Nucleotide substitutions in the mexR, nalC and nalD regulator genes of the MexAB-OprM efflux pump are maintained in Pseudomonas aeruginosa genetic lineages.

Pseudomonas aeruginosa has different resistant mechanisms including the constitutive MexAB-OprM efflux pump. Single nucleotide polymorphisms (SNPs) in the mexR, nalC, and nalD repressors of this efflux pump can contribute to antimicrobial resistance; however, it is unknown whether these changes are mainly related to genetic lineages or environmental pressure. This study identifies SNPs in the mexR, nalC, and nalD genes in clinical and environmental isolates of P. aeruginosa (including high-risk clones). Ninety-one P. aeruginosa strains were classified according to their resistance to antibiotics, typified by multilocus sequencing, and mexR, nalC, and nalD genes sequenced for SNPs identification. The mexAB-oprM transcript expression was determined. The 96.7% of the strains were classified as multidrug resistant. Eight strains produced serine carbapenemases, and 11 strains metallo-ß-lactamases. Twenty-three new STs and high-risk clones ST111 and ST233 were identified. SNPs in the mexR, nalC, and nalD genes revealed 27 different haplotypes (patterns). Sixty-two mutational changes were identified, 13 non-synonymous. Haplotype 1 was the most frequent (n = 40), and mainly identified in strains ST1725 (33/40), with 57.5% pan drug resistant strains, 36.5% extensive drug resistant and two strains exhibiting serin-carbapenemases. Haplotype 12 (n = 9) was identified in ST233 and phylogenetically related STs, with 100% of the strains exhibiting XDR and 90% producing metallo-ß-lactamases. Haplotype 5 was highly associated with XDR and related to dead when compared to ST1725 and ST233 (RRR 23.34; p = 0.009 and RRR 32.01; p = 0.025). A significant relationship between the mexR-nalC-nalD haplotypes and phylogenetically related STs was observed, suggesting mutational changes in these repressors are highly maintained within genetic lineages. In addition, phylogenetically related STs showed similar resistant profiles; however, the resistance was (likely or partly) attributed to the MexAB-OprM efflux pump in 56% of the strains (only 45.05% showed mexA overtranscription), in the remaining strains the resistance could be attributed to carbapenemases or mechanisms including other pumps, since same SNPs in the repressor genes gave rise to different resistance profiles.

Role of Helicobacter pylori and Other Environmental Factors in the Development of Gastric Dysbiosis.

Microbiomes are defined as complex microbial communities, which are mainly composed of bacteria, fungi, and viruses residing in diverse regions of the human body. The human stomach consists of a unique and heterogeneous habitat of microbial communities owing to its anatomical and functional characteristics, that allow the optimal growth of characteristic bacteria in this environment. Gastric dysbiosis, which is defined as compositional and functional alterations of the gastric microbiota, can be induced by multiple environmental factors, such as age, diet, multiple antibiotic therapies, proton pump inhibitor abuse, H. pylori status, among others. Although H. pylori colonization has been reported across the world, chronic H. pylori infection may lead to serious consequences; therefore, the infection must be treated. Multiple antibiotic therapy improvements are not always successful because of the lack of adherence to the prescribed antibiotic treatment. However, the abuse of eradication treatments can generate gastric dysbiotic states. Dysbiosis of the gastric microenvironment induces microbial resilience, due to the loss of relevant commensal bacteria and simultaneous colonization by other pathobiont bacteria, which can generate metabolic and physiological changes or even initiate and develop other gastric disorders by non-H. pylori bacteria. This systematic review opens a discussion on the effects of multiple environmental factors on gastric microbial communities.

Differential expression of miRNA-146a and miRNA-155 in gastritis induced by Helicobacter pylori infection in paediatric patients, adults, and an animal model.

BACKGROUND: Helicobacter pylori is a major aetiologic agent associated with gastritis. H. pylori infections increase the expression of the Toll-like receptor (TLR), which in turn modulates the expression of microRNA (miRNA)-146a and miRNA-155. The objective of this study was to compare the expression of miRNA-146a and miRNA-155 in gastric lesions of paediatric and adult patients with different pathologies and in Mongolian gerbils (Meriones unguiculatus) infected with H. pylori 26,695. METHODS: Quantification of miRNA expression was performed by quantitative real-time polymerase chain reaction (qRT-PCR) of paraffin-embedded gastric lesions of children with or without an infection (n = 25), adults with follicular gastritis and metaplasia (n = 32) and eight-week-old M. unguiculatus males (Hsd:MON) infected with H. pylori 26,695 for 0, 3, 6, 12 and 18 months (n = 25). The genes RNU48 and RNU6 were used as endogenous controls for data normalization. Statistical analyses were performed using Kruskal-Wallis, Mann-Whitney, ANOVA and Student's t-test. RESULTS: The expression of miRNA-146a and miRNA-155 in infected children increased by 247.6- and 79.4-fold (on average), respectively, compared to that observed in the control group. However, these results were not significant (p = 0.12 and p = 0.07 respectively). In some children a gradual increase in expression was observed, while in others, expression was very high. Additionally, the expression levels of miRNA-146a and miRNA-155 increased by an average of 21.7- and 62-fold, respectively, in adult patients with follicular gastritis when compared to those of the controls. In M. unguiculatus infected with H. pylori 26,695, the expression of both miRNAs increased as the infection progressed. CONCLUSION: This is the first report to show differences in the expression of miRNA-146a and miRNA-155 in paediatric and adult patients with gastritis who were infected with H. pylori. In addition, in M. unguiculatus infected with H. pylori, miRNA expression was associated with the progression of infection and the ability of the bacteria to adapt to the host.

