ArticleGenome research2013
Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture.
Article in Genome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
76 citing papers in PubMed.
- A new core-genome MLST approach for Chlamydia trachomatis genomic surveillance and research.Nature communications · 2026Article
- Review
- Advances in Host Depletion and Pathogen Enrichment Methods for Rapid Sequencing-Based Diagnosis of Bloodstream Infection.The Journal of molecular diagnostics : JMD · 2024Review
- Article
- ReporType: A Flexible Bioinformatics Tool for Targeted Loci Screening and Typing of Infectious Agents.International journal of molecular sciences · 2024Article
- Whole Genome Sequencing: Applications in Clinical Bacteriology.Medical principles and practice : international journal of the Kuwait University, Health Science Centre · 2024Review
- A fast machine-learning-guided primer design pipeline for selective whole genome amplification.PLoS computational biology · 2023Article
- Patterns of within-host spread ofbioRxiv : the preprint server for biology · 2023Article
- Patterns of within-host spread ofFrontiers in microbiology · 2023Article
- Combination of Whole Genome Sequencing and Metagenomics for Microbiological Diagnostics.International journal of molecular sciences · 2022Review
- Genomics of Ocular Chlamydia trachomatis After 5 Years of SAFE Interventions for Trachoma in Amhara, Ethiopia.The Journal of infectious diseases · 2022Article
- Diagnosis of Chlamydia trachomatis genital infections in the era of genomic medicine.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2021Review
- Article
- Whole-Genome Enrichment and Sequencing of Chlamydia trachomatis Directly from Patient Clinical Vaginal and Rectal Swabs.mSphere · 2021Article
- High-resolution multilocus sequence typing for Chlamydia trachomatis: improved results for clinical samples with low amounts of C. trachomatis DNA.BMC microbiology · 2021Article
- Article
- Chlamydiae - What's New?Journal of veterinary research · 2020Article
- Optimizing DNA Extraction Methods for Nanopore Sequencing of Neisseria gonorrhoeae Directly from Urine Samples.Journal of clinical microbiology · 2020Article
- Mycoplasma penetrans bacteremia in an immunocompromised patient detected by metagenomic sequencing: a case report.BMC infectious diseases · 2020Article
- Diagnosis of complication in lung transplantation by TBLB + ROSE + mNGS.Open medicine (Warsaw, Poland) · 2020Article
16 more citing papers are in PubMed but not listed here.
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Authors and funding
21 authors.
Funding
Abstract
The use of whole-genome sequencing as a tool for the study of infectious bacteria is of growing clinical interest. Chlamydia trachomatis is responsible for sexually transmitted infections and the blinding disease trachoma, which affect hundreds of millions of people worldwide. Recombination is widespread within the genome of C. trachomatis, thus whole-genome sequencing is necessary to understand the evolution, diversity, and epidemiology of this pathogen. Culture of C. trachomatis has, until now, been a prerequisite to obtain DNA for whole-genome sequencing; however, as C. trachomatis is an obligate intracellular pathogen, this procedure is technically demanding and time consuming. Discarded clinical samples represent a large resource for sequencing the genomes of pathogens, yet clinical swabs frequently contain very low levels of C. trachomatis DNA and large amounts of contaminating microbial and human DNA. To determine whether it is possible to obtain whole-genome sequences from bacteria without the need for culture, we have devised an approach that combines immunomagnetic separation (IMS) for targeted bacterial enrichment with multiple displacement amplification (MDA) for whole-genome amplification. Using IMS-MDA in conjunction with high-throughput multiplexed Illumina sequencing, we have produced the first whole bacterial genome sequences direct from clinical samples. We also show that this method can be used to generate genome data from nonviable archived samples. This method will prove a useful tool in answering questions relating to the biology of many difficult-to-culture or fastidious bacteria of clinical concern.
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