel Molecular Players and Cellular Crosstalk. Cancers, 13(4):910. DOI: 3390/cancers13040910
  14. Galego S,  Kauppila LA, Malhó R, Pimentel J, Brito MA (2021) Myocyte Enhancer Factor 2C as a New Player in Human Breast Cancer Brain Metastases. Cells, 10(2):378. DOI: 3390/cells10020378
  15. Figueira I, Godinho-Pereira J, Galego S,  Maia J,  Haskó J,  Molnár K, Malhó R,  Costa-Silva B, Wilhelm I, Krizbai IA, Brito MA (2021) MicroRNAs and Extracellular Vesicles as Distinctive Biomarkers of Precocious and Advanced Stages of Breast Cancer Brain Metastases Development. Int J Mol Sci. 22(10):5214. DOI: 3390/ijms22105214
  16. Santos L, Mention K, Cavusoglu-Doran K, Sanz DJ,  Bacalhau M,  Lopes-Pacheco M, Harrison PT,  Farinha CM (2021) Comparison of Cas9 and Cas12a CRISPR editing methods to correct the W1282X-CFTR mutation. J Cyst Fibros, in press. DOI: 1016/j.jcf.2021.05.014
  17. Silva IAL,  Railean V,  Duarte A,  Amaral MD (2021) Personalized Medicine Based on Nasal Epithelial Cells: Comparative Studies with Rectal Biopsies and Intestinal Organoids. J Pers Med, 11(5):421. DOI: 3390/jpm11050421
  18. Serrazina S, Machado H, Costa RL, Duque P, Malhó R (2021) Expression of Castanea crenata allene oxide synthase in Arabidopsis improves the defense to Phytophthora cinnamomi. Front Plant Sci, 12:628697. DOI: 3389/fpls.2021.628697
  19. Tomás A, da Fonseca IP, Valkenburg T, Rebelo MT (2021) Louse flies in Azorean and mainland populations of four Passeriformes species: A new perspective to parasite Island syndromes. Int J Parasitol Parasites Wildl, 14:33-40. DOI: 1016/j.ijppaw.2020.12.004
  20. Figueiredo AM, Villacampa P, Diéguez-Hurtado R, Lozano JJ, Kobialka P, Cortazar AR, Martinez-Romero A, Angulo-Urarte A, Franco CA, Claret M, Aransay AM, Adams RH, Carracedo A, Graupera M (2020) Phosphoinositide 3-Kinase–Regulated Pericyte Maturation Governs Vascular Remodeling. Circulation, 142:688–704. DOI: 1161/CIRCULATIONAHA.119.042354
  21. Hagemeijer MC,  Vonk AM,  Awatade NT,  Silva IAL,  Tischer C,  Hilsenstein V, Beekman JM, Amaral MD,  Botelho HM (2020) An open-source high-content analysis workflow for CFTR function measurements using the forskolin-induced swelling assay. Bioinformatics, btaa1073. DOI: 1093/bioinformatics/btaa1073
  22. Sousa L,  Pankonien I,  Simões FB,  Chanson M,  Amaral MD (2020) Impact of KLF4 on Cell Proliferation and Epithelial Differentiation in the Context of Cystic Fibrosis. Int J Mol Sci, 21(18):6717. DOI: 3390/ijms21186717
  23. Quaresma MC, Pankonien I, Clarke LA, Sousa LS, Silva IAL, Railean V, Doušová T, Fuxe J, Amaral MD (2020) Mutant CFTR drives TWIST1 mediated epithelial-mesenchymal transition. Cell Death Dis, 11(10):920. DOI: 1038/s41419-020-03119-z
  24. Santos JD, Pinto FR, Ferreira JF, Amaral MD, Zaccolo M, Farinha CM (2020) Cytoskeleton regulators CAPZA2 and INF2 associate with CFTR to control its plasma membrane levels under EPAC1 activation. Biochem J, 477(13):2561–2580. DOI: 1042/BCJ20200287
  25. Lopes-Pacheco M, Silva IAL, Turner MJ, Carlile GW, Sondo E, Thomas DY, Pedemonte N, Hanrahan JW, Amaral MD (2020) Characterization of the mechanism of action of RDR01752, a novel corrector of F508del-CFTR. Biochem Pharmacol, 180, 114133. DOI: 1016/j.bcp.2020.114133
