Publications

Filter by type:

(2023). Seasonal and Spatially Distributed Viral Metagenomes from Comau Fjord (42° S), Patagonia. In: Microbiology Resource Announcements, pp. e00082–23.

PDF Pubmed

(2023). Role of Microbes in the degradation of organic semivolatile compounds in polar ecosystems: A review. In: Science of The Total Environment, pp. 163046.

PDF Pubmed

(2023). Nasal Bacteriomes of Patients with Asthma and Allergic Rhinitis Show Unique Composition, Structure, Function and Interactions. In: Microorganisms, (11), 3, pp. 683.

PDF PubMed

(2023). Levels of persistent organic pollutants (POPs) in the Antarctic atmosphere over time (1980 to 2021) and estimation of their atmospheric half-lives.. In: Atmospheric Chemistry and Physics Discussions, pp. 1–28.

PDF Copernicus

(2023). Continuous bioreactors enable high-level bioremediation of diesel-contaminated seawater at low and mesophilic temperatures using Antarctic bacterial consortia: Pollutant analysis and microbial community composition. In: Environmental Pollution, (321), pp. 121139.

PDF PubMed

(2023). A First Insight into the Microbial and Viral Communities of Comau Fjord—A Unique Human-Impacted Ecosystem in Patagonia (42° S). In: Microorganisms, (11), 4, pp. 904.

PDF Microorganisms

(2022). Transcriptomic analyses reveal increased expression of dioxygenases, monooxygenases, and other metabolizing enzymes involved in anthracene degradation in the marine alga Ulva lactuca. In: Frontiers in Plant Science, (13).

PDF Pubmed

(2022). The Genome of the Marine Alga Ulva compressa (Chlorophyta) Reveals Protein-Coding Genes with Similarity to Plants and Green Microalgae, but Also to Animal, Bacterial, and Fungal Genes. In: International Journal of Molecular Sciences, (23), 13, pp. 7279.

PDF Pubmed

(2022). Source and acquisition of rhizosphere microbes in Antarctic vascular plants. In: Frontiers in microbiology, pp. 3376.

PDF Pubmed

(2022). Predicting climate change-related genetic offset for the endangered southern South American conifer Araucaria araucana. In: Forest Ecology and Management, (504), pp. 119856.

PDF Journal

(2022). Nasopharyngeal metatranscriptome profiles of infants with bronchiolitis and risk of childhood asthma: a multicentre prospective study. In: European Respiratory Journal, (60), 1.

PDF Pubmed

(2022). Long-term interactions of salmonella enteritidis with a lytic phage for 21 days in high nutrients media. In: Frontiers in cellular and infection microbiology, pp. 596.

PDF Pubmed

(2022). Influence of Physical-Chemical Soil Parameters on Microbiota Composition and Diversity in a Deep Hyperarid Core of the Atacama Desert. In: Frontiers in Microbiology, (12).

PDF Pubmed

(2022). Comparative Analysis of Metagenomics and Metataxonomics for the Characterization of Vermicompost Microbiomes. In: Frontiers in microbiology.

PDF Pubmed

(2022). Annotating unknown species of urban microorganisms on a global scale unveils novel functional diversity and local environment association. In: Environmental Research, (207), pp. 112183.

PDF Pubmed

(2021). Rhodococcus comparative genomics reveals a phylogenomic-dependent non-ribosomal peptide synthetase distribution: insights into biosynthetic gene cluster connection to an orphan metabolite. In: Microbial genomics, (7), 7.

PDF PubMed

(2021). Radiation-induced toxicity in rectal epithelial stem cell contributes to acute radiation injury in rectum. In: Stem Cell Research & Therapy, (12), 1, pp. 1–14.

PDF PubMed

(2021). Phosphate-Arsenic Interactions in Halophilic Microorganisms of the Microbial Mat from Laguna Tebenquiche: from the Microenvironment to the Genomes. In: Microbial Ecology, 81(4):, pp. 941-953.

PDF PubMed

(2021). Patterns of the fecal microbiota in the Juan Fernández fur seal (Arctocephalus philippii). In: MicrobiologyOpen, (10), 4, pp. e1215.

PDF PubMed

(2021). Living to the High Extreme: Unraveling the Composition, Structure, and Functional Insights of Bacterial Communities Thriving in the Arsenic-Rich Salar de Huasco Altiplanic Ecosystem. In: Microbiology Spectrum, (9) 1, pp. e00444-21.

PDF PubMed

(2021). Genetic characterization of salmonella infantis with multiple drug resistance profiles isolated from a poultry-farm in Chile. In: Microorganisms, (9), 11, pp. 2370.

