Abstract:
BACKGROUND:Chlamydia trachomatis is a pathogen of worldwide importance, causing more than 100 million cases of sexually transmitted infections annually. Whole-genome sequencing is a powerful high resolution tool that can be used to generate accurate data on bacterial population structure, phylogeography and mutations associated with antimicrobial resistance. The objective of this study was to perform whole-genome enrichment and sequencing of C. trachomatis directly from clinical samples. METHODS:C. trachomatis positive samples comprising seven vaginal swabs and three urine samples were sequenced without prior in vitro culture in addition to nine cultured C. trachomatis samples, representing different serovars. A custom capture RNA bait set, that captures all known diversity amongst C. trachomatis genomes, was used in a whole-genome enrichment step during library preparation to enrich for C. trachomatis DNA. All samples were sequenced on the MiSeq platform. RESULTS:Full length C. trachomatis genomes (>95-100% coverage of a reference genome) were successfully generated for eight of ten clinical samples and for all cultured samples. The proportion of reads mapping to C. trachomatis and the mean read depth across each genome were strongly linked to the number of bacterial copies within the original sample. Phylogenetic analysis confirmed the known population structure and the data showed potential for identification of minority variants and mutations associated with antimicrobial resistance. The sensitivity of the method was >10-fold higher than other reported methodologies. CONCLUSIONS:The combination of whole-genome enrichment and deep sequencing has proven to be a non-mutagenic approach, capturing all known variation found within C. trachomatis genomes. The method is a consistent and sensitive tool that enables rapid whole-genome sequencing of C. trachomatis directly from clinical samples and has the potential to be adapted to other pathogens with a similar clonal nature.
journal_name
BMC Infect Disjournal_title
BMC infectious diseasesauthors
Christiansen MT,Brown AC,Kundu S,Tutill HJ,Williams R,Brown JR,Holdstock J,Holland MJ,Stevenson S,Dave J,Tong CY,Einer-Jensen K,Depledge DP,Breuer Jdoi
10.1186/s12879-014-0591-3subject
Has Abstractpub_date
2014-11-12 00:00:00pages
591issn
1471-2334pii
s12879-014-0591-3journal_volume
14pub_type
杂志文章abstract:BACKGROUND:There are few reports in the literature of invasive infection caused by Brevundimonas vesicularis in patients without immunosuppression or other predisposing factors. The choice of antimicrobial therapy for bacteremia caused by the pathogen requires more case experience to be determined. CASE PRESENTATION:T...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-6-179
更新日期:2006-12-29 00:00:00
abstract:BACKGROUND:The China-Myanmar border is a particularly interesting region that has very high prevalence of and considerable diversity of HIV-1 recombinants. Due to the transient nature of their work, long-distance truck drivers (LDTDs) have a comparatively high potential to become infected with HIV-1 and further spread ...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-14-463
更新日期:2014-08-26 00:00:00
abstract:BACKGROUND:To determine the prevalence of enteric infections in Aboriginal children aged 0-2 years using conventional and molecular diagnostic techniques and to explore associations between the presence of pathogens and child growth. METHODS:Cross-sectional analysis of Aboriginal children (n = 62) residing in a remote...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-020-05685-1
更新日期:2021-01-06 00:00:00
abstract:BACKGROUND/AIM:Methicillin-resistant Staphylococcus aureus (MRSA) is one of the most common multidrug-resistant organisms in healthcare settings worldwide, but little is known about MRSA transmission outside of acute healthcare settings especially in Asia. We describe the methods for a prospective longitudinal study of...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-017-2793-y
更新日期:2017-10-11 00:00:00
abstract:BACKGROUND:Tuberculosis continues to be one of the leading causes of death worldwide and in the American region. Although multidrug-resistant tuberculosis (MDR-TB) remains a threat to TB control in Panama, few studies have focused in typing MDR-TB strains. The aim of our study was to characterize MDR Mycobacterium tube...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-13-442
更新日期:2013-09-23 00:00:00
abstract:BACKGROUND:The emerging resistance to the extended-spectrum cephalosporins (ESCs) in Neisseria gonorrhoeae together with increasing incidence of gonorrhoea cases in many countries have been global public health concerns. However, in recent years the levels of ESC resistance have decreased in several regions worldwide. ...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-015-1013-x
更新日期:2015-08-11 00:00:00
