Genomic epidemiology of NDM-1-encoding plasmids in latin American clinical isolates reveals insights into the evolution of multidrug resistance

Bacteria that produce the broad-spectrum Carbapenem antibiotic NewDelhi Metallo-b-lactamase (NDM) place a burden on health care systems worldwide, due to the limited treatment options for infections caused by them and the rapid global spread of this antibiotic resistancemechanism.Although it is believed that theassociated resistancegenebla NDM-1 originated inAcinetobacter spp., the role of Enterobacteriaceae in its dissemination remains unclear. In this study, we usedwhole genome sequencing to investigate the dissemination dynamics of blaNDM-1-positive plasmids in a set of 21 clinical NDM-1-positive isolates from Colombia and Mexico (Providencia rettgeri, Klebsiella pneumoniae, and Acinetobacter baumannii) aswell as six representative NDM-1-positive Escherichia coli transconjugants. Additionally, the plasmids from three representative P. rettgeri isolates were sequenced by PacBio sequencing and finished. Our results demonstrate the presence of previously reported plasmids from K. pneumoniae and A. baumannii in different genetic backgrounds and geographically distant locations in Colombia. Three new previously unclassified plasmids were also identified in P. rettgeri from Colombia and Mexico, plus an interesting genetic link between NDM-1-positive P. rettgeri from distant geographic locations (Canada, Mexico, Colombia, and Israel) without any reported epidemiological links was discovered. Finally, we detected a relationship between plasmids present in P. rettgeri and plasmids from A. baumannii and K. pneumoniae. Overall, our findings suggest a Russian dollmodel for the dissemination of blaNDM-1 in LatinAmerica,with P. rettgeri playing a central role in this process, andrevealnewinsights into the evolution and disseminationof plasmids carrying such antibiotic resistance genes

Atlas de terapias urbanas basado en casos reales

El “Atlas de terapias urbanas1 ” se propone como una herramienta encaminada a facilitar la identificación y evaluación de mejoras urbanas adaptadas a las vocaciones de los diferentes entornos. El objeto de su creación está encaminado a servir en la toma de decisiones inteligentes a las instituciones y actores involucrados en la revitalización de los barrios andaluces. Proponemos una herramienta de mediación, que no solo se base en deficiencias barriales sino también en potencialidades; no solo en los deseos de la ciudadanía, sino también en las vocaciones de los entornos. El presente artículo trata de compendiar, de forma resumida, los avances y documentos internos desarrollados hasta la fecha por los autores que conforman esta investigación. En él se explican los conceptos y procesos fundamentales sobre los que se asienta el diseño de la herramienta buscada

Clinical practice guideline for surgical antimicrobial prophylaxis

La infección del sitio quirúrgico (ISQ) es una de las principales causas de infecciones asociadas a la atención en salud (IAAS), con un impacto significativo en la mortalidad y morbilidad del paciente quirúrgico, así como en los costos asociados a la atención en salud. El adecuado uso de la profilaxis quirúrgica antimicrobiana es un aspecto fundamental en la reducción del riesgo de ISQ, dado que su utilización inapropiada o indiscriminada puede representar un riesgo para los pacientes y contribuir al desarrollo de resistencia a los antimicrobianos, por lo que resulta de importancia generar directrices que permitan orientar el uso adecuado de antimicrobianos en la profilaxis del paciente quirúrgico, con el objetivo de obtener mejores desenlaces clínicos y propender por un uso racional de antibióticos. La presente guía contiene recomendaciones para profilaxis antibiótica de pacientes sometidos a procedimiento quirúrgico, basadas en la evidencia, realizadas mediante el proceso de adaptación de guías de práctica clínica para el contexto colombiano.Q4Pacientes sometidos a Profilaxis quirúrgica antimicrobianaSurgical site infection (SSI) is one of the main causes of healthcare associated infections (HAI), with a significant impact on the mortality and morbidity of the surgi-cal patient, as well as on the costs associated with health care. The adequate use of surgical antimicrobial prophylaxis being a fundamental aspect in reducing the risk of SSI, taking into account that the inappropriate or indiscriminate use of antibiotics in surgical prophylaxis may represent a risk for patients and contribute to the development of antimicrobial resistance, so it is important to generate guidelines that guide the appropriate antimicrobial prophylaxis in the surgical patient, with the aim of obtaining better clinical outcomes and promoting a rational use of antibiotics. This guide contains recommendations for antibiotic prophylaxis in patients undergoing a surgical procedure, based on evidence, carried out through the process of adapting clinical practice guidelines for the Colombian context.https://orcid.org/0000-0002-5392-7083https://orcid.org/0000-0003-2568-4667Revista Nacional - IndexadaCN