  26. Marques NT, Filipe A, Pinto P, Barroso J, Trindade H, Power DM, Figueiredo AC (2020) Trichome density in relation to volatiles emission and 1,8-cineole synthase gene expression in Thymus albicans vegetative and reproductive organs. Chemistry & Biodiversity, 17(3), e1900669. DOI: 1002/cbdv.201900669
  27. Cortinhas A, Caperta AD, Teixeira G, Carvalho L, Abreu MM (2020) Harnessing sediments of coastal aquaculture ponds through technosols construction for halophyte cultivation using saline water irrigation. J Environ Manage, 261, 109907. DOI: 1016/j.jenvman.2019.109907
  28. Khmelinskaia A, Marquês JMT, Bastos AEP, Antunes CAC, Bento-Oliveira A, Scolari S, Lobo GMS, Malhó R, Herrmann A, Marinho HS, de Almeida RFM (2020) Liquid-ordered phase formation by mammalian and yeast sterols: a common feature with organizational differences. Front Cell Dev Biol, 8, 337. DOI: 3389/fcell.2020.00337
  29. Caperta AD, Róis AS, Teixeira G, Garcia‐Caparros P, Flowers TJ (2020) Secretory structures in plants: Lessons from the Plumbaginaceae on their origin, evolution and roles in stress tolerance. Plant Cell Environ, 43(12), 2912–2931. DOI: 1111/pce.13825
  30. Correia S, Santos M, Glińska S, Gapińska M, Matos M, Carnide V, Schouten R, Silva AP, Gonçalves B (2020) Effects of exogenous compound sprays on cherry cracking: skin properties and gene expression. J Sci Food Agric, 100(7), 2911–2921. DOI: 1002/jsfa.10318
  31. Sousa L, Pankonien I, Clarke LA, Silva I, Kunzelmann K, Amaral MD (2020) KLF4 acts as a wt-CFTR suppressor through an AKT-mediated pathway. Cells, 9(7). DOI: 3390/cells9071607
  32. Vonk AM, van Mourik P, Ramalho AS, Silva IAL, Statia M, Kruisselbrink E, Suen SWF, Dekkers JF, Vleggaar FP, Houwen RHJ, Mullenders J, Boj SF, Vries R, Amaral MD, de Boeck K, van der Ent CK, Beekman JM (2020). Protocol for application, standardization and validation of the forskolin-induced swelling assay in cystic fibrosis human colon organoids. STAR Protoc, 1(1):100019. DOI: 1016/j.xpro.2020.100019
  33. Sereno M, Haskó J, Molnár K, Medina SJ, Reisz Z, Malhó R, Videira M, Tiszlavicz L, Booth SA, Wilhelm I, Krizbai IA, Brito MA (2020) Downregulation of circulating miR 802-5p and miR 194-5p and upregulation of brain MEF2C along breast cancer brain metastasization. Mol Oncol, 14(3):520–538. DOI: 1002/1878-0261.12632
  34. Silva IAL, Doušová T, Ramalho S, Centeio R, Clarke LA, Railean V, Botelho HM, Holubová A, Valášková I, Yeh J-T, Hwang T-C, Farinha CM, Kunzelmann K, Amaral MD (2020) Organoids as a personalized medicine tool for ultra-rare mutations in cystic fibrosis: The case of S955P and 1717-2A>G. Biochim Biophys Acta Mol Basis Dis, 1866(11):165905. DOI: 1016/j.bbadis.2020.165905
  35. Pinto MC, Schreiber R, Lérias J, Ousingsawat J, Duarte A, Amaral M, Kunzelmann K (2020) Regulation of TMEM16A by CK2 and its role in cellular proliferation. Cells, 9(5). DOI: 3390/cells9051138