PDF PubMed

(2021). Composition and structure of the skin microbiota of rorquals off the Eastern South Pacific. In: FEMS Microbiology Ecology, (97), 5, pp. fiab050.

PDF PubMed

(2021). COVID-19 drug practices risk antimicrobial resistance evolution. In: The Lancet Microbe, (2), 4, pp. e135–e136.

PDF PubMed

(2021). A global metagenomic map of urban microbiomes and antimicrobial resistance. In: Cell, (184), 13, pp. 3376–3393.

PDF PubMed

(2020). Origin, genomic diversity and microevolution of the Clostridium difficile B1/NAP1/RT027/ST01 strain in Costa Rica, Chile, Honduras and Mexico. Microbial Genomics, https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000355.

PDF PubMed

(2020). Monitoring the occurrence of microplastic ingestion in Otariids along the Peruvian and Chilean coasts. Marine Pollution Bulletin, https://www.sciencedirect.com/science/article/abs/pii/S0025326X20300849.

PDF PubMed

(2020). In infants with severe bronchiolitis: dual-transcriptomic profiling of nasopharyngeal microbiome and host response. Pediatric Research, https://www.nature.com/articles/s41390-019-0742-8.

PDF PubMed

(2020). Copper-induced concomitant increases in photosynthesis, respiration, and C, N and S assimilation revealed by transcriptomic analyses in Ulva compressa (Chlorophyta). BMC plant biology, https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-019-2229-5.

PDF PubMed

(2020). Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment. Nature Medicine, https://www.nature.com/articles/s41591-020-0894-4.

PDF PubMed

(2020). Biotransformation of 2, 4, 6-Trinitrotoluene by Pseudomonas sp. TNT3 isolated from Deception Island, Antarctica. Environmental Pollution, https://www.sciencedirect.com/science/article/pii/S0269749119320378.

PDF PubMed

(2020). Sequences of Endophytic Fungal and Bacterial Communities from Araucaria araucana [(Molina) K. Koch, 1869] in the Coastal and Andes Mountain Ranges, Chile. In: Microbiology Resource Announcements, (9), 27, pp. e00544–20.

PDF PubMed

(2020). Rapid sequence modification in the highly polymorphic region (HPR) of the hemagglutinin gene of the infectious salmon anaemia virus (ISAV) suggests intra-segmental template switching recombination. In: Journal of Fish Diseases, 00, pp. 1–14.

PDF PubMed

(2020). Genomic variation and arsenic tolerance emerged as niche specific adaptations by different Exiguobacterium strains isolated from the extreme Salar de Huasco environment in Chilean--Altiplano. In: Frontiers in Microbiology, (11), pp. 1632.

PDF PubMed

(2020). Evaluation of computational methods for human microbiome analysis using simulated data. In: PeerJ, (8), pp. e9688.

PDF PubMed

(2019). Variability in Genomic and Virulent Properties of Porphyromonas gingivalis Strains Isolated From Healthy and Severe Chronic Periodontitis Individuals. Frontiers in Cellular and Infection Microbiology, https://www.frontiersin.org/articles/10.3389/fcimb.2019.00246/full.

PDF PubMed

(2019). The Transcription Factor ArcA Modulates Salmonella’s Metabolism in Response to Neutrophil Hypochlorous Acid-Mediated Stress. Frontiers in Microbiology, https://www.frontiersin.org/articles/10.3389/fmicb.2019.02754/full.

PDF PubMed

(2019). Global genetic cartography of urban metagenomes and anti-microbial resistance. BioRxiv, https://www.biorxiv.org/content/10.1101/724526v4.

PDF BioRxiv

(2019). Arsenic response of three altiplanic Exiguobacterium strains with different tolerance levels against the metalloid species: a proteomics study. Frontiers in Microbiology, https://www.frontiersin.org/articles/10.3389/fmicb.2019.02161/full.

PDF PubMed

(2019). Analysis of co-regulated abundance of genes associated with arsenic and phosphate metabolism in Andean Microbial Ecosystems. BioRxiv, https://www.biorxiv.org/content/10.1101/870428v1.abstract.

PDF BioRxiv

(2019). Altered middle ear microbiome in children with chronic otitis media with effusion and respiratory illnesses. Frontiers in Cellular and Infection Microbiology, https://www.frontiersin.org/articles/10.3389/fcimb.2019.00339/full.

PDF PubMed

(2019). A first insight into the structure and function of rhizosphere microbiota in Antarctic plants using shotgun metagenomic. Polar Biology, https://link.springer.com/article/10.1007/s00300-019-02556-7.

