In this study, bacteria were isolated from infected breast milk samples and whole-genome sequencing was performed on eleven isolates to accurately identify the bacteria and assess their antibiotic resistance profiles. Using Galaxy tools and the ResFinder database, we identified Bacillus paraanthracis , ...
d) with whole-genome sequencing (WGS) data (Fig.2e, f) to characterize plasmid evolution in a way that was not subject to PCR amplification biases. Plasmid DNA isolated from cultures of the ancestral strain and whole-population samples archived at eight time points during...
GeneMates is an R package implementing a network approach to identify horizontal gene co-transfer (HGcoT) between bacteria using whole-genome sequencing (WGS) data. It is particularly useful for investigating intra-species HGcoT, where presence-absence status of acquired genes is usually confounded ...
We validated our findings with physiological experiments, fluorescence in situ hybridization (FISH), and whole genome sequencing and analysis (Supplementary Fig. 1). This revealed that a diverse set of bacteria were able to interact with or use inulin, including previously unrecognized species, ...
ResultsWe used whole-genome sequencing data produced by two PacBio platforms (Sequel II and RS II) and two ONT protocols (Rapid Sequencing and Ligation Sequencing) to compare assemblies of the bacteriaEscherichia coliand the fruit flyDrosophila ananassae. Sequel II assemblies had higher contiguity an...
The group used whole-genome sequencing of edited S. aureus RN4220 strains to study the off-target effect and reported no off-targeting at any of the potential off-target sites. 3.4. Pseudomonas Pseudomonas belongs to the genus of gram-negative bacteria with 144 different species, largest among...
A novel multi SNP based method for the identification of subspecies and associated lineages and sub-lineages of the Mycobacterium tuberculosis complex by whole genome sequencing The clinical phenotype of zoonotic tuberculosis, its contribution to the global burden of disease and prevalence is poorly under...
Whole genome re-sequencing detected multiple mutations in both species that affected metabolic pathways relating to their interdependence. These results illustrate the need for an advanced understanding of the metabolic network relations that can be exploited to generate stable consortia of LAB consisting ...
Whole-genome sequencing and de novo assembly DNA extraction Isolates cultivated to stationary phase were centrifuged at 7,227gat 4 °C for 10 min, and the resulting pellets were resuspended in 1 ml of Tris-EDTA. For bacterial cell lysis, 50 µl of 10% SDS and 10 µl of pro...
Intratumoral and intracellular microbes may also regulate the metastatic cascade. Whole genome sequencing revealed a similarity of 99.9% betweenF. nucleatumisolates from primary CRC and liver metastasis, indicating likely bacterial migratory characteristics between these tumor sites49. Microbial regulation of ...