  36. Silva IAL, Duarte A, Marson FAL, Centeio R, Doušová T, Kunzelmann K, Amaral MD (2020) Assessment of distinct electrophysiological parameters in rectal biopsies for the choice of the best diagnosis/prognosis biomarkers for cystic fibrosis. Front Physiol, 11. DOI: 3389/fphys.2020.604580
  37. Amaral MD, Beekman JM (2020) Activating alternative chloride channels to treat CF: Friends or Foes?: Report on the Meeting of the Basic Science Working Group in Dubrovnik, Croatia. J Cyst Fibros, 19(1):11–15. DOI: 1016/j.jcf.2019.10.005
  38. Amaral MD, Hutt DM, Tomati V, Botelho HM, Pedemonte N (2020) CFTR processing, trafficking and interactions. J Cyst Fibros, 19 Suppl 1, S33–S36. DOI: 1016/j.jcf.2019.10.017
  39. Simão M, Moço M, Marques L, Santos R (2020) Characterization of the glycans involved in sea urchin Paracentrotus lividus reversible adhesion. Marine Biology, 167(9), 125. DOI: 1007/s00227-020-03707-9
  40. Garcia AR, Godinho-Pereira J, Figueira I, Malhó R, Brito MA (2019) Replicating the blood- brain barrier properties in an in vitro model: effects of hydrocortisone and/or shear stress. Archives of Anatomy, 8 (2):1-20.
  41. Vaz Dias F, Serrazina S, Vitorino M, Marchese D, Heilmann I, Godinho M, Rodrigues M, Malhó R (2019) A role for diacylglycerol kinase 4 in signalling crosstalk during Arabidopsis pollen tube growth. New Phytol 222(3), 1434–1446. DOI: 1111/nph.15674
  42. Palma E, Botelho HM, Morais GR, Rodrigues I, Santos IC, Campello MPC, Raposinho P, Belchior A, Gomes SS, Araújo MF, Correia I, Ribeiro N, Gama S, Mendes F, Paulo A (2019) Unravelling the antitumoral potential of novel bis(thiosemicarbazonato) Zn(II) complexes: structural and cellular studies. J Biol Inorg Chem, 24(1):71–89. DOI: 1007/s00775-018-1629-6
  43. Awatade NT, Ramalho S, Silva IAL, Felício V, Botelho HM, de Poel E, Vonk A, Beekman JM, Farinha CM, Amaral MD (2019) R560S: A class II CFTR mutation that is not rescued by current modulators. J Cyst Fibros, 18(2):182–189. DOI: 1016/j.jcf.2018.07.001
  44. Santos JD, Canato S, Carvalho AS, Botelho HM, Aloria K, Amaral MD, Matthiesen R, Falcão AO, Farinha CM (2019) Folding status is determinant over traffic-competence in defining CFTR interactors in the endoplasmic reticulum. Cells, 8(4):353. DOI: 3390/cells8040353
  45. Loureiro CA, Santos JD, Matos AM, Jordan P, Matos P, Farinha CM, Pinto FR (2019) Network biology identifies novel regulators of CFTR trafficking and membrane stability. Front Pharmacol, 10, 619. DOI: 3389/fphar.2019.00619
  46. Patel W, Moore PJ, Sassano MF, Lopes-Pacheco M, Aleksandrov AA, Amaral MD, Tarran R, Gray MA (2019) Increases in cytosolic Ca2+ induce dynamin- and calcineurin-dependent internalisation of CFTR. Cell Mol Life Sci, 76(5):977–994. DOI: 1007/s00018-018-2989-3
  47. Simões FB, Quaresma MC, Clarke LA, Silva IAL, Pankonien I, Railean V, Kmit A, Amaral MD (2019) TMEM16A chloride channel does not drive mucus production. Life Sci Alliance, 2(6). DOI: 26508/lsa.201900462
  48. Dias JNR, Aguiar SI, Pereira DM, André AS, Gano L, Correia JDG, Carrapiço B, Rütgen B, Malhó R, Peleteiro C, Goncalves J, Rodrigues CMP, Gil S, Tavares L, Aires-da-Silva F (2018) The histone deacetylase inhibitor panobinostat is a potent antitumor agent in canine diffuse large B-cell lymphoma. Oncotarget, 9(47):28586-28598. DOI: 18632/oncotarget.25580
