Imperial College London
Alternate

Professor Angelika Gründling

Faculty of Medicine, Department of Infectious Disease

Professor of Molecular Microbiology
 
 
 
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Contact

 

+44 (0)20 7594 5256a.grundling Website

 
 
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Location

 

6.22Flowers buildingSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@article{Zeden:2023:10.1101/pdb.prot107901,
author = {Zeden, MS and Gründling, A},
doi = {10.1101/pdb.prot107901},
journal = {Cold Spring Harb Protoc},
title = {Bacterial Whole-Genome-Resequencing Analysis: Basic Steps Using the CLC Genomics Workbench Software.},
url = {http://dx.doi.org/10.1101/pdb.prot107901},
year = {2023}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - In this protocol, we describe the basic steps for bacterial genome resequencing analysis using the QIAGEN CLC Genomics Workbench software. More specifically, we present how a reference genome sequence can be generated from Illumina reads of a wild-type reference bacterial strain and how this reference genome sequence can then be used to identify genomic alterations in mutant strains. As specific examples, Illumina reads from the Staphylococcus aureus RN4220 strain will be used to generate a consensus reference genome based on the publicly available S. aureus NCTC8325 genome sequence. The generated RN4220 consensus reference genome will subsequently be used to identify genomic mutations in an RN4220 mutant strain with increased oxacillin resistance (OxaR strain).
AU  - Zeden,MS
AU  - Gründling,A
DO  - 10.1101/pdb.prot107901
PY  - 2023///
TI  - Bacterial Whole-Genome-Resequencing Analysis: Basic Steps Using the CLC Genomics Workbench Software.
T2  - Cold Spring Harb Protoc
UR  - http://dx.doi.org/10.1101/pdb.prot107901
UR  - https://www.ncbi.nlm.nih.gov/pubmed/37117022
ER  -
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