Spoelstra WK, Jacques JM, Gonzalez-Linares R, Nobrega FL, Haagsma AC, Dogterom M, Meijer DH, Idema T, Brouns SJJ, Reese L (2021). CRISPR-based DNA and RNA detection with liquid phase separation. Biophysical Journal 120 (7), 1198-1209.

Bonilla BE, Costa AR, van den Berg DF, van Rossum T, Hagedoorn S, Walinga H, Xiao M, Song W, Haas PJ, Nobrega FL, Brouns SJJ (2021). Genomic characterization of four novel bacteriophages infecting the clinical pathogen Klebsiella pneumoniae. DNA Research, 28:dsab013.

de Jonge PA, Wortelboer K, Scheithauer TPM, van den Born BJH, Zwinderman AK, Nobrega FL, Dutilh BE, Nieuwdorp M, Herrema H (2021). Members of a highly widespread bacteriophage family are hallmarks of metabolic syndrome gut microbiomes. BiorXiv, doi: 10.1101/2021.03.30.437683. 


de Jonge PA, Smit Sibinga DJC, Boright OA, Costa AR, Nobrega FL, Brouns SJJ, Dutilh BE (2020). Development of styrene maleic acid lipid particles (SMALPs) as a tool for studies of phage-host interactions. J Virol, 94:e01559-20.


de Jonge PA, von Meijenfeldt FAB, Costa AR, Nobrega FL, Brouns SJJ, Dutilh BE (2020). Adsorption sequencing (AdsorpSeq) as a rapid method to link environmental bacteriophages to hosts. iScience 23:101439.

Nobrega FL, Hielke Walinga, Bas E Dutilh, Stan JJ Brouns (2020). Prophages are associated with extensive CRISPR-Cas auto-immunity. Nucleic Acid Res, 48:12074-12084. 

Salazar NA, Nobrega FL, Anyansi C, Aparicio-Maldonado C, Costa AR, Haagsma A, Hiraral A, Mahfouz A, McKenzie R, van Rossum R, Brouns SJJ, Abeel T (2020). An educational guide for Nanopore sequencing in the classroom. PLoS Comput Biol 16:e1007314. 


Almendros C, Nobrega FL, McKenzie R, Brouns SJJ (2019). Cas4-Cas1 fusions drive efficient PAM selection and control CRISPR adaptation. Nucleic Acid Res, 47:5223-5230.


Ferreira D, Silva AP, Nobrega FL, Martins IM, Barbosa-Matos C, Granja S, Martins SF, Baltazar F, Rodrigues LR (2019). Rational identification of a colorectal cancer targeting peptide through phage display. Sci Rep 9:3858.


Edwards R, Nobrega FL, Dutilh B, et al (2019). Global phylogeography and ancient evolution of the widespread human gut virus crAssphage. Nat Microbiol 4:1727-1736.


Trasanidou D, Gerós A, Mohanraju P, Nieuwenweg C, Nobrega FL, Staals RHJ. Keeping CRISPR in check: diverse mechanisms of phage-encoded anti-CRISPRs. FEMS Microbiol Lett, 366:fnz098. 


Koopal B, Kruis AJ, Claassens NJ, Nobrega FL, van der Oost J (2019). Incorporation of a synthetic amino acid into dCas9 improves control of gene silencing. ACS Synth Biol, 8:216-222.


Tytgat HLP, Nobrega FL, van der Oost J, de Vos WM (2019). Biofilms in the gut: tipping points between a healthy and compromised state. Trends Microbiol, 27:17-25.


De Jonge PA, Nobrega FL, Brouns SJJ, Dutilh BE (2019). Molecular and evolutionary determinants of phage host-range. Trends Microbiol, 27:51-63.


Nobrega FL, Vlot M, de Jonge PA, Dreesens LL, Beaumont HJE, Lavigne R, Dutilh BE, Brouns SJJ (2018). Targeting mechanisms of tailed phages. Nat Rev Microbiol, 16:760-773.


Costa AR, Brouns SJJ, Nobrega FL (2018). Complete genome sequences of two T4-like Escherichia coli phages. Genome Announc, 28:e00586-18.


Santos SB, Costa AR, Carvalho C, Nobrega FL, Azeredo A (2018). Exploiting phage proteomes: the hidden biotechnological potential. Trends Biotechnol, 36:966-984.


Kieper SN, Almendros C, Behler J, McKenzie RE, Nobrega FL, Haagsma AC, Vink JNA, Hess WR, Brouns SJJ (2018). Cas4 facilitates PAM-compatible spacer selection during CRISPR adaptation. Cell Rep, 22:3377-3384.


Volt M, Nobrega FL, Wong CFA, Liu Y, Bourns SJJ (2018). Complete genome sequence of the Escherichia coli phage Ayreon. Genome Announc 6(2):e01354-17.


Nobrega FL, Lavigne R, Brouns SJJ (2017). Revival of Phage Therapy. In: Mighty Microbes – The amazing world of microorgansims Eds. Oudega B et al. Stichting Microcanon.


Nobrega FL, Costa AR, Santos JF, Siliakus MF, van Lent JWM, Kengen SWM, Azeredo J, Kluskens LD (2016). Genetically manipulated phages with improved pH resistance for oral administration in veterinary medicine. Sci Rep, 6:39235.


Nobrega FL, Ferreira D, Martins IM, Suarez-Diez M, Azeredo J, Kluskens LD, Rodrigues LR (2016). Screening and characterization of novel specific peptides targeting MDA-MB-231 claudin-low breast carcinoma by computer-aided phage display methodologies. BMC Cancer, 16(1):881-894.


Silva VL, Ferreira D, Nobrega FL, Martins IM, Rodrigues L, Kluskens LD (2016). Selection of novel peptides homing the 4T1 cell line: exploring alternative targets for triple negative breast cancer. PloS ONE, 11(8):e0161290.



Nobrega FL, Costa AR, Kluskens LD, Azeredo J (2015). Revisiting phage therapy: new applications for old resources. Trends Microbiol, 23(4):185-191. 



Oliveira H, Melo LDR, Santos SB, Nobrega FL, Ferreira EC, Cerca N, Azeredo J, Kluskens LD (2013). Molecular aspects and comparative genomics of bacteriophage endolysins. J Virol, 87(8):4558-4570.


Vegas A, Mando J, Nobrega FL, Cabrita EJ (2011). Saturation-Transfer Difference (STD) NMR – A simple and fast method for ligand screening and characterization of protein binding. J Chem Educ, 88(7):990-994.


Silva M, Nobrega FL, Cabrita EJ, Casimiro T, Aguiar-Ricardo A (2011). Development of molecularly imprinted co-polymeric devices for controlled delivery of flufenamic acid using supercritical fluid technology. J Supercrit Fluid, 58(1):150-157.