TRY plant trait database – enhanced coverage and open access

Plant traits - the morphological, anatomical, physiological, biochemical and phenological characteristics of plants - determine how plants respond to environmental factors, affect other trophic levels, and influence ecosystem properties and their benefits and detriments to people. Plant trait data thus represent the basis for a vast area of research spanning from evolutionary biology, community and functional ecology, to biodiversity conservation, ecosystem and landscape management, restoration, biogeography and earth system modelling. Since its foundation in 2007, the TRY database of plant traits has grown continuously. It now provides unprecedented data coverage under an open access data policy and is the main plant trait database used by the research community worldwide. Increasingly, the TRY database also supports new frontiers of trait‐based plant research, including the identification of data gaps and the subsequent mobilization or measurement of new data. To support this development, in this article we evaluate the extent of the trait data compiled in TRY and analyse emerging patterns of data coverage and representativeness. Best species coverage is achieved for categorical traits - almost complete coverage for ‘plant growth form’. However, most traits relevant for ecology and vegetation modelling are characterized by continuous intraspecific variation and trait–environmental relationships. These traits have to be measured on individual plants in their respective environment. Despite unprecedented data coverage, we observe a humbling lack of completeness and representativeness of these continuous traits in many aspects. We, therefore, conclude that reducing data gaps and biases in the TRY database remains a key challenge and requires a coordinated approach to data mobilization and trait measurements. This can only be achieved in collaboration with other initiatives

TRY plant trait database - enhanced coverage and open access

Plant traits—the morphological, anatomical, physiological, biochemical and phenological characteristics of plants—determine how plants respond to environmental factors, affect other trophic levels, and influence ecosystem properties and their benefits and detriments to people. Plant trait data thus represent the basis for a vast area of research spanning from evolutionary biology, community and functional ecology, to biodiversity conservation, ecosystem and landscape management, restoration, biogeography and earth system modelling. Since its foundation in 2007, the TRY database of plant traits has grown continuously. It now provides unprecedented data coverage under an open access data policy and is the main plant trait database used by the research community worldwide. Increasingly, the TRY database also supports new frontiers of trait‐based plant research, including the identification of data gaps and the subsequent mobilization or measurement of new data. To support this development, in this article we evaluate the extent of the trait data compiled in TRY and analyse emerging patterns of data coverage and representativeness. Best species coverage is achieved for categorical traits—almost complete coverage for ‘plant growth form’. However, most traits relevant for ecology and vegetation modelling are characterized by continuous intraspecific variation and trait–environmental relationships. These traits have to be measured on individual plants in their respective environment. Despite unprecedented data coverage, we observe a humbling lack of completeness and representativeness of these continuous traits in many aspects. We, therefore, conclude that reducing data gaps and biases in the TRY database remains a key challenge and requires a coordinated approach to data mobilization and trait measurements. This can only be achieved in collaboration with other initiatives

Prevalence and incidence estimates for syphilis, chlamydia, gonorrhea, and congenital syphilis in Colombia, 1995–2016

