Roxana Zamudio
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View article: A multi-isolate genomic approach identifies diverse Escherichia coli contamination and antimicrobial resistance carriage on retail foods
A multi-isolate genomic approach identifies diverse Escherichia coli contamination and antimicrobial resistance carriage on retail foods Open
Background. Bacterial pathogens contaminating retail foods can cause foodborne illness. Escherichia coli is commonly enumerated on food to assess unsafe levels of faecal contamination, but E. coli as a species is genetically variable and d…
View article: Dissemination of OXA-23 carbapenemase-producing Proteus mirabilis and Escherichia coli is driven by transposon-carrying lineages in the UK
Dissemination of OXA-23 carbapenemase-producing Proteus mirabilis and Escherichia coli is driven by transposon-carrying lineages in the UK Open
Carbapenem-resistant Enterobacterales are a significant threat to global public health. Here, we characterize bla OXA-23 -positive Proteus mirabilis ( n =8) and Escherichia coli ( n =3) isolates from human clinical samples collected betwee…
View article: Dissemination of OXA-23 carbapenemase-producing<i>Proteus mirabilis</i>and<i>Escherichia coli</i>is driven by transposon-carrying lineages in the UK
Dissemination of OXA-23 carbapenemase-producing<i>Proteus mirabilis</i>and<i>Escherichia coli</i>is driven by transposon-carrying lineages in the UK Open
Carbapenem-resistant Enterobacterales are a significant threat to global public health. Here, we characterize bla OXA-23 -positive Proteus mirabilis (n=8) and Escherichia coli (n=3) isolates from human clinical samples collected between 20…
View article: Global transmission of extended-spectrum cephalosporin resistance in Escherichia coli driven by epidemic plasmids
Global transmission of extended-spectrum cephalosporin resistance in Escherichia coli driven by epidemic plasmids Open
View article: Dynamics of extended-spectrum cephalosporin resistance genes in Escherichia coli from Europe and North America
Dynamics of extended-spectrum cephalosporin resistance genes in Escherichia coli from Europe and North America Open
View article: Association of caspase-1 polymorphisms with Chagas cardiomyopathy among individuals in Santa Cruz, Bolivia
Association of caspase-1 polymorphisms with Chagas cardiomyopathy among individuals in Santa Cruz, Bolivia Open
INTRODUCTION: Trypanosoma cruzi (Tc) infection is usually acquired in childhood in endemic areas, leading to Chagas disease, which progresses to Chagas cardiomyopathy in 20-30% of infected individuals over decades. The pathogenesis of Chag…
View article: Genetic Background and Antibiotic Resistance Profiles of K. pneumoniae NDM-1 Strains Isolated from UTI, ABU, and the GI Tract, from One Hospital in Poland, in Relation to Strains Nationally and Worldwide
Genetic Background and Antibiotic Resistance Profiles of K. pneumoniae NDM-1 Strains Isolated from UTI, ABU, and the GI Tract, from One Hospital in Poland, in Relation to Strains Nationally and Worldwide Open
In recent years, there has been an observed increase in infections caused by carbapenem-resistant Klebsiella pneumonia (Kp) strains. The aim of this study was the phenotypic and genotypic analysis of eight K. pneumoniae NDM (Kp NDM) isolat…
View article: Whole-genome analysis uncovers loss of blaZ associated with carriage isolates belonging to methicillin-resistant Staphylococcus aureus (MRSA) clone ST5-VI in Cape Verde
Whole-genome analysis uncovers loss of blaZ associated with carriage isolates belonging to methicillin-resistant Staphylococcus aureus (MRSA) clone ST5-VI in Cape Verde Open
View article: The genetic structure and adaptation of Andean highlanders and Amazonians are influenced by the interplay between geography and culture
The genetic structure and adaptation of Andean highlanders and Amazonians are influenced by the interplay between geography and culture Open
Significance Native Americans are neglected in human genetics studies, despite recent interest in the study of ancient DNA of their ancestors. Our findings on Andean and Amazonian populations exemplify how the current pattern of genetic di…
