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 , ...
Bacteria Whole Genome Sequencing. Genomic DNA of the bacterial isolates was extracted using QIAamp DNA mini kit (Qiagen, Germany) as described by the manufacturer. The quality and quantity of the DNA was checked with Nanodrop 2000c (Thermo Scientific, USA) and Qubit 2.0 fluorometer (...
J.C.W. and P.A.S. designed experiments. D.T.R. and M.J.N. performed and analyzedin vitrocharacterization. D.T.R. performed and analyzed all mouse experiments. T.W.G. performed and analyzed tetrathionate mass spectrometry. M.B. performed and analyzed whole genome sequencing. S.J.K....
Abstract CRISPR interference (CRISPRi) is a powerful tool to link essential and nonessential genes to specific phenotypes and to explore their functions. Here we describe a protocol for CRISPRi screenings to assess genome-wide gene fitness in a single sequencing step (CRISPRi-seq). We demonstrat...
Genome sequencing, assembly, quality assessment The methods of whole-genome sequencing and de novo assembly were as described by Zou et al.1. Genome quality was evaluated by CheckM (v1.1.2)52, and genomes with >95% completeness and <5% contamination were selected as high-quality genomes. ...
Cancer cells originate from a series of acquired genetic mutations that can drive their uncontrolled cell proliferation and immune evasion. Environmental factors, including the microorganisms that colonize the human body, can shift the metabolism, growth
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...
To overcome it, the use of whole-genome sequencing (WGS) has recently played a key role to demonstrate the presence of GMM. Indeed, WGS was applied on a Bacillus subtilis producing vitamin B2 (RASFF2014.1249) strain isolated from a commercialized feed additive as well as on a B. velezensis...
and we did not test the mechanism of resistance to carbapenems other than the production of carbapenemase. Resistance genes could be present in bacteria that do not show resistance phenotypically. The only way to overcome this is to perform whole genome sequencing for all isolates. Furthermore, ...
Whole genome sequencing data of native isolates of Bacillus and Trichoderma having potential biocontrol and plant growth promotion activities in rice. Data Brief 2022, 41, 107923. [Google Scholar] [CrossRef] [PubMed] Mulk, S.; Wahab, A.; Yasmin, H.; Mumtaz, S.; El-Serehy, H.A.; ...