  49. Olivença DV, Uliyakina I, Fonseca LL, Amaral MD, Voit EO, Pinto FR (2018) A mathematical model of the phosphoinositide pathway. Sci Rep, 8(1):3904. DOI: 1038/s41598-018-22226-8
  50. Sampaio-Pinto V, Rodrigues SC, Laundos TL, Silva ED, Vasques-Nóvoa F, Silva AC, Cerqueira RJ, Resende TP, Pianca N, Leite-Moreira A, D’Uva G, Thorsteinsdóttir S, Pinto-do-Ó P, Nascimento DS (2018) Neonatal apex resection triggers cardiomyocyte proliferation, neovascularization and functional recovery despite local fibrosis. Stem Cell Reports, 10(3):860–874. DOI: 1016/j.stemcr.2018.01.042
  51. Casimiro MH, Gomes SR, Rodrigues G, Leal JP, Ferreira LM (2018) Chitosan/poly(vinylpyrrolidone) matrices obtained by gamma-irradiation for skin scaffolds: characterization and preliminary cell response studies. Materials (Basel), 11(12). DOI: 3390/ma11122535
  52. Lérias JR, Pinto MC, Botelho HM, Awatade NT, Quaresma MC, Silva IAL, Wanitchakool P, Schreiber R, Pepperkok R, Kunzelmann K, Amaral MD (2018) A novel microscopy-based assay identifies extended synaptotagmin-1 (ESYT1) as a positive regulator of anoctamin 1 traffic. Biochim Biophys Acta Mol Cell Res, 1865(2):421–431. DOI: 1016/j.bbamcr.2017.11.009
  53. Sebastiana M, da Silva AB, Matos AR, Alcântara A, Silvestre S, Malhó R (2018) Ectomycorrhizal inoculation with Pisolithus tinctorius reduces stress induced by drought in cork oak. Mycorrhiza, 28(3):247–258. DOI: 1007/s00572-018-0823-2
  54. Camelo C, Vilas-Boas F, Cepeda AP, Real C, Barros-Martins J, Pinto F, Soares H, Marinho HS, Cyrne, L (2017) Opi1p translocation to the nucleus is regulated by hydrogen peroxide in Saccharomyces cerevisiae. Yeast, 34(9):383–395. DOI: 1002/yea.3240
  55. Gomes S, Rodrigues G, Martins G, Henriques C, Silva JC (2017) Evaluation of nanofibrous scaffolds obtained from blends of chitosan, gelatin and polycaprolactone for skin tissue engineering. Int J Biol Macromol, 102, 1174-1185. DOI: 1016/j.ijbiomac.2017.05.004
  56. Nunes AM, Wuebbles RD, Sarathy A, Fontelonga TM, Deries M, Burkin DJ, Thorsteinsdóttir S (2017) Impaired fetal muscle development and JAK-STAT activation mark disease onset and progression in a mouse model for merosin-deficient congenital muscular dystrophy. Hum Mol Genet, 26(11):2018–2033. DOI: 1093/hmg/ddx083
  57. Igreja S, Clarke LA, Botelho HM, Marques L, Amaral MD (2016) Correction of a cystic fibrosis splicing mutation by antisense oligonucleotides. Human Mutat, 37(2):209–215. DOI: 1002/humu.22931
  58. Gonçalves AB, Thorsteinsdóttir S, Deries M (2016) Rapid and simple method for in vivo ex utero development of mouse embryo explants. Differentiation, 91(4–5):57–67. DOI: 1016/j.diff.2015.12.002
  59. Amaral MD, Farinha CM, Matos P, Botelho HM (2016) Investigating alternative transport of integral plasma membrane proteins from the ER to the Golgi: lessons from the cystic fibrosis transmembrane conductance regulator (CFTR). Methods Mol Biol, 1459, 105–126. DOI: 1007/978-1-4939-3804-9_7