View article: Pathogenic Differences of Type 1 Restriction-Modification Allele Variants in Experimental Listeria monocytogenes Meningitis
Pathogenic Differences of Type 1 Restriction-Modification Allele Variants in Experimental Listeria monocytogenes Meningitis Open
Background:L. monocytogenes meningoencephalitis has a mortality rate of up to 50% and neurofunctional sequelae are common. Type I restriction-modification systems (RMS) are capable of adding methyl groups to the host genome. …
View article: The New Klebsiella pneumoniae ST152 Variants with Hypermucoviscous Phenotype Isolated from Renal Transplant Recipients with Asymptomatic Bacteriuria—Genetic Characteristics by WGS
The New Klebsiella pneumoniae ST152 Variants with Hypermucoviscous Phenotype Isolated from Renal Transplant Recipients with Asymptomatic Bacteriuria—Genetic Characteristics by WGS Open
Klebsiella pneumoniae (Kp) is one of the most important etiological factors of urinary tract infections in renal transplant (RTx) recipients. We described the antimicrobial susceptibility phenotypes and genomic features of two hypermucovis…
View article: Genomic Stability of Composite SCCmec ACME and COMER-Like Genetic Elements in Staphylococcus epidermidis Correlates With Rate of Excision
Genomic Stability of Composite SCCmec ACME and COMER-Like Genetic Elements in Staphylococcus epidermidis Correlates With Rate of Excision Open
The epidemiological success of methicillin-resistant Staphylococcus aureus USA300 has been associated with the presence of two mobile elements, the arginine catabolic mobile element (ACME) and the copper and mercury resistance (COME…
View article: The genetic structure and adaptation of Andean highlanders and Amazonian dwellers is influenced by the interplay between geography and culture
The genetic structure and adaptation of Andean highlanders and Amazonian dwellers is influenced by the interplay between geography and culture Open
Western South America was one of the worldwide cradles of civilization. The well known Inca Empire was the tip of the iceberg of a cultural and biological evolutionary process that started 14-11 thousand years ago. Genetic data from 18 Per…
View article: Origins, admixture dynamics and homogenization of the African gene pool in the Americas
Origins, admixture dynamics and homogenization of the African gene pool in the Americas Open
The Transatlantic Slave Trade transported more than 9 million Africans to the Americas between the early 16th and the mid-19th centuries. We performed genome-wide analysis of 6,267 individuals from 22 populations and observed an enrichment…
View article: Phylogenetic analysis of integrases of Acinetobacter baumannii genomic islands
Phylogenetic analysis of integrases of Acinetobacter baumannii genomic islands Open
Acinetobacter baumannii among other pathogens is capable of acquiring new virulence determinants via mobile genetic elements (MGE). Analysis of the distribution of genomic islands (GIs) has shown in many species that most MGEs cluster tigh…
View article: Lineage-specific evolution in Listeria monocytogenes detected by analysis of a panel of Swiss isolates from food and human origin
Lineage-specific evolution in Listeria monocytogenes detected by analysis of a panel of Swiss isolates from food and human origin Open
Listeria monocytogenes is the causative agent of Listeriosis, a foodborne infection and characterised by outbreaks with high mortality. In the past years, outbreak analysis has shifted from PFGE to core genome MLST (cgMLST) and a differenc…
View article: Phylogenetic analysis of resistance to ceftazidime/avibactam, ceftolozane/tazobactam and carbapenems in piperacillin/tazobactam-resistant Pseudomonas aeruginosa from cystic fibrosis patients
Phylogenetic analysis of resistance to ceftazidime/avibactam, ceftolozane/tazobactam and carbapenems in piperacillin/tazobactam-resistant Pseudomonas aeruginosa from cystic fibrosis patients Open
View article: Time for biocide stewardship?