PDF HTML

(2019). In-Depth Genomic and Phenotypic Characterization of the Antarctic Psychrotolerant Strain Pseudomonas sp. MPC6 Reveals Unique Metabolic Features, Plasticity, and Biotechnological Potential. Frontiers in Microbiology, https://www.frontiersin.org/articles/10.3389/fmicb.2019.01154/full.

PDF PubMed

(2019). Genomic and Physiological Traits of the Marine Bacterium Alcaligenes aquatilis QD168 Isolated From Quintero Bay, Central Chile, Reveal a Robust Adaptive Response to Environmental Stressors. Frontiers in Microbiology, https://www.frontiersin.org/articles/10.3389/fmicb.2019.00528/full.

PDF PubMed

(2018). The transcription factor SlyA from Salmonella Typhimurium regulates genes in response to hydrogen peroxide and sodium hypochlorite. Research in Microbiology, https://doi.org/10.1016/j.resmic.2018.04.003.

PDF PubMed

(2018). The Tracheal Microbiota in Patients with a Tracheostomy Before, During, and After an Acute Respiratory Infection.. The Pediatric infectious disease journal, https://journals.lww.com/pidj/Abstract/publishahead/The_Tracheal_Microbiota_in_Patients_with_a.96738.aspx.

PDF HTML

(2018). Mutation and recombination in pathogen evolution: Relevance, methods and controversies. Infection, Genetics and Evolution, https://doi.org/10.1016/j.meegid.2017.09.029.

PDF PubMed

(2018). Microbial sequence typing in the genomic era. Infection, Genetics and Evolution, https://doi.org/10.1016/j.meegid.2017.09.022.

PDF PubMed

(2018). Metagenomic exploration of soils microbial communities associated to Antarctic vascular plants. PeerJ Preprints, https://10.7287/peerj.preprints.26508v1.

PDF PrePrint

(2018). Genomic Analysis of 48 Paenibacillus larvae Bacteriophages. Viruses, http://www.mdpi.com/1999-4915/10/7/377.

PDF HTML

(2018). Genome sequence of two members of the chloroaromatic-degrading MT community: Pseudomonas reinekei MT1 and Achromobacter xylosoxidans MT3. Journal of Biotechnology, (275), pp. 13-16, https://doi.org/10.1016/j.jbiotec.2018.03.019.

PDF PubMed

(2018). Cyclic AMP regulates bacterial persistence through repression of the oxidative stress response and SOS-dependent DNA repair in uropathogenic Escherichia coli. mBio, (9), 1, https://doi.org/10.1128/mBio.02144-17.

PDF PubMed

(2018). Copper-induced increased expression of genes involved in photosynthesis, carotenoid synthesis and C assimilation in the marine alga Ulva compressa. BMC Genomics, https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-5226-4.

PDF HTML

(2018). Complete genome sequence of the marine Rhodococcus sp. H-CA8f isolated from Comau fjord in Northern Patagonia, Chile. Marine Genomics, https://doi.org/10.1016/j.margen.2018.01.004.

PDF HTML

(2018). Comparative genomic analysis of a new tellurite-resistant Psychrobacter strain isolated from the Antarctic Peninsula. PeerJ, (2018), 2, https://doi.org/10.7717/peerj.4402.

PDF PubMed

(2017). The temporal dynamics of the tracheal microbiome in tracheostomised patients with and without lower respiratory infections. PLoS ONE, (12), 8, https://doi.org/10.1371/journal.pone.0182520.

PDF PubMed

(2017). Multilocus Sequence Typing of Pathogens: Methods, Analyses, and Applications. Methods, Analyses, and Applications.. Genetics and Evolution of Infectious Diseases: Second Edition, pp. 383-404, https://doi.org/10.1016/B978-0-12-799942-5.00016-0.

PDF HTML

(2017). Genome sequence of streptomyces sp. H-KF8, a marine actinobacterium isolated from a northern chilean patagonian fjord. Genome Announcements, (5), 6, https://doi.org/10.1128/genomeA.01645-16.

PDF PubMed

(2017). Draft genome sequences of five Enterococcus species isolated from the gut of patients with suspected Clostridium difficile infection. Genome Announcements, (5), 20, https://doi.org/10.1128/genomeA.00379-17.

PDF PubMed

(2017). DNA Barcoding analysis of seafood accuracy in Washington, D.C. restaurants. PeerJ, https://peerj.com/articles/3234/.

PDF HTML

(2017). Computational Methods for Human Microbiome Analysis. Current protocols in microbiology, (47), pp. 1E.14.1-1E.14.17, https://doi.org/10.1002/cpmc.41.

PDF PubMed

(2017). Comparative genomics analysis of a new Exiguobacterium strain from salar de huasco reveals a repertoire of stress-related genes and arsenic resistance. Frontiers in Microbiology, (8), MAR, https://doi.org/10.3389/fmicb.2017.00456.