  60. Lebesgue N, da Costa G, Ribeiro RM, Ribeiro-Silva C, Martins GG, Matranga V, Scholten A, Cordeiro C, Heck AJR, Santos R (2016) Deciphering the molecular mechanisms underlying sea urchin reversible adhesion: A quantitative proteomics approach. J Proteomics, 138, 61-71. DOI: 1016/j.jprot.2016.02.026
  61. Silva AC, Rodrigues SC, Caldeira J, Nunes AM, Sampaio-Pinto V, Resende TP, Oliveira MJ, Barbosa MA, Thorsteindóttir S, Pinto-do-Ó P (2016) Three-dimensional scaffolds of fetal decellularized hearts exhibit enhanced potential to support cardiac cells in comparison to the adult. Biomaterials, 104, 52–64. DOI: 1016/j.biomaterials.2016.06.062
  62. Luzio A, Matos M, Santos D, Fontaínhas-Fernandes AA, Monteiro SM, Coimbra AM (2016) Disruption of apoptosis pathways involved in zebrafish gonad differentiation by 17α-ethinylestradiol and fadrozole exposures. Aquat Toxicol, 177, 269–284. DOI: 1016/j.aquatox.2016.05.029
  63. de Almeida PG, Pinheiro GG, Nunes AM, Gonçalves AB, Thorsteinsdóttir S (2016) Fibronectin assembly during early embryo development: A versatile communication system between cells and tissues. Dev Dyn, 245(4):520-535. DOI: 1002/dvdy.24391
  64. Ramalho AS, Clarke LA, Sousa M, Felício V, Barreto C, Lopes C, Amaral MD (2016) Comparative ex vivo, in vitro and in silico analyses of a CFTR splicing mutation: Importance of functional studies to establish disease liability of mutations. J Cyst Fibros, 15(1):21–33. DOI: 1016/j.jcf.2015.02.002
  65. Saavedra L, Catarino R, Heinz T, Heilmann I, Bezanilla M, Malhó RM (2015) Phosphatase and tensin homolog (PTEN) is a growth repressor of both rhizoid and gametophore development in the moss Physcomitrella patens. Plant Physiol, 169(4):2572-2586. DOI: 1104/pp.15.01197
  66. Botelho HM, Uliyakina I, Awatade NT, Proença MC, Tischer C, Sirianant L, Kunzelmann K, Pepperkok R, Amaral MD (2015) Protein traffic disorders: an effective high-throughput fluorescence microscopy pipeline for drug discovery. Sci Rep, 5(1):9038. DOI: 1038/srep09038
  67. Clarke LA, Botelho HM, Sousa L, Falcão AO, Amaral MD (2015) Transcriptome meta-analysis reveals common differential and global gene expression profiles in cystic fibrosis and other respiratory disorders and identifies CFTR regulators. Genomics, 106(5):268–277. DOI: 1016/j.ygeno.2015.07.005
  68. Loureiro CA, Matos AM, Dias-Alves Â, Pereira JF, Uliyakina I, Barros P, Amaral MD, Matos P (2015) A molecular switch in the scaffold NHERF1 enables misfolded CFTR to evade the peripheral quality control checkpoint. Sci Signal, 8(377):ra48. DOI: 1126/scisignal.aaa1580
  69. Verkman AS, Edelman A, Amaral M, Mall MA, Beekman JM, Meiners T, Galietta LJV, Bear CE (2015) Finding new drugs to enhance anion secretion in cystic fibrosis: Toward suitable systems for better drug screening. Report on the pre-conference meeting to the 12th ECFS Basic Science Conference, Albufeira, 25-28 March 2015. J Cyst Fibros, 14(6):700–705. DOI: 1016/j.jcf.2015.10.001
  70. Amaral MD, Balch WE (2015) Hallmarks of therapeutic management of the cystic fibrosis functional landscape. J Cyst Fibros, 14(6):687–699. DOI: 10.1016/j.jcf.2015.09.006