abstract:BACKGROUND:Erythema induratum of Bazin (EIB) - nodular vasculitis associated with Mycobacterium tuberculosis (TB) - and Tuberculosis-Associated Ocular Inflammation (TB-AOI) represent uncommon manifestations of TB. There is limited data and a lack of diagnostic and treatment standards for these conditions. METHODS:Elev...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-3737-5
更新日期:2019-01-29 00:00:00
abstract:BACKGROUND:Bacterial resistance to first line antibiotics used to treat community-onset urinary tract infections (UTIs) continues to emerge. We sought to determine the association between extended-spectrum cephalosporin resistance (ESC-R) and recurrence among Enterobacteriaceae (EB) UTIs. METHODS:A retrospective cohor...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-3804-y
更新日期:2019-02-14 00:00:00
abstract:BACKGROUND:Ureaplasma urealyticum is a fastidious bacteria which lacks a cell wall. Extragenital infections are rare in immunocompetent adults. There are few literature reports of perinephric abscess. We present a case of non-resolving multifocal "culture-negative" abscesses in a hypogammaglobulinemic adult female due ...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-020-4771-z
更新日期:2020-01-15 00:00:00
abstract:BACKGROUND:The public health response to Zika outbreak has mostly focused on epidemiological surveillance, vector control, and individual level preventative measures. This qualitative study employs a social-ecological framework to examine how macro (historical, legislative, political, socio-economic factors), meso (sou...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-020-04987-8
更新日期:2020-04-03 00:00:00
abstract:BACKGROUND:Efficient and effective strategies for identifying cases of active tuberculosis (TB) in rural sub-Saharan Africa are lacking. Household contact tracing offers a potential approach to diagnose more TB cases, and to do so earlier in the disease course. METHODS:Adults newly diagnosed with active TB were recrui...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-018-3193-7
更新日期:2018-07-04 00:00:00
abstract:BACKGROUND:Influenza vaccination is recognized as a primary public health intervention which prevents the illness of patients and relieves the societal burdens of influenza for medical community as well as the economy. To date, no effectiveness study of influenza vaccination has been conducted including a large populat...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-4186-x
更新日期:2019-07-05 00:00:00
abstract:BACKGROUND:Acute myopericarditis and exertional rhabdomyolysis, two uncommon but well-described diseases with potentially life-threatening effects, are generally considered as independent clinical entities. However, they may in fact be pathophysiologically related under certain circumstances. This is the first ever rep...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-13-283
更新日期:2013-06-21 00:00:00
abstract:BACKGROUND:Procalcitonin (PCT) has become a commonly used serum inflammatory marker. Our aim was to describe the kinetics and usefulness of serial post-operative PCT measurements to detect bacterial infection in a cohort of children immediately after pediatric liver transplantation (pLT). METHODS:We performed a retros...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-017-2234-y
更新日期:2017-02-15 00:00:00
abstract:BACKGROUND:People successfully completing treatment for tuberculosis remain at elevated risk for recurrent disease, either from relapse or reinfection. Identifying risk factors for recurrent tuberculosis may help target post-tuberculosis screening and care. METHODS:We enrolled 500 patients with smear-positive pulmonar...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-020-05515-4
更新日期:2020-10-23 00:00:00
abstract:BACKGROUND:The incidence of community-associated methicillin-resistant Staphylococcus aureus (MRSA) has risen dramatically in the U.S., particularly among children. Although Streptococcus pneumoniae colonization has been inversely associated with S. aureus colonization in unvaccinated children, this and other risk fact...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-9-110
更新日期:2009-07-11 00:00:00
abstract:BACKGROUND:Osteomyelitis is a difficult-to-cure infection with a high relapse rate despite combined medical and surgical therapies. Some severity factors, duration of antimicrobial therapy and type of surgical procedure might influence osteomyelitis relapse. METHODS:116 patients with osteomyelitis were followed for ≥1...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-018-3550-6
更新日期:2018-12-07 00:00:00
abstract:BACKGROUND:We describe a case of severe Guillain-Barre syndrome (GBS) associated with chronic active hepatitis C and mixed cryoglobulinemia (MC). To our knowledge, this association between GBS and hepatitis C virus (HCV) infection has been rarely reported. CASE PRESENTATION:A 56-year-old man developed symmetrical musc...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-4278-7
更新日期:2019-07-17 00:00:00
