Genomic Analysis of Klebsiella pneumoniae ST258 Strain Coproducing KPC-2 and CTX-M-14 Isolated from Poultry in the Brazilian Amazon Region.

This study aimed to characterize a Klebsiella pneumoniae strain (KP411) recovered from the stool samples of poultry (Gallus gallus) in the Brazilian Amazon Region. The whole-genome sequencing of KP411 revealed the presence of an important arsenal of antimicrobial resistance genes to ß-lactams (blaCTX-M-14, blaTEM-1B, blaKPC-2, blaSVH-11), aminoglycosides [aph(3″)- Ib, aph(6)-Id, aph(3')-Ia], sulfonamides (sul1, sul2), quinolones (oqxAB), fosfomycin (fosAKP), and macrolides [mph(A)]. Furthermore, our analyses revealed that the KP411 strain belongs to the ST258 clonal lineage, which is one of the main epidemic clones responsible for the dissemination of KPC-2 worldwide. Our data suggest that food-producing animals may act as reservoirs of multidrug-resistant K. pneumoniae belonging to the ST258 clone, and, consequently, contribute to their dissemination to humans and the environment.

Exploring the Bacteriome and Resistome of Humans and Food-Producing Animals in Brazil.

The epidemiology of antimicrobial resistance (AMR) is complex, with multiple interfaces (human-animal-environment). In this context, One Health surveillance is essential for understanding the distribution of microorganisms and antimicrobial resistance genes (ARGs). This report describes a multicentric study undertaken to evaluate the bacterial communities and resistomes of food-producing animals (cattle, poultry, and swine) and healthy humans sampled simultaneously from five Brazilian regions. Metagenomic analysis showed that a total of 21,029 unique species were identified in 107 rectal swabs collected from distinct hosts, the highest numbers of which belonged to the domain Bacteria, mainly Ruminiclostridium spp. and Bacteroides spp., and the order Enterobacterales. We detected 405 ARGs for 12 distinct antimicrobial classes. Genes encoding antibiotic-modifying enzymes were the most frequent, followed by genes related to target alteration and efflux systems. Interestingly, carbapenemase-encoding genes such as blaAIM-1, blaCAM-1, blaGIM-2, and blaHMB-1 were identified in distinct hosts. Our results revealed that, in general, the bacterial communities from humans were present in isolated clusters, except for the Northeastern region, where an overlap of the bacterial species from humans and food-producing animals was observed. Additionally, a large resistome was observed among all analyzed hosts, with emphasis on the presence of carbapenemase-encoding genes not previously reported in Latin America. IMPORTANCE Humans and food production animals have been reported to be important reservoirs of antimicrobial resistance (AMR) genes (ARGs). The frequency of these multidrug-resistant (MDR) bacteria tends to be higher in low- and middle-income countries (LMICs), due mainly to a lack of public health policies. Although studies on AMR in humans or animals have been carried out in Brazil, this is the first multicenter study that simultaneously collected rectal swabs from humans and food-producing animals for metagenomics. Our results indicate high microbial diversity among all analyzed hosts, and several ARGs for different antimicrobial classes were also found. As far as we know, we have detected for the first time ARGs encoding carbapenemases, such as blaAIM-1, blaCAM-1, blaGIM-2, and blaHMB-1, in Latin America. Thus, our results support the importance of metagenomics as a tool to track the colonization of food-producing animals and humans by antimicrobial-resistant bacteria. In addition, a network surveillance system called GUARANI, created for this study, is ready to be expanded and to collect additional data.

Large Scale Genome-Centric Metagenomic Data from the Gut Microbiome of Food-Producing Animals and Humans.

The One Health concept is a global strategy to study the relationship between human and animal health and the transfer of pathogenic and non-pathogenic species between these systems. However, to the best of our knowledge, no data based on One Health genome-centric metagenomics are available in public repositories. Here, we present a dataset based on a pilot-study of 2,915 metagenome-assembled genomes (MAGs) of 107 samples from the human (N = 34), cattle (N = 28), swine (N = 15) and poultry (N = 30) gut microbiomes. Samples were collected from the five Brazilian geographical regions. Of the draft genomes, 1,273 were high-quality drafts (≥90% of completeness and ≤5% of contamination), and 1,642 were medium-quality drafts (≥50% of completeness and ≤10% of contamination). Taxonomic predictions were based on the alignment and concatenation of single-marker genes, and the most representative phyla were Bacteroidota, Firmicutes, and Proteobacteria. Many of these species represent potential pathogens that have already been described or potential new families, genera, and species with potential biotechnological applications. Analyses of this dataset will highlight discoveries about the ecology and functional role of pathogens and uncultivated Archaea and Bacteria from food-producing animals and humans. Furthermore, it also represents an opportunity to describe new species from underrepresented taxonomic groups.