Objectives. To estimate adult (15–49 years old) prevalence and incidence of active syphilis, gonorrhea, and chlamydia, and incidence of congenital syphilis (CS) and adverse birth outcomes (ABOs) in Colombia, over 1995–2016. Methods. The Spectrum-STI epidemiological model tool estimated gonorrhea and chlamydia prevalences as moving averages across prevalences observed in representative general population surveys. For adult syphilis, Spectrum-STI applied segmented polynomial regression through prevalence data from antenatal care (ANC) surveys, routine ANC-based screening, and general population surveys. CS cases and ABOs were estimated from Spectrum's maternal syphilis estimates and proportions of women screened and treated for syphilis, applying World Health Organization case definitions and risk probabilities. Results. The Spectrum model estimated prevalences in 2016 of 0.70% (95% confidence interval (CI): 0.15%-1.9%) in women and 0.60% (0.1%-1.9%) in men for gonorrhea and of 9.2% (4.4%-15.4%) in women and 7.4% (3.5%-14.7%) in men for chlamydia, without evidence for trends over 1995–2016. The prevalence of active syphilis in 2016 was 1.25% (1.22–1.29%) in women and 1.25% (1.1%-1.4%) in men, decreasing from 2.6% (2.1%-3.2%) in women in 1995. Corresponding CS cases in 2016 (including cases without clinical symptoms) totaled 3 851, of which 2 245 were ABOs. Annual CS and ABO estimates decreased over 2008–2016, reflecting decreasing maternal prevalence and increasing cases averted through ANC-based screening and treatment. Conclusions. The available surveillance and monitoring data synthesized in Spectrum-STI— and the resulting first-ever national STI estimates for Colombia—highlighted Colombia's persistently high STI burden. Adult syphilis and congenital syphilis are estimated to be falling, reflecting improving screening efforts. Strengthened surveillance, including with periodic screening in low-risk populations and future refined Spectrum estimations, should support planning and implementation of STI prevention and control, including CS elimination

El diseño de herramientas analítico-prospectivas para la regeneración integrada de barrios: atlas potencial de terapias urbanas

El presente texto es un resumen de la propuesta que el grupo de investigación HUM-958 INGENTES ejecuta dentro del proyecto financiado de la Consejería de Economía, Innovación, Ciencia y Empleo de la Junta de Andalucía en el periodo 2014-2016 titulado: «EUObs - Ecobarrios Versus rehabilitación de barriadas. Proyecto de mejora de barriadas obsoletas en términos de sostenibilidad» en el que el grupo In-gentes forma consorcio con las Universidades de Granada, Málaga y la Fundación Habitec. El ‘Atlas de terapias urbanas’ se propone como una herramienta prospectiva, encaminada a facilitar la identificación y evaluación de mejoras urbanas adaptadas a las vocaciones de los diferentes entornos. El objeto de su creación está encaminado a servir en la toma de decisiones inteligentes a las instituciones y actores involucrados en la revitalización de los barrios andaluces. Proponemos una herramienta de mediación, que no solo se base en deficiencias barriales sino también en potencialidades; no solo en los deseos de la ciudadanía, sino también en las vocaciones de los entornos. El presente artículo trata de compendiar, de forma resumida, los avances y documentos internos desarrollados hasta la fecha por los autores que conforman esta investigación. En él se explican los conceptos y procesos fundamentales sobre los que se asienta el diseño de la herramienta buscada.This text is a sumary of the proposal made by HUM-958 INGENTES Research Group in the funded project by the Department of Economy, Innovation, Science and Employment of the Gobernment of Andalusia, during the 2014-2016 period. In this researching, which is entitled «EUObs- Eco-neighborhooss versus slum upgrading, Project to improve obsolete neighborhoods in terms of sustainability», INGENTES Group belongs to the Consortium, together with Granada and Malaga University and Habitec Foundation. Atlas of Urban Therapies is proposed as a prospective tool to make it easier to identify and evaluate urban improvement adapted to vocation around them. The aim is intended to help to institutions and other agents involved in revitalization of neighborhoods in Andalusia to take wise decisions. We put forward a tool for mediation which is based not only in shortcomings but on neighborhood potencial; not only in desires of citizenship but also in vocation of its environment. This article aims to summarize, in a small way, progress and internal works developed by the authors of this research. It describes fundamental concepts and process on which design of tool is based

Whole genomes from bacteria collected at diagnostic units around the world 2020

Abstract The Two Weeks in the World research project has resulted in a dataset of 3087 clinically relevant bacterial genomes with pertaining metadata, collected from 59 diagnostic units in 35 countries around the world during 2020. A relational database is available with metadata and summary data from selected bioinformatic analysis, such as species prediction and identification of acquired resistance genes