Publications

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Journal Article
Veigas, Bruno, Alexandra R. Fernandes, and Pedro V. Baptista. "AuNPs for identification of molecular signatures of resistance." Frontiers in Microbiology 5 (2014). Abstract

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Bernacka-Wojcik, Iwona, Paulo Lopes, Ana Catarina Vaz, Bruno Veigas, Pawel Jerzy Wojcik, Pedro Simões, David Barata, Elvira Fortunato, Pedro V. Baptista, Hugo Águas, and Rodrigo Martins. "Bio-microfluidic platform for gold nanoprobe based DNA detection—application to Mycobacterium tuberculosis." Biosens Bioelectron 48 (2013): 87-93. AbstractWebsite

We have projected and fabricated a microfluidic platform for DNA sensing that makes use of an optical colorimetric detection method based on gold nanoparticles. The platform was fabricated using replica moulding technology in PDMS patterned by high-aspect-ratio SU-8 moulds. Biochips of various geometries were tested and evaluated in order to find out the most efficient architecture, and the rational for design, microfabrication and detection performance is presented. The best biochip configuration has been successfully applied to the DNA detection of Mycobacterium tuberculosis using only 3 µl on DNA solution (i.e. 90 ng of target DNA), therefore a 20-fold reduction of reagents volume is obtained when compared with the actual state of the art.

Cordeiro, Milton, Leticia Giestes, Joao Carlos Lima, and Pedro Baptista. "BioCode gold-nanobeacon for the detection of fusion transcripts causing chronic myeloid leukemia." Journal of Nanobiotechnology 38 (2016). AbstractWebsite

Background
Gold-nanobeacons (Au-nanobeacons) have proven to be versatile systems for molecular diagnostics and therapeutic actuators. Here, we present the development and characterization of two gold nanobeacons combined with Förster resonance energy transfer (FRET) based spectral codification for dual mode sequence discrimination. This is the combination of two powerful technologies onto a single nanosystem.

Results
We proved this concept to detect the most common fusion sequences associated with the development of chronic myeloid leukemia, e13a2 and e14a2. The detection is based on spectral shift of the donor signal to the acceptor, which allows for corroboration of the hybridization event. The Au-nanobeacon acts as scaffold for detection of the target in a homogenous format whose output capability (i.e. additional layer of information) is potentiated via the spectral codification strategy.

Conclusions
The spectral coded Au-nanobeacons permit the detection of each of the pathogenic fusion sequences, with high specificity towards partial complementary sequences. The proposed BioCode Au-nanobeacon concept provides for a nanoplatform for molecular recognition suitable for cancer diagnostics.

Baptista, Pedro Viana. "Cancer Nanotechnology - Prospects for Cancer Diagnostics and Therapy." Current Cancer Therapy Reviews 5 (2009): 80-88.
Mendo, Ana Soraia, Sara Figueiredo, Catarina Roma-Rodrigues, Paula A. Videira, Zhen Ma, Mário Diniz, Miguel Larguinho, Pedro Costa, João C. Lima, Armando J. L. Pombeiro, Pedro V. Baptista, and Alexandra R. Fernandes. "Characterization of antiproliferative potential and biological targets of a copper compound containing 4'-phenyl terpyridine." JBIC Journal of Biological Inorganic Chemistry 2 (2015): 935-948. AbstractWebsite

Several copper complexes have been assessed as anti-tumor agents against cancer cells. In this work, a copper compound [Cu(H2O){OS(CH3)2}L](NO3)2 incorporating the ligand 4'-phenyl-terpyridine antiproliferative activity against human colorectal, hepatocellular carcinomas and breast adenocarcinoma cell lines was determined, demonstrating high cytotoxicity. The compound is able to induce apoptosis and a slight delay in cancer cell cycle progression, probably by its interaction with DNA and induction of double-strand pDNA cleavage, which is enhanced by oxidative mechanisms. Moreover, proteomic studies indicate that the compound induces alterations in proteins involved in cytoskeleton maintenance, cell cycle progression and apoptosis, corroborating its antiproliferative potential.