Automatic ladybird beetle detection using deep-learning models.

Fast and accurate taxonomic identification of invasive trans-located ladybird beetle species is essential to prevent significant impacts on biological communities, ecosystem functions, and agricultural business economics. Therefore, in this work we propose a two-step automatic detector for ladybird beetles in random environment images as the first stage towards an automated classification system. First, an image processing module composed of a saliency map representation, simple linear iterative clustering superpixels segmentation, and active contour methods allowed us to generate bounding boxes with possible ladybird beetles locations within an image. Subsequently, a deep convolutional neural network-based classifier selects only the bounding boxes with ladybird beetles as the final output. This method was validated on a 2, 300 ladybird beetle image data set from Ecuador and Colombia obtained from the iNaturalist project. The proposed approach achieved an accuracy score of 92% and an area under the receiver operating characteristic curve of 0.977 for the bounding box generation and classification tasks. These successful results enable the proposed detector as a valuable tool for helping specialists in the ladybird beetle detection problem.

Francisco Campos-Rivadeneira and Roberto Levi- Castillo: Their lives and contributions to the study of mosquitoes (Diptera: Culicidae) in Ecuador. / Francisco Campos-Rivadeneira y Roberto Levi-Castillo: sus vidas y contribuciones al estudio de los mosquitos (Diptera: Culicidae) en Ecuador

The study of mosquitoes is important in the prevention of vector-borne diseases. In Ecuador, the study of local mosquito biodiversity was pioneered by two entomologists whose contributions span through the first half of the 20th century, Francisco Campos-Rivadeneira and Roberto Levi-Castillo. Both of them contributed to general aspects of Entomology and to particular insights in mosquito taxonomy. Their publications and discoveries were recognized by the international scientific community but went unnoticed in South America during their time. Today, very few citizens remember the names and contributions of these two scientists. Here, we provide an overview of their lives, a summary of their contributions, and we conclude with a broader outlook on the practice of science in Latin America during their time.

El estudio de los mosquitos es una importante tarea en la prevención de las enfermedades transmitidas por vectores. En Ecuador, el conocimiento de la biodiversidad local de mosquitos se inició con dos entomólogos pioneros que trabajaron a inicios del siglo XX: Francisco Campos-Rivadeneira y Roberto Levi-Castillo. Ambos hicieron importantes contribuciones en el campo de la Entomología en general y de la taxonomía de los mosquitos en particular. En su época, sus aportes fueron reconocidos por la comunidad científica internacional, pero pasaron desapercibidos en la región suramericana. Hoy en día, son muy pocos los que recuerdan los nombres y los aportes de estos dos hombres de ciencia. En este artículo, se presenta una breve biografía de ambos científicos y un resumen de sus contribuciones, y se establece en perspectiva la situación de la práctica de la ciencia en Latinoamérica durante la época.

Francisco Campos-Rivadeneira and Roberto Levi- Castillo: Their lives and contributions to the study of mosquitoes (Diptera: Culicidae) in Ecuador

The study of mosquitoes is important in the prevention of vector-borne diseases. In Ecuador, the study of local mosquito biodiversity was pioneered by two entomologists whose contributions span through the first half of the 20th century, Francisco Campos- Rivadeneira and Roberto Levi-Castillo. Both of them contributed to general aspects of Entomology and to particular insights in mosquito taxonomy. Their publications and discoveries were recognized by the international scientific community but went unnoticed in South America during their time. Today, very few citizens remember the names and contributions of these two scientists. Here, we provide an overview of their lives, a summary of their contributions, and we conclude with a broader outlook on the practice of science in Latin America during their time.

El estudio de los mosquitos es una importante tarea en la prevención de las enfermedades transmitidas por vectores. En Ecuador, el conocimiento de la biodiversidad local de mosquitos se inició con dos entomólogos pioneros que trabajaron a inicios del siglo XX: Francisco Campos-Rivadeneira y Roberto Levi-Castillo. Ambos hicieron importantes contribuciones en el campo de la Entomología en general y de la taxonomía de los mosquitos en particular. En su época, sus aportes fueron reconocidos por la comunidad científica internacional, pero pasaron desapercibidos en la región suramericana. Hoy en día, son muy pocos los que recuerdan los nombres y los aportes de estos dos hombres de ciencia. En este artículo, se presenta una breve biografía de ambos científicos y un resumen de sus contribuciones, y se establece en perspectiva la situación de la práctica de la ciencia en Latinoamérica durante la época.