An individual sequencing library was prepared for each isolate using the NexteraXT DNA sample preparation kit (Illumina, San Diego, CA, USA). Then, isolates were pooled and multiplexed for paired-end sequencing on a single MiSeq instrument, using the MiSeq reagent kit v3 150 bp (Illumina). Libraries were assembled by SeqSphere+ software version 4.1.9 (Ridom GmbH, Muenster, Germany) for automated quality trimming and assembly. The resulting FASTA files were uploaded to the KmerFinder 3.1 on the Center for Genomic Epidemiology and the top Kmer result for each isolate was recorded (18 (link)– (link)20 (link)). Each isolate was also analyzed by the Comprehensive Antibiotic Resistance Database (CARD) and the presence of mecA, mecC, and vanA was determined (17 (link), 21 (link)– (link)23 (link)).
Seqsphere software version 4
Manufactured by Ridom
Sourced in Germany
SeqSphere+ software version 4.1.9 is a bioinformatics tool for analyzing and managing microbial genome sequencing data. It provides a comprehensive suite of features for tasks such as sequence assembly, annotation, and phylogenetic analysis.
Automatically generated - may contain errors
Lab products found in correlation
2 protocols using seqsphere software version 4
1
Comprehensive Genomics-based Bacterial Profiling
2
Comprehensive Genomics-based Bacterial Profiling
Check if the same lab product or an alternative is used in the 5 most similar protocols
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An individual sequencing library was prepared for each isolate using the NexteraXT DNA sample preparation kit (Illumina, San Diego, CA, USA). Then, isolates were pooled and multiplexed for paired-end sequencing on a single MiSeq instrument, using the MiSeq reagent kit v3 150 bp (Illumina). Libraries were assembled by SeqSphere+ software version 4.1.9 (Ridom GmbH, Muenster, Germany) for automated quality trimming and assembly. The resulting FASTA files were uploaded to the KmerFinder 3.1 on the Center for Genomic Epidemiology and the top Kmer result for each isolate was recorded (18 (link)– (link)20 (link)). Each isolate was also analyzed by the Comprehensive Antibiotic Resistance Database (CARD) and the presence of mecA, mecC, and vanA was determined (17 (link), 21 (link)– (link)23 (link)).
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