Carlos, Fábio Ferreira, Orfeu Flores, Gonçalo Doria, and Pedro Viana Baptista. "Characterization of genomic SNP via colorimetric detection using a single gold nanoprobe." Analytical Biochemistry 465 (2014): 1-5. AbstractWebsite

Identification of specific nucleic acid sequences mediated by gold nanoparticles derivatized thiol-modified oligonucleotides (Au-nanoprobes) has been proven to be a useful tool in molecular diagnostics. Here, we demonstrate that, on optimization, detection may be simplified via the use of a single Au-nanoprobe to detect a single nucleotide polymorphism (SNP) in homo- or heterozygote condition. We validated this non-cross-linking approach through the analysis of 20 clinical samples using a single specific Au-nanoprobe for an SNP in the FTO (fat mass and obesity-associated) gene against direct DNA sequencing. Sensitivity, specificity, and limit of detection (LOD) were determined, and statistical differences were calculated by one-way analysis of variance (ANOVA) and a post hoc Tukey's test to ascertain whether there were any differences between Au-nanoprobe genotyped groups. For the first time, we show that the use of a single Au-nanoprobe can detect SNP for each genetic status (wild type, heterozygous, or mutant) with high degrees of sensitivity (87.50%) and specificity (91.67%).

Cabral, Rita, and Pedro V. Baptista. "THE CHEMISTRY AND BIOLOGY OF GOLD NANOPARTICLE-MEDIATED PHOTOTHERMAL THERAPY: PROMISES AND CHALLENGES." Nano Life 3 (2013): 330001. AbstractWebsite

Under laser radiation, cells labeled with gold nanoparticles (AuNPs) are believed to suffer thermal damage due to the transfer of the absorbed light from the AuNPs to the cells. This process, which involves complex mechanisms such as the rapid electron–phonon decay in the AuNPs, followed by phonon–phonon relaxation, culminates in the localized heating of both the AuNPs and the cells, setting the rational for the use of these nanostructures, under laser light, in cancer photothermal therapy (PTT). Here, we discuss the chemical and biological aspects of this promising new therapeutic approach, including the advantages over conventional cancer therapies and the challenges that scientists still need to overcome to progress toward translation research

Vinhas, Raquel, Claudia Correia, Patricia Ribeiro, Alexandra Lourenco, Aida Botelho de Sousa, Alexandra R. Fernandes, and Pedro V. Baptista. "Colorimetric assessment of BCR-ABL1 transcripts in clinical samples via gold nanoprobes." Analytical and Bioanalytical Chemistry 408 (2016): 5277-5284. Abstract

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Baptista, P., G. Doria, D. Henriques, E. Pereira, and R. Franco. "Colorimetric detection of eukaryotic gene expression with DNA-derivatized gold nanoparticles." Journal of Biotechnology 119 (2005): 111-117. Abstract

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Pedrosa, Pedro, Rita Mendes, Rita Cabral, Luisa M. D. R. S. Martins, Pedro V. Baptista, and Alexandra R. Fernandes. "Combination of chemotherapy and Au-nanoparticle photothermy in the visible light to tackle doxorubicin resistance in cancer cells." Scientific Reports 8 (2018). Abstract

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FLOMEN, R., PB BAPTISTA, CH JAMES, and al.et. "Construction of a YAC/PAC physical map of a gene rich region in 1p13.3." EUROPEAN JOURNAL OF HUMAN GENETICS 6 (1998): 168. Abstract

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Machado, Diana, Isabel Couto, João Perdigão, Liliana Rodrigues, Isabel Portugal, Pedro Baptista, Bruno Veigas, Leonard Amaral, and Miguel Viveiros. "Contribution of efflux to the emergence of isoniazid and multidrug resistance in Mycobacterium tuberculosis." PLoS ONE 7 (2012): e34538.
Baptista, Pedro Viana. "Could gold nanoprobes be an important tool in cancer diagnostics?" Expert Review of Molecular Diagnostics 12 (2012): 541-543. Abstract

