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High-throughput comparison of gene fitness among related bacteria.
Canals R, Xia XQ, Fronick C, Clifton SW, Ahmer BM, Andrews-Polymenis HL, Porwollik S, McClelland M. Canals R, et al. BMC Genomics. 2012 May 30;13:212. doi: 10.1186/1471-2164-13-212. BMC Genomics. 2012. PMID: 22646920 Free PMC article.
BACKGROUND: The contribution of a gene to the fitness of a bacterium can be assayed by whether and to what degree the bacterium tolerates transposon insertions in that gene. We use this fact to compare the fitness of syntenic homologous genes am …
BACKGROUND: The contribution of a gene to the fitness of a bacterium can be assayed by whether and to what degree the bacteriu …
AlbaTraDIS: Comparative analysis of large datasets from parallel transposon mutagenesis experiments.
Page AJ, Bastkowski S, Yasir M, Turner AK, Le Viet T, Savva GM, Webber MA, Charles IG. Page AJ, et al. PLoS Comput Biol. 2020 Jul 17;16(7):e1007980. doi: 10.1371/journal.pcbi.1007980. eCollection 2020 Jul. PLoS Comput Biol. 2020. PMID: 32678849 Free PMC article.
Transposon directed insertion-site sequencing (TraDIS) is a powerful tool to identify genes and networks which are involved in survival and fitness under a given condition by simultaneously assaying the fitness of millions of mutants, thereby relating …
Transposon directed insertion-site sequencing (TraDIS) is a powerful tool to identify genes and networks which are involved in surviv …
Quinolone resistance mutations in the faecal microbiota of Swedish travellers to India.
Johnning A, Kristiansson E, Angelin M, Marathe N, Shouche YS, Johansson A, Larsson DG. Johnning A, et al. BMC Microbiol. 2015 Oct 24;15:235. doi: 10.1186/s12866-015-0574-6. BMC Microbiol. 2015. PMID: 26498929 Free PMC article.
BACKGROUND: International travel contributes to the spread of antibiotic resistant bacteria over the world. Most studies addressing travel-related changes in the faecal flora have focused on specific mobile resistance genes, or depended on culturing of indivi …
BACKGROUND: International travel contributes to the spread of antibiotic resistant bacteria over the world. Most studies addressing t …
Salmonella Persistence in Tomatoes Requires a Distinct Set of Metabolic Functions Identified by Transposon Insertion Sequencing.
de Moraes MH, Desai P, Porwollik S, Canals R, Perez DR, Chu W, McClelland M, Teplitski M. de Moraes MH, et al. Appl Environ Microbiol. 2017 Feb 15;83(5):e03028-16. doi: 10.1128/AEM.03028-16. Print 2017 Mar 1. Appl Environ Microbiol. 2017. PMID: 28039131 Free PMC article.
A comparison with studies in animals revealed a distinct plant-associated set of genes, which only partially overlaps with the genes required to elicit disease in animals. ...Therefore, we undertook a high-throughput characterization of the func …
A comparison with studies in animals revealed a distinct plant-associated set of genes, which only partially overlaps with the …
Phenotypic and genetic changes in the life cycle of small colony variants of Salmonella enterica serotype Typhimurium induced by streptomycin.
Li W, Li Y, Wu Y, Cui Y, Liu Y, Shi X, Zhang Q, Chen Q, Sun Q, Hu Q. Li W, et al. Ann Clin Microbiol Antimicrob. 2016 May 31;15(1):37. doi: 10.1186/s12941-016-0151-3. Ann Clin Microbiol Antimicrob. 2016. PMID: 27245674 Free PMC article.
The fitness, antimicrobial susceptibility, biofilm formation, and the biofilm-related genes expression were analyzed in comparison to their wild type strain, and the whole genome sequencing was performed to identify the genetic changes in the life cycl …
The fitness, antimicrobial susceptibility, biofilm formation, and the biofilm-related genes expression were analyzed in …
Inter- and intra-lineage genetic diversity of wild-type Zika viruses reveals both common and distinctive nucleotide variants and clusters of genomic diversity.
Collins ND, Widen SG, Li L, Swetnam DM, Shi PY, Tesh RB, Sarathy VV. Collins ND, et al. Emerg Microbes Infect. 2019;8(1):1126-1138. doi: 10.1080/22221751.2019.1645572. Emerg Microbes Infect. 2019. PMID: 31355708 Free PMC article.
RNA viruses, like ZIKV, exist as populations of genetically-related sequences whose heterogeneity may impact viral fitness, evolution, and virulence. ...We posit that increased non-synonymous SNV populations and increased relative genetic diversity of the prM/M and …
RNA viruses, like ZIKV, exist as populations of genetically-related sequences whose heterogeneity may impact viral fitness, ev …