Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach
Summary: Identifying genes important for fitness in Candida albicans advances our understanding of this important pathogen of humans. Here, we present a functional genomics approach for assessing fitness through the quantification of strain-specific barcodes. We describe steps for library preparatio...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-03-01
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| Series: | STAR Protocols |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166725000516 |
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| author | Emily H. Xiong Xiang Zhang Nicole Robbins Chad L. Myers Leah E. Cowen |
| author_facet | Emily H. Xiong Xiang Zhang Nicole Robbins Chad L. Myers Leah E. Cowen |
| author_sort | Emily H. Xiong |
| collection | DOAJ |
| description | Summary: Identifying genes important for fitness in Candida albicans advances our understanding of this important pathogen of humans. Here, we present a functional genomics approach for assessing fitness through the quantification of strain-specific barcodes. We describe steps for library preparation, propagation of strains, genomic DNA extraction, amplification of barcodes, and sequencing. We then detail the computational analysis of data to determine effect size and statistical significance.For complete details on the use and execution of this protocol, please refer to Xiong et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| format | Article |
| id | doaj-art-dd5fa788291843b989fa84bc260cd7cc |
| institution | DOAJ |
| issn | 2666-1667 |
| language | English |
| publishDate | 2025-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj-art-dd5fa788291843b989fa84bc260cd7cc2025-08-20T03:00:31ZengElsevierSTAR Protocols2666-16672025-03-016110364510.1016/j.xpro.2025.103645Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approachEmily H. Xiong0Xiang Zhang1Nicole Robbins2Chad L. Myers3Leah E. Cowen4Department of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A8, CanadaDepartment of Computer Science and Engineering, University of Minnesota, Minneapolis, MN 55455, USADepartment of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A8, CanadaDepartment of Computer Science and Engineering, University of Minnesota, Minneapolis, MN 55455, USA; Corresponding authorDepartment of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A8, Canada; Corresponding authorSummary: Identifying genes important for fitness in Candida albicans advances our understanding of this important pathogen of humans. Here, we present a functional genomics approach for assessing fitness through the quantification of strain-specific barcodes. We describe steps for library preparation, propagation of strains, genomic DNA extraction, amplification of barcodes, and sequencing. We then detail the computational analysis of data to determine effect size and statistical significance.For complete details on the use and execution of this protocol, please refer to Xiong et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S2666166725000516genomicsmicrobiologymolecular biologygene expression |
| spellingShingle | Emily H. Xiong Xiang Zhang Nicole Robbins Chad L. Myers Leah E. Cowen Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach STAR Protocols genomics microbiology molecular biology gene expression |
| title | Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach |
| title_full | Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach |
| title_fullStr | Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach |
| title_full_unstemmed | Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach |
| title_short | Protocol to identify genes important for Candida albicans fitness in diverse environmental conditions using pooled bar-seq screening approach |
| title_sort | protocol to identify genes important for candida albicans fitness in diverse environmental conditions using pooled bar seq screening approach |
| topic | genomics microbiology molecular biology gene expression |
| url | http://www.sciencedirect.com/science/article/pii/S2666166725000516 |
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