abstract:BACKGROUND:For a long time, the role of CD8(+) T cells in blood-stage malaria was not considered important because erythrocytes do not express major histocompatibility complex (MHC) class I proteins. While recent evidences suggest that CD8(+) T cells may play an important role during the erythrocytic phase of infection...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-015-0762-x
更新日期:2015-01-31 00:00:00
abstract:BACKGROUND:Drug resistant tuberculosis is a major public health problem in Morocco and worldwide. Treatment outcome of drug resistant tuberculosis is poor and requires a long period of treatment with many toxic and expensive antituberculosis drugs. The aim of this study is to evaluate treatment outcomes of drug resista...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-3931-5
更新日期:2019-04-11 00:00:00
abstract:BACKGROUND:A novel Ehrlichia, closely related to Ehrlichia ruminantium, was recently discovered from Panola Mountain State Park, GA, USA. We conducted a study to determine if this agent was recently introduced into the United States. METHODS:We developed a sensitive PCR assay based on the conserved gltA (citrate synth...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-8-54
更新日期:2008-04-23 00:00:00
abstract:BACKGROUND:Systematic reviews suggest that the incidence of diagnosed tuberculosis is two- to- three times higher in those with diabetes mellitus than in those without. Few studies have previously reported the association between diabetes or hyperglycaemia and the prevalence of active tuberculosis and none in a populat...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-016-2066-1
更新日期:2016-12-05 00:00:00
abstract:BACKGROUND:Children in developing country suffer the highest burden of pneumonia. However, few studies have evaluated associations between poverty and pneumonia. METHODS:A prospective population-based study on pneumonia was carried out as part of the Latin America Epidemiological Assessment of Pneumococcus (LEAP study...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-11-180
更新日期:2011-06-22 00:00:00
abstract:BACKGROUND:Self-reported antiretroviral therapy (ART) adherence measures that are associated with plasma viral load (VL) are valuable to clinicians and researchers, but are rarely examined among groups vulnerable to dropping out of care. One-seventh of all those living with HIV pass through incarceration annually and c...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-019-4443-z
更新日期:2019-10-29 00:00:00
abstract:BACKGROUND:Patients with HIV/AIDS on Antiretroviral Therapy (ART) suffer from physical, psychological and spiritual problems. Despite international policy explicitly stating that a multidimensional approach such as palliative care should be delivered throughout the disease trajectory and alongside treatment, the effect...
journal_title:BMC infectious diseases
pub_type: 杂志文章,随机对照试验
doi:10.1186/1471-2334-12-288
更新日期:2012-11-06 00:00:00
abstract:BACKGROUND:Current diagnostic methods for Schistosoma japonicum infection are insensitive for low-density infections. Therefore, a new diagnostic assay based on recombinase polymerase amplification (RPA) technology was established and assessed for field applification. METHODS:The S.japonicum RPA assay was developed to...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-017-2182-6
更新日期:2017-02-21 00:00:00
abstract:BACKGROUND:Despite the successes of routine national childhood vaccination programmes, measles remains a public health concern. The purpose of this paper is to investigate how patterns of parental attitudes are linked to the decision-making process for or against MMR vaccination. This exploratory study was designed to ...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/s12879-016-1747-0
更新日期:2016-08-11 00:00:00
abstract:BACKGROUND:Cytopenias are the most common HIV-associated hematological abnormality. Cytopenias have been associated with several factors including sex, race/ethnicity, geographical location and comorbidities such as tuberculosis, hepatitis B infection, fever and oral candidiasis. Cytopenias become more prevalent as HIV...
journal_title:BMC infectious diseases
pub_type: 杂志文章,随机对照试验
doi:10.1186/1471-2334-14-496
更新日期:2014-09-10 00:00:00
abstract:BACKGROUND:Haemophilus influenzae type b (Hib) vaccination led to a significant decrease in invasive bacterial infections in children. The aim of this study was to assess a potential shift to more non-type b invasive infections in a population with high Hib vaccination coverage and to compare the burden of suffering be...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-9-45
更新日期:2009-04-20 00:00:00
abstract:BACKGROUND:The pandemic influenza A (H1N1) virus emerged during 2009 and has spread worldwide. This virus can cause injuries to the lungs, liver, and heart. However, data regarding whether this influenza virus can affect pancreatic islets are limited. We investigated the effects of influenza A (H1N1) pneumonia on fasti...
journal_title:BMC infectious diseases
pub_type: 杂志文章
doi:10.1186/1471-2334-11-104
更新日期:2011-04-21 00:00:00