Genomic DNA was extracted from C. difficile WT, ΔagrB1, ΔagrD1, and ΔagrB1D1 strains using the Sigma bacterial genomic DNA extraction kit, following the manufacturer’s protocol. The genomic DNA was submitted to the Oklahoma Medical Research Foundation Genomics Core Facility and paired-end sequenced on an Illumina MiSeq. The data were aligned to the reference genome (GenBank accession number AM180355 ) using Geneious version 10.2.4 (39 (link)).
Bacterial genomic dna extraction kit
Manufactured by Merck Group
Sourced in United States
The Bacterial Genomic DNA Extraction Kit is a laboratory tool designed to efficiently extract and purify bacterial genomic DNA from a variety of bacterial samples. The kit utilizes a standardized protocol and reagents to facilitate the isolation of high-quality DNA for downstream applications such as PCR, sequencing, and other molecular biology experiments.
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Lab products found in correlation
3 protocols using bacterial genomic dna extraction kit
1
Genomic Analysis of C. difficile Agr Mutants
2
Bacterial Genomic Sequencing and Comparison
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To validate the existent bacteria, the genomic DNA of bacterial cells from the spoiled beer sample and the isolated L. harbinensis cells were extracted by bacterial genomic DNA extraction kit (Sigma-Aldrich, USA) and subjected to genomic sequencing by Illumina HiSeq. 2500 platform and paired-end libraries, respectively10 ,47 . Sequences were quality processed using the FastQC pipeline v.0.10.1 before assembly. Upon de novo assembly using Velvet v1.2.08, both genome sequences were aligned by progressive Mauve genome alignment software with default settings (http://darlinglab.org/mauve/mauve.html )48 (link).
3
Verification of VBNC Bacterial Cells
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To verify the existence of VBNC cells, 0.5 μg/mL of PMA was added to 1 mL of the bacterial culture once the nonculturable cells identified. The culture was incubated on ice in dark for 10 min, subsequently exposed to halogen light with a distance of 15 cm for 5 min for covalent binding of PMA to DNA, and further cooled to room temperature after the reaction55 (link). Genomic DNA was extracted using bacterial genomic DNA extraction kit (Sigma-Aldrich, USA) and used as a template to amplify the 16S rRNA gene (5′-AGAGTTTGATCCTGGCTCAG-3′, 5′-CTACGGCTACCTTGTTACGA-3′) in PCR assay.
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