ArticleApplied and environmental microbiology2007
Development of genomic array footprinting for identification of conditionally essential genes in Streptococcus pneumoniae.
Article in Applied and environmental microbiology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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30 citing papers in PubMed, 42 citations in OpenAlex.
- Harnessing CRISPR-Cas9 for Genome Editing in Streptococcus pneumoniae D39V.Applied and environmental microbiology · 2021Article
- The zinc efflux activator SczA protects Streptococcus pneumoniae serotype 2 D39 from intracellular zinc toxicity.Molecular microbiology · 2017Article
- Characterization of pneumococcal Ser/Thr protein phosphatase phpP mutant and identification of a novel PhpP substrate, putative RNA binding protein Jag.BMC microbiology · 2016Article
- Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes.Scientific reports · 2015Article
- Statistical Analysis of Hurst Exponents of Essential/Nonessential Genes in 33 Bacterial Genomes.PloS one · 2015Article
- Nontypeable Haemophilus influenzae carbonic anhydrase is important for environmental and intracellular survival.Journal of bacteriology · 2013Article
- Streptococcus pneumoniae folate biosynthesis responds to environmental CO2 levels.Journal of bacteriology · 2013Article
- Systems-level antimicrobial drug and drug synergy discovery.Nature chemical biology · 2013Article
- Genome-wide identification of genes required for fitness of group A Streptococcus in human blood.Infection and immunity · 2013Article
- Mislocalization of Rieske protein PetA predominantly accounts for the aerobic growth defect of Tat mutants in Shewanella oneidensis.PloS one · 2013Article
- Comprehensive antigen screening identifies Moraxella catarrhalis proteins that induce protection in a mouse pulmonary clearance model.PloS one · 2013Article
- Pyruvate oxidase influences the sugar utilization pattern and capsule production in Streptococcus pneumoniae.PloS one · 2013Article
- Genome-wide identification of ampicillin resistance determinants in Enterococcus faecium.PLoS genetics · 2012Article
- Pneumococcal gene complex involved in resistance to extracellular oxidative stress.Infection and immunity · 2012Article
- Article
- ESSENTIALS: software for rapid analysis of high throughput transposon insertion sequencing data.PloS one · 2012Article
- Exploring the optimal strategy to predict essential genes in microbes.Biomolecules · 2011Article
- Two DHH subfamily 1 proteins contribute to pneumococcal virulence and confer protection against pneumococcal disease.Infection and immunity · 2011Article
- Searching in microbial genomes for encoded small proteins.Microbial biotechnology · 2011Article
- Monitoring the long-term molecular epidemiology of the pneumococcus and detection of potential 'vaccine escape' strains.PloS one · 2011Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Streptococcus pneumoniae is a major cause of serious infections such as pneumonia and meningitis in both children and adults worldwide. Here, we describe the development of a high-throughput, genome-wide technique, genomic array footprinting (GAF), for the identification of genes essential for this bacterium at various stages during infection. GAF enables negative screens by means of a combination of transposon mutagenesis and microarray technology for the detection of transposon insertion sites. We tested several methods for the identification of transposon insertion sites and found that amplification of DNA adjacent to the insertion site by PCR resulted in nonreproducible results, even when combined with an adapter. However, restriction of genomic DNA followed directly by in vitro transcription circumvented these problems. Analysis of parallel reactions generated with this method on a large mariner transposon library showed that it was highly reproducible and correctly identified essential genes. Comparison of a mariner library to one generated with the in vivo transposition plasmid pGh:ISS1 showed that both have an equal degree of saturation but that 9% of the genome is preferentially mutated by either one. The usefulness of GAF was demonstrated in a screen for genes essential for surviving zinc stress. This identified a gene encoding a putative cation efflux transporter, and its deletion resulted in an inability to grow under high-zinc conditions. In conclusion, we developed a fast, versatile, specific, and high-throughput method for the identification of conditionally essential genes in S. pneumoniae.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.