Soares F, Roque R, Hellwig P, Benndorf D and Santos PM (2026) Multi-omics characterization of β-myrcene-evolved Pseudomonas sp. M1 reveals convergent FleQ mutations and altered catabolic efficiency. Front. Mol. Biosci. 13:1800048. doi: 10.3389/fmolb.2026.1800048

Mesquita, C. S., Soares-Castro, P., Ferreira, M., Sequeira, M., Eira, C., & Santos, P. M. (2025). Microbiota of the oral cavity in pygmy sperm whales: first insights from stranded specimens. Academia Biology, 3(2). https://doi.org/10.20935/AcadBiol7760

Soares-Castro P, Soares F and Santos PM (2021). Current advances in the bacterial toolbox for the biotechnological production of monoterpene-based aroma compounds. Molecules, 26(1): 91. doi: 10.3390/molecules26010091.

Godoy-Vitorino F, Rodriguez-Hilario A, Alves AL, Gonçalves F, Cabrera-Colon B, Mesquita CS, Soares-Castro P, Ferreira M, Marçalo A, Vingada J, Eira C and Santos PM (2017) The microbiome of a striped dolphin (Stenella coeruleoalba) stranded in Portugal. Res Microbiol, 168: 85-93. doi: 10.1016/j.resmic.2016.08.004.

Mesquita CS, Soares-Castro P, Faustino A, Santos HM, Capelo JL and Santos PM (2019). Identification of genomic loci associated with genotypic and phenotypic variation among Pseudomonas aeruginosa clinical isolates from pneumonia. Microb Pathog, 136: 103702. doi: 10.1016/j.micpath.2019.103702.

Soares-Castro P, Yadav TC, Viggor S, Kivisaar M, Kapley A and Santos PM (2019). Seasonal bacterial community dynamics in a crude oil refinery wastewater treatment plant. Appl Microbiol Biotechnol, 103: 9131-9141. doi: 10.1007/s00253-019-10130-8.

Soares-Castro P and Santos PM (2014). Deciphering the genome repertoire of Pseudomonas sp. M1 toward ß-myrcene biotransformation. Genome Biol Evol, 7:1-17. doi: 10.1093/gbe/evu254.

Soares-Castro P and Santos PM (2013). Towards the description of the genome catalogue of Pseudomonas sp. strain M1. Genome Announc, 1:pii:e00146-12. doi: 10.1128/genomeA.00146-12.

Soares-Castro P, Marques D, Demyanchuk S, Faustino A and Santos PM (2011). Draft genome sequences of two Pseudomonas aeruginosa clinical isolates with different antibiotic susceptibilities. J Bacteriol, 193:5573 (cover issue of The Journal of Bacteriology vol19). doi: 10.1128/JB.05446-11.

Reis F, Soares-Castro P, Costa D, Tavares RM, Baptista P, Santos PM and Lino-Neto T (2019). Climatic impacts on the bacterial community profiles of cork oak soils. Applied soil ecology, 143: 89-97. doi: 10.1016/j.apsoil.2019.05.031.

Soares-Castro P, Montenegro-Silva P, Heipieper HJ and Santos PM (2017). Functional characterization of a 28-kb catabolic island from Pseudomonas sp. M1 involved in biotransformation of β-myrcene and related plant-derived volatiles. Appl Environ Microbiol, 83: e03112-16. doi: 10.1128/AEM.03112-16.

Sousa SA, Soares-Castro P, Seixas AM, Feliciano JR, Balugas B, Barreto C, Pereira L, Santos PM and Leitão JH (2020). New insights into the immunoproteome of B. cenocepacia J2315 using serum samples from cystic fibrosis patients. N Biotechnol, 54: 62-70. doi: 10.1016/j.nbt.2019.08.006.

Soares-Castro P, Araújo-Rodrigues H, Godoy-Vitorino F, Ferreira M, Covelo P, López A, Vingada J, Eira C and Santos PM (2019). Microbiota fingerprints within the oral cavity of cetaceans as indicators for population biomonitoring. Sci Rep, 9:1-15. doi: 10.1038/s41598-019-50139-7.

Viggor S, Jõesaar M, Soares-Castro P, Ilmjärv T, Santos PM, Kapley A and Kivisaar M (2020). Microbial metabolic potential of phenol degradation in wastewater treatment plant of crude oil refinery: analysis of metagenomes and characterization of isolates. Microorganisms, 8: 652. doi: 10.3390/microorganisms8050652.

Silva IN, Santos PM, Moreira LM (2015). Draft genome sequences of two Burkholderia multivorans sequential isolates from a chronic lung infection of a cystic fibrosis patient. Genome Announc, 3: e01531-14. doi: 10.1128/genomeA.01531-14.

Freschi L, Jeukens J, Kukavica-Ibrulj I, Boyle B, Dupont M-J, Laroche J et al (2015). Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium. Front Microbiol, 6: 1036. doi: 10.3389/fmicb.2015.01036.

Baptista P, Reis F, Pereira E, Tavares RM, Santos PM, Richard F, Selosse MA and Lino-Neto T (2015). Soil DNA pyrosequencing and fruitbody surveys reveal contrasting diversity for various fungal ecological guilds in chestnut orchards. Environ Microbiol Rep, 7: 946–954. doi: 10.1111/1758-2229.12336.

Silva IN, Santos PM, Santos MR, Zlosnik JEA, Speert DP, Buskirk SW, Bruger EL, et al (2016). Long-term evolution of Burkholderia multivorans during a chronic cystic fibrosis infection reveals shifting forces of selection. mSystems, 1: e00029-16. doi: 10.1128/mSystems.00029-16.

Barros D, Pradhan A, Mendes VM, Manadas B, Santos PM, Pascoal C and Cássio F (2019). Proteomics and antioxidant enzymes reveal different mechanisms of toxicity induced by ionic and nanoparticulate silver in bacteria. Environ Sci Nano, 6: 1207-1218. doi: 10.1039/c8en01067f.

Costa D, Fernandes T, Martins F, Pereira JA, Tavares RM, Santos PM, Baptista P and Lino-Neto T (2021). Illuminating Olea europaea L. endophyte fungal community. Microbiol Res, 245: 126693. doi: 10.1016/j.micres.2020.126693.

Soares-Castro P, Soares F, Reis F, Lino-Neto T, Santos PM (2023) Bioprospection of the bacterial β-myrcene-biotransforming trait in the rhizosphere Appl Microbiol Biotechnol 107, 5209–5224. doi: 10.1007/s00253-023-12650-w

Mesquita CS, Ribeiro A, Gomes AC, Santos PM (2021) Absence of Light Exposure Increases Pathogenicity of Pseudomonas aeruginosa Pneumonia-Associated Clinical Isolates. Biology, 10, 837, doi: 10.3390/biology10090837