Identification of extensive drug resistant Pseudomonas aeruginosa strains: New clone ST1725 and high-risk clone ST233.

Several microorganisms produce nosocomial infections (NIs), among which Pseudomonas aeruginosa stands out as an opportunist pathogen with the capacity to develop multiresistance to first-choice antibiotics. From 2007 to 2013, forty-six NIs produced by P. aeruginosa were detected at a pediatric tertiary care hospital in Mexico with a significant mortality rate (17.39%). All isolates (n = 58/46 patients) were characterized by evaluating their response to several antibiotics as panresistant (PDR), extensively resistant (XDR), multiresistant (MDR) or sensitive (S). In addition, all isolates were typified through multilocus sequencing of seven genes: acsA, aroE, guaA, mutL, nuoD, ppsA and trpE. Furthermore, to establish the genetic relationships among these isolates, we carried out a phylogenetic inference analysis using maximum likelihood to construct a phylogenetic network. To assess evolutionary parameters, recombination was evaluated using the PHI test, and the ratio of nonsynonymous to synonymous substitutions was determined. Two of the strains were PDR (ST1725); 42 were XDR; four were MDR; and ten were S. Twenty-one new sequence types were detected. Thirty-three strains exhibited novel sequence type ST1725. The ratio of nonsynonym to synonym substitutions was 1:1 considering all genes. Phylogenetic analysis showed that the genetic relationship of the PDR, XDR and MDR strains was mainly clonal; however, the PHI test and the phylogenetic network suggest that recombination events occurred to produce a non-clonal population. This study aimed not only to determine the genetic diversity of clinical P. aeruginosa but also to provide a warning regarding the identification and spreading of clone ST1725, its ability to cause outbreaks with high mortality rates, and to remain in the hospital environment for over seven years. These characteristics highlight the need to identify clonal outbreaks, especially where high resistance to most antibiotics is observed, and control measures are needed. This study also represents the first report of the PDR ST1725.

Resistencia a linezolid en Staphylococcus aureus resistente a meticilina y enterococos con elevada resistencia a aminoglucósidos en un hospital pediátrico de tercer nivel / Resistance to linezolid in methicillin-resistant Staphylococcus aureus and Enterococcus with high-level resistance to aminoglycosides in a third-level pediatric hospital

Introducción: El surgimiento de resistencia a oxazolidinonas en Staphylococcus aureus resistentes a meticilina (SAMR) y Enterococcus spp con elevada resistencia a aminoglucósidos (EERA), aún cuando no han sido expuestos al antibiótico, es una de las principales razones para el control en el uso clínico de estos antibióticos. Métodos: Se estudiaron 95 cepas de SAMR y EERA, las cuales fueron aisladas de enero 2003 a diciembre 2007 en el Hospital Infantil de México Federico Gómez; se identificaron por pruebas convencionales. Se evaluó la susceptibilidad a diversos antimicrobianos incluyendo linezolid de acuerdo al Instituto de Estándares Clínicos y de Laboratorio (CLSI). Se comprobó la elevada resistencia a aminoglucósidos al amplificar los genes aac(6')-le, aph(2")-la y ant(6') en enterococos y el tipo de cásete cromosomal estafilocócico mee (SCCmec) asociado a la resistencia a meticilina en S. aureus, por técnicas moleculares previamente descritas. Resultados: Todas las cepas de SAMR mostraron el SCCmec tipo II. El 100% de los enterococos con fenotipo EERA mostraron genes asociados con los niveles elevados de resistencia a aminoglucósidos. El 12% (6/50) de EERA presentó valores intermedios a linezolid (concentración inhibitoria mínima (CIM) de 4 μg/mL) y sólo una cepa fue resistente (CIM 128 μg/mL); un aislamiento fue resistente a vancomicina fenotipo y genotipo van A, pero sensible a linezolid. El 2.2% (1/45) de los SAMR fue resistente a linezolid (CIM 8 μg/mL). Conclusión: Linezolid es una opción terapéutica de gran valor clínico. Sin embargo, son necesarios monitoreos continuos para conocer el riesgo de surgimiento de cepas resistentes y establecer lineamientos en el uso apropiado del antibiótico.

Background: The emergence of resistance to the oxazolidinones by methicillin-resistant Staphylococcus aureus (MRSA) and high-level aminoglycoside-resistant (HLRA) Enterococcus spp not exposed is one of the main reasons for control of the clinical use of these antibiotics. Methods: We studied 95 strains of MRSA and HLAR, which were isolated from January 2003 to December 2007 at the Hospital Infantil de México Federico Gómez. The strains were identified by conventional tests. Antimicrobial susceptibility was evaluated for several antimicrobial agents including linezolid according to the Clinical and Laboratory Standards Institute (CLSI). The high resistance to aminoglycosides was tested by amplification of genes aac (6')-/e, aph (2")-and ant (6') in enterococci. Staphylococcal cassette chromosomal mec (SCCmec) associated with MRSA was identified by molecular techniques described previously. Results: All MRSA strains showed SCCmec type II, and 100% of enterococci strains with phenotype HLAR showed genes associated with high-level aminoglycoside resistance; 12% of HLAR enterococci strains showed intermediate values to linezolid (MIC 4 μg/mL) and only one strain was resistant (MIC 128 μg/mL). Of the MRSA strains, 2.2% were resistant to linezolid (MIC 8 μg/mL). Conclusion: Linezolid is a clinically valuable option as a form of therapy. However, continuous surveillance is necessary to determine the emergent risk of resistance strains and to establish guidelines for appropriate use.