PDF PubMed

(2016). Redefining Healthy Urine: A Cross-Sectional Exploratory Metagenomic Study of People With and Without Bladder Dysfunction. Journal of Urology, (196), 2, pp. 579-587, https://doi.org/10.1016/j.juro.2016.01.088.

PDF PubMed

(2016). Metataxonomic and metagenomic approaches vs. culture-based techniques for clinical pathology. Frontiers in Microbiology, (7), APR, https://doi.org/10.3389/fmicb.2016.00484.

PDF PubMed

(2016). Genome sequence of Clostridium paraputrificum 373-A1 isolated in Chile from a patient infected with Clostridium difficile. Genome Announcements, (4), 6, https://doi.org/10.1128/genomeA.01178-16.

PDF PubMed

(2016). Draft genome sequence of a multi-metal resistant bacterium Pseudomonas putida ATH-43 isolated from Greenwich Island, Antarctica. Frontiers in Microbiology, (7), NOV, https://doi.org/10.3389/fmicb.2016.01777.

PDF PubMed

(2015). Integrating microbial and host transcriptomics to characterize asthma-associated microbial communities. BMC Medical Genomics, (8), 1, https://doi.org/10.1186/s12920-015-0121-1.

PDF PubMed

(2015). Dual transcriptomic profiling of host and microbiota during health and disease in pediatric asthma. PLoS ONE, (10), 6, https://doi.org/10.1371/journal.pone.0131819.

PDF PubMed

(2015). Concordance and discordance of sequence survey methods for molecular epidemiology. PeerJ, (2015), 2, https://doi.org/10.7717/peerj.761.

PDF PubMed

(2015). Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls. PeerJ, (2015), 8, https://doi.org/10.7717/peerj.1140.

PDF PubMed

(2014). Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes. Genomics, (104), 1, pp. 1-7, https://doi.org/10.1016/j.ygeno.2014.06.001.

PDF PubMed

(2014). Single-molecule long-read 16S sequencing to characterize the lung microbiome from mechanically ventilated patients with suspected pneumonia. Journal of Clinical Microbiology, (52), 11, pp. 3913-3921, https://doi.org/10.1128/JCM.01678-14.

PDF PubMed

(2014). PathoScope 2.0: A complete computational framework for strain identification in environmental or clinical sequencing samples. Microbiome, (2), 1, https://doi.org/10.1186/2049-2618-2-33.

PDF PubMed

(2014). Clinical PathoScope: Rapid alignment and filtration for accurate pathogen identification in clinical samples using unassembled sequencing data. BMC Bioinformatics, (15), 1, https://doi.org/10.1186/1471-2105-15-262.

PDF PubMed

(2013). Tat exon 1 exhibits functional diversity during HIV-1 subtype C primary infection. Journal of Virology, (87), 10, pp. 5732-5745, https://doi.org/10.1128/JVI.03297-12.

PDF PubMed

(2013). Phage cluster relationships identified through single gene analysis. BMC Genomics, (14), 1, https://doi.org/10.1186/1471-2164-14-410.

PDF PubMed

(2013). Pathoscope: Species identification and strain attribution with unassembled sequencing data. Genome Research, (23), 10, pp. 1721-1729, https://doi.org/10.1101/gr.150151.112.

PDF PubMed

(2013). Pathogen typing in the genomics era: MLST and the future of molecular epidemiology. Infection, Genetics and Evolution, (16), pp. 38-53, https://doi.org/10.1016/j.meegid.2013.01.009.

PDF PubMed

(2012). The evolution of HIV: Inferences using phylogenetics. Molecular Phylogenetics and Evolution, (62), 2, pp. 777-792, https://doi.org/10.1016/j.ympev.2011.11.019.

PDF PubMed

(2012). Population genomics and phylogeography of an Australian dairy factory derived lytic bacteriophage. Genome Biology and Evolution, (4), 3, pp. 382-393, https://doi.org/10.1093/gbe/evs017.

PDF PubMed

(2012). Genetic diversity and molecular epidemiology of HIV transmission. Future Virology, (7), 3, pp. 239-252, https://doi.org/10.2217/fvl.12.4.

PDF HTML

(2011). Molecular phylodynamics and protein modeling of infectious salmon anemia virus (ISAV). BMC Evolutionary Biology, (11), 1, https://doi.org/10.1186/1471-2148-11-349.

PDF PubMed

(2010). Androgen receptor gene CAG and GGN repeat polymorphisms in Chilean men with primary severe spermatogenic failure. Journal of Andrology, (31), 6, pp. 552-559, https://doi.org/10.2164/jandrol.109.008821.

PDF PubMed