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Roma-Rodrigues, C., A. R. Fernandes, and P. V. Baptista. "Counteracting the effect of leukemia exosomes by antiangiogenic gold nanoparticles." Int J Nanomedicine 14 (2019): 6843-6854. AbstractWebsite

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Cordeiro, M., L. Giestas, J. C. Lima, and Pedro Viana Baptista. "Coupling an universal primer to SBE combined spectral codification strategy for single nucleotide polymorphism analysis." J Biotechnol 168 (2013): 90-94. AbstractWebsite

We previously reported a strategy that combines Förster resonance energy transfer (FRET) based spectral codification with a single base extension (SBE) reaction for single nucleotide sequence discrimination in solution. This strategy is capable of unequivocally detect the allele variants present in solution. To extend the use of this tool to any locus of interest, it would be required the development of an universal approach capable of combining a sequence specific SBE primer to an universal sequence labeled and optimized for spectral codification.
Here, we extend this concept to a general strategy by means of a labeled universal oligonucleotide primer (donor), a sequence specific primer that allows for incorporation of the complementary acceptor labeled ddNTP, which allows discrimination the allele variant in the sample via the unambiguous FRET signature of the donor/acceptor pair.

Giestas, L., J. C. Lima, and P. V. Baptista. "Coupling single base extension to a spectral codification tool for increased throughput screening." J Biotechnol 154 (2011): 199-204. AbstractWebsite

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Vinhas, Raquel, Milton Cordeiro, Pedro Pedrosa, Alexandra R. Fernandes, and Pedro V. Baptista. "Current trends in molecular diagnostics of chronic myeloid leukemia." Leukemia & Lymphoma (2016): 1-14. AbstractWebsite

Nearly 1.5 million people worldwide suffer from chronic myeloid leukemia (CML), characterized by the genetic translocation t(9;22)(q34;q11.2), involving the fusion of the Abelson oncogene (ABL1) with the breakpoint cluster region (BCR) gene. Early onset diagnosis coupled to current therapeutics allow for a treatment success rate of 90, which has focused research on the development of novel diagnostics approaches. In this review, we present a critical perspective on current strategies for CML diagnostics, comparing to gold standard methodologies and with an eye on the future trends on nanotheranostics.

Conde, Joao, Alfredo Ambrosone, Vanesa Sanz, Yulan Hernandez, Valentina Marchesano, Furong Tian, Hannah Child, Catherine C. Berry, Ricardo M. Ibarra, Pedro V. Baptista, Claudia Tortiglione, and Jesus M. de la Fuente. "Design of Multifunctional Gold Nanoparticles for In Vitro and In Vivo Gene Silencing." Acs Nano 6 (2012): 8316-8324. Abstract

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Conde, J., A. Ambrosone, Y. Hernandez, V. Marchesano, F. Tian, M. Ricardo Ibarra, P. V. Baptista, C. Tortiglione, and J. M. de la Fuente. "Designing gold nanoparticles for in vivo gene silencing as a new therapeutic tool." Human Gene Therapy 24 (2013): A24. Abstract

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Larguinho, Miguel, Hugo M. Santos, Gonçalo Doria, H. Scholz, Pedro V. Baptista, and José L. Capelo. "Development of a fast and efficient ultrasonic-based strategy for DNA fragmentation." J. Talanta 81 (2010): 881-886.
Coelho, Beatriz, Bruno Veigas, Elvira Fortunato, Rodrigo Martins, Hugo Aguas, Rui Igreja, and Pedro V. Baptista. "Digital Microfluidics for Nucleic Acid Amplification." Sensors 17 (2017). Abstract

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Coelho, Beatriz Jorge, Bruno Veigas, Hugo Aguas, Elvira Fortunato, Rodrigo Martins, Pedro Viana Baptista, and Rui Igreja. "A Digital Microfluidics Platform for Loop-Mediated Isothermal Amplification Detection." Sensors 17 (2017). Abstract

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