Time for biocide stewardship? Open
View article: Interethnic Variability in <i>CYP2D6</i> , <i>CYP2C9</i> , and <i>CYP2C19</i> Genes and Predicted Drug Metabolism Phenotypes Among 6060 Ibero- and Native Americans: RIBEF-CEIBA Consortium Report on Population Pharmacogenomics
Interethnic Variability in <i>CYP2D6</i> , <i>CYP2C9</i> , and <i>CYP2C19</i> Genes and Predicted Drug Metabolism Phenotypes Among 6060 Ibero- and Native Americans: RIBEF-CEIBA Consortium Report on Population Pharmacogenomics Open
Pharmacogenetic variation in Latin Americans is understudied, which sets a barrier for the goal of global precision medicine. The RIBEF-CEIBA Network Consortium was established to characterize interindividual and between population variati…
View article: Integrase-Controlled Excision of Metal-Resistance Genomic Islands in Acinetobacter baumannii
Integrase-Controlled Excision of Metal-Resistance Genomic Islands in Acinetobacter baumannii Open
Genomic islands (GIs) are discrete gene clusters encoding for a variety of functions including antibiotic and heavy metal resistance, some of which are tightly associated to lineages of the core genome phylogenetic tree. We have investigat…
View article: Association of caspase-1 polymorphisms with Chagas cardiomyopathy among individuals in Santa Cruz, Bolivia
Association of caspase-1 polymorphisms with Chagas cardiomyopathy among individuals in Santa Cruz, Bolivia Open
Caspase-1 polymorphisms may play a role in Chagas cardiomyopathy development and could serve as markers to identify individuals at higher risk for priority treatment.
View article: Population genetics of immune-related multilocus copy number variation in Native Americans
Population genetics of immune-related multilocus copy number variation in Native Americans Open
While multiallelic copy number variation (mCNV) loci are a major component of genomic variation, quantifying the individual copy number of a locus and defining genotypes is challenging. Few methods exist to study how mCNV genetic diversity…
View article: Tables S3 to S7 from Population genetics of immune-related multilocus copy number variation in Native Americans
Tables S3 to S7 from Population genetics of immune-related multilocus copy number variation in Native Americans Open
Diplotype distributions for all loci and inferred allelic frequency in populations and subpopulations with CoNVEM (A) and CNVice (B).
View article: Tables S8 and S9 from Population genetics of immune-related multilocus copy number variation in Native Americans
Tables S8 and S9 from Population genetics of immune-related multilocus copy number variation in Native Americans Open
Diploid copy number distributions of DEFB and FCGR3B loci for worldwide populations (Human Genome Diversity Project panel) and allele frequencies and fCNV inferred using CoNVEM (A) and CNVice (B).
View article: Tables S11 and S13 from Population genetics of immune-related multilocus copy number variation in Native Americans
Tables S11 and S13 from Population genetics of immune-related multilocus copy number variation in Native Americans Open
Genotyping of 53 trios and Reference samples with known copy numbers from the European Collection of Cell Cultures.
View article: Copy Number Data from Population genetics of immune-related multilocus copy number variation in Native Americans
Copy Number Data from Population genetics of immune-related multilocus copy number variation in Native Americans Open
Individual copy number data
View article: Tables S8 and S9 from Population genetics of immune-related multilocus copy number variation in Native Americans
Tables S8 and S9 from Population genetics of immune-related multilocus copy number variation in Native Americans Open
Diploid copy number distributions of DEFB and FCGR3B loci for worldwide populations (Human Genome Diversity Project panel) and allele frequencies and fCNV inferred using CoNVEM (A) and CNVice (B).
View article: Supplementary material from "Population genetics of immune-related multilocus copy number variation in Native Americans"
Supplementary material from "Population genetics of immune-related multilocus copy number variation in Native Americans" Open
While multiallelic copy number variation (mCNV) loci are a major component of genomic variation, quantifying the individual copy number of a locus and defining genotypes is challenging. Few methods exist to study how mCNV genetic diversity…
View article: Principal Component Analysis of our Peruvian samples of gastric cancer cases, their controls, and Native Americans in the context of HapMap-III European, African, and Mexican individuals, and distribution of Native American ancestry in cases and controls
Principal Component Analysis of our Peruvian samples of gastric cancer cases, their controls, and Native Americans in the context of HapMap-III European, African, and Mexican individuals, and distribution of Native American ancestry in cases and controls Open
(box). Each individual was genotyped for 103 ancestry informative markers validated by Yaeger et al. (2008). We represent the first (horizontal) and second (vertical) principal components, which capture the 35.3% and 7.7% of …
View article: Origin and dynamics of admixture in Brazilians and its effect on the pattern of deleterious mutations
Origin and dynamics of admixture in Brazilians and its effect on the pattern of deleterious mutations Open
Significance The EPIGEN Brazil Project is the largest Latin-American initiative to study the genomic diversity of admixed populations and its effect on phenotypes. We studied 6,487 Brazilians from three population-based cohorts with differ…