Infectious diseases now最新文献

{"title":"Infection prevention for immunocompromised patients: A cross-translational multicentric survey of current organization in France","authors":"A. Saade ,&nbsp;B. Wyplosz ,&nbsp;M. Baldeyrou ,&nbsp;C. Paris ,&nbsp;P. Tattevin ,&nbsp;C. Janssen ,&nbsp;for the SPILF group “Vaccination et Prévention”","doi":"10.1016/j.idnow.2024.104863","DOIUrl":"10.1016/j.idnow.2024.104863","url":null,"abstract":"<div><h3>Objectives</h3><p>To evaluate current organization of infection prevention for immunocompromised patients (ICP) at a countrywide level.</p></div><div><h3>Methods</h3><p>Nationwide cross-sectional multicenter study based on an online survey disseminated in 2022 to physicians invested with preventive healthcare missions.</p></div><div><h3>Results</h3><p>A total of 341 physicians (96% graduates, 32% infectious disease specialists), participated in the survey, with a median age of 40 [35–51] years. On-site access to infection prevention consultations for ICP was reported by 30%, dedicated pre-travel consultations for ICPs by 29%, consultations for infection prevention in solid organ transplant candidates by 16% and return-to-work consultations for ICPs by 6%. Most participants (73%) were aware of nationwide vaccination guidelines for ICP, while 50% felt comfortable using them. Tools for infection prevention advice and ICP vaccination had been developed by 10%, while 89% would have appreciated access to tools developed by others.</p></div><div><h3>Conclusions</h3><p>Infection prevention for ICPs remains neglected. Guidelines covering all fields of prevention for ICPs would be more than welcome.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104863"},"PeriodicalIF":3.5,"publicationDate":"2024-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000186/pdfft?md5=74fa29acbe7c3ae2ea217f07b4970822&pid=1-s2.0-S2666991924000186-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139716026","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Prevalence of transfusion-transmitted infections in hospitalized patients before transfusion and volunteer blood donors in Zhejiang Province, China.","authors":"Lin Mengjiao ,&nbsp;Xu Yushan ,&nbsp;Lv Yan ,&nbsp;Cui Dawei ,&nbsp;Zhang Xiaojun ,&nbsp;Wang Yongjun ,&nbsp;Shen Cuifen ,&nbsp;Xie Jue","doi":"10.1016/j.idnow.2024.104861","DOIUrl":"10.1016/j.idnow.2024.104861","url":null,"abstract":"<div><h3>Objectives</h3><p>To assess the need for screening of transfusion-transmitted infections (TTIs) in blood products, we assessed TTI seroprevalence in blood donors and hospitalized patients.</p></div><div><h3>Methods</h3><p>We collected 2760 serum samples from three regions of Hangzhou, Ningbo and Huzhou from April 2021 to March 2022, and they tested by enzyme-linked immunosorbent assay (ELISA) for Hepatitis B surface antigen (HBsAg), Hepatitis C (HCV), Treponema pallidum (TP), Cytomegalovirus (CMV), Epstein-Barr virus (EBV), Hepatitis E virus (HEV) and Human T-cell lymphotropic virus type 1/2 (HTLV-1/2) antibody levels.</p></div><div><h3>Results</h3><p>Screening test results showed that the positive rates for HBsAg, anti-HCV and anti-TP were 3.01 %, 0.39 % and 0.18 %, respectively. The positive rates for CMV IgM and CMV IgG were 0.76 % and 96.96 %, while the positive rates for EB VCA-IgM and EB EA-IgG were 1.88 % and 10.47 %; those for HEV IgM and HEV IgG were 1.16 % and 26.05 %, while the HTLV-1/2 antibody positive rate was 0.04 %. The positive rates for CMV IgG, EB EA-IgG and HEV IgG in hospitalized patients before transfusion were higher than in volunteer blood donors, and the difference was statistically significant (P &lt; 0.05). The overall co-infection rate was 0.29 %. The positive rates for EB VCA-IgM in the males were significantly higher than in females, and EB VCA-IgM and HEV IgG prevalence varied significantly by age.</p></div><div><h3>Conclusion</h3><p>Our data demonstrate the risk of TTI exposure and TTI transmission in the Zhejiang population, which poses a threat to blood safety. It is hoped that expansion of pathogen categories (CMV, EBV, HEV and HTLV-1/2) and blood screening programs will contribute to the future adoption of scientific blood transfusion methods.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104861"},"PeriodicalIF":3.5,"publicationDate":"2024-02-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000162/pdfft?md5=34c3bdd43855a457b3ff9c839a509c69&pid=1-s2.0-S2666991924000162-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139691753","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Imported malaria: A 20-year retrospective study from a tertiary public hospital in Brussels, Belgium","authors":"Mikaël Leys ,&nbsp;Emmanuel Bottieau ,&nbsp;Javiera Rebolledo ,&nbsp;Charlotte Martin","doi":"10.1016/j.idnow.2024.104856","DOIUrl":"10.1016/j.idnow.2024.104856","url":null,"abstract":"<div><h3>Background</h3><p>Malaria continues to cause a significant number of infections in non-endemic regions. In this paper, we describe the epidemiological trend and morbidity of imported malaria diagnosed in a tertiary hospital in Brussels.</p></div><div><h3>Methods</h3><p>We conducted a retrospective study describing a cohort of malaria episodes (in- and outpatients) at Centre Hospitalier Universitaire Saint-Pierre from 1998 to 2017. Epidemiological and clinical data were collected by reviewing medical files.</p></div><div><h3>Results</h3><p>A total of 1011 malaria episodes were analyzed. Median age at diagnosis was 35 years, and 66 % of patients were men (672/1011). Malaria cases significantly increased over the two decades (from 17 in 1998 to 79 in 2017). <em>Plasmodium falciparum</em> malaria was most often diagnosed (846/935, 89 %), primarily from Central (530/935, 57 %) and West Africa (324/935, 35 %). Many cases (383/764, 50 %) were diagnosed in patients “visiting friends and relatives”. HIV-infected and other immunocompromised patients were significantly more likely to present with severe malaria (at least one severity criteria as defined by the WHO) compared to other patients (24/57, 42 % vs 138/732, 19 %, p &lt; 0.01 and 15/21, 71 % vs 147/767, 19 %, p &lt; 0.001). Severe malaria was diagnosed in 16.9 % and the mortality rate was low (5/1011, 0.5 %).</p></div><div><h3>Conclusion</h3><p>Imported malaria increased over the years with a large, albeit stable number of cases diagnosed in patients visiting friends and relatives. These findings, along with the high rate of severe malaria in HIV and immunocompromised patients, underscore an urgent need for strengthened malaria surveillance and targeted preventive interventions.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 3","pages":"Article 104856"},"PeriodicalIF":3.5,"publicationDate":"2024-02-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000113/pdfft?md5=92eaabde4c63cd95f8604b2e2fcee493&pid=1-s2.0-S2666991924000113-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681055","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Prevention and management of VZV infection during pregnancy and the perinatal period","authors":"Caroline Charlier ,&nbsp;Olivia Anselem ,&nbsp;Marion Caseris ,&nbsp;Marie Lachâtre ,&nbsp;Asmaa Tazi ,&nbsp;Marine Driessen ,&nbsp;Didier Pinquier ,&nbsp;Chemsa Le Cœur ,&nbsp;Aurélie Saunier ,&nbsp;Mathilde Bergamelli ,&nbsp;Roxane Gibert Vanspranghels ,&nbsp;Anaïs Chosidow ,&nbsp;Charles Cazanave ,&nbsp;Sophie Alain ,&nbsp;Karine Faure ,&nbsp;André Birgy ,&nbsp;François Dubos ,&nbsp;Philippe Lesprit ,&nbsp;Julie Guinaud ,&nbsp;Robert Cohen ,&nbsp;Christelle Vauloup-Fellous","doi":"10.1016/j.idnow.2024.104857","DOIUrl":"10.1016/j.idnow.2024.104857","url":null,"abstract":"","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 4","pages":"Article 104857"},"PeriodicalIF":3.5,"publicationDate":"2024-02-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000125/pdfft?md5=62055db3569265c5c903617c39cbb983&pid=1-s2.0-S2666991924000125-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681056","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hospital-based screening outperforms primary care screening as a means of achieving hepatitis C virus micro-elimination","authors":"Carlos E. Fernández-García ,&nbsp;Juan Gallego-Galiana ,&nbsp;Pablo A. Solís-Muñoz ,&nbsp;Elvira del Pozo-Maroto ,&nbsp;Lucía Domínguez-Alcón ,&nbsp;Milagros Tobar-Izquierdo ,&nbsp;Alicia Sáez ,&nbsp;Javier Rodríguez de Cía ,&nbsp;Amelia Magaña-Sánchez ,&nbsp;Yolanda Real-Martínez ,&nbsp;Luisa García-Buey ,&nbsp;Leticia González-Moreno ,&nbsp;María Caldas-Álvarez ,&nbsp;Laura M. Cardeñoso-Domingo ,&nbsp;Amelia González-Gamarra ,&nbsp;Antonio Salvador-Calvo ,&nbsp;Águeda González-Rodríguez ,&nbsp;Carmelo García-Monzón","doi":"10.1016/j.idnow.2024.104855","DOIUrl":"10.1016/j.idnow.2024.104855","url":null,"abstract":"<div><h3>Aim</h3><p>To assess the respective performances of a HCV screening program in a hospital setting and a HCV screening model applied concomitantly in a primary care centre.</p></div><div><h3>Methods</h3><p>Adult patients consecutively admitted to hospital for ambulatory surgery were screened for anti-HCV antibodies (hospital screening cohort, HPSC), as were patients receiving blood tests for medical reasons in a primary care centre (primary care screening cohort, PCSC). Serum anti-HCV and HCV RNA levels were tested by ELISA and real-time PCR, respectively.</p></div><div><h3>Results</h3><p>Seroprevalence of HCV infection was 2.2 % in the HPSC and 1.4 % in the PCSC (p = 0.044). All viraemic patients (0.2 % in HPSC and 0.1 % in PCSC) were treated with direct-acting antivirals and 85.7 % experienced a sustained virological response.</p></div><div><h3>Conclusions</h3><p>Hospital-based HCV screening outperformed primary care-centered screening, significantly increasing HCV case findings.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104855"},"PeriodicalIF":3.5,"publicationDate":"2024-02-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000101/pdfft?md5=c03668c3b006632cf9766ef829b4c63c&pid=1-s2.0-S2666991924000101-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681054","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Assessment of the predictive value of plasma calprotectin in the evolution of SARS-Cov-2 primo-infection","authors":"Gauthier Lignier ,&nbsp;Caroline Camaré ,&nbsp;Thibaut Jamme ,&nbsp;Marie-Sophie Combis ,&nbsp;Didier Tayac ,&nbsp;Françoise Maupas-Schwalm","doi":"10.1016/j.idnow.2024.104860","DOIUrl":"10.1016/j.idnow.2024.104860","url":null,"abstract":"<div><h3>Background</h3><p>The COVID-19 epidemic still calls for anticipation aimed at preventing the overloading of critical care services. With this in mind, the predictive value of easily accessible biomarkers is to be assessed.</p></div><div><h3>Objective</h3><p>Secretion of calprotectin is stimulated during an inflammatory process, especially in the cytokine storm. We tried to determine whether early plasma concentration of calprotectin in patients with primary SARS-CoV-2 infection could predict an adverse outcome in cases of COVID-19.</p></div><div><h3>Methods</h3><p>We included 308 patients with a primary diagnosis of SARS-CoV-2 confirmed by PCR. Heparinized tube samples, collected within the first 24 h of hospitalization, were used for biomarker assays, in which plasma calprotectin was included. Data from the patients' medical records and severity groups established subsequent to diagnosis at the end of hospitalization were collected.</p></div><div><h3>Results</h3><p>Early plasma calprotectin concentration is significantly associated with progression to a severe form of COVID-19 in patients with primary infection (Relative Risk: 2.2 [1.6–2.7]). In multivariate analysis, however, it does not appear to provide additional information compared to other parameters (age, GFR, CRP…).</p></div><div><h3>Conclusion</h3><p>Our study shows that while an early single blood test for calprotectin could help to predict the progression of a primary SARS-CoV-2 infection, it is not superior to the other parameters currently used in emergency medicine. However, it paves the way for future considerations, such as the interest of this biomarker for high-risk infected patients (immunocompromised individuals…). Finally, the usefulness of early serial measurements of plasma calprotectin to assess progression towards severity of COVID-19 requires further assessment.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104860"},"PeriodicalIF":3.5,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000150/pdfft?md5=1019e7819c4d8eb12fc4b80736ddde42&pid=1-s2.0-S2666991924000150-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681051","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Central venous catheter-related bloodstream infections: Epidemiology and risk factors for hematogenous complications","authors":"Elisabeth Carolle Ngo Bell ,&nbsp;Virginie Chapon ,&nbsp;Emilie Bessede ,&nbsp;Etienne Meriglier ,&nbsp;Nahema Issa ,&nbsp;Charlotte Domblides ,&nbsp;Fabrice Bonnet ,&nbsp;Marie-Anne Vandenhende","doi":"10.1016/j.idnow.2024.104859","DOIUrl":"10.1016/j.idnow.2024.104859","url":null,"abstract":"<div><h3>Background</h3><p>Central catheter-related bloodstream infections (CRBIs) can lead to severe complications, including suppurative thrombophlebitis, endocarditis, and metastatic infections. While complications due to CRBIs caused by <em>Staphylococcus aureus</em> (SA) are well-known, there are limited data regarding CRBIs caused by other bacteria.</p></div><div><h3>Methods</h3><p>This 2-year retrospective single-center study of patients with CRBIs from a tertiary care hospital examined the hematogenous complications associated with CRBIs according to patient characteristics, central venous catheter (CVC) types, and causative bacteria.</p></div><div><h3>Results</h3><p>All in all, 254 patients with confirmed CRBIs were included; 285 bacteria types were isolated, mainly Enterobacteriaceae (n = 94), coagulase-negative <em>Staphylococci</em> (CNS, n = 82), SA (n = 45), and non-fermenting Gram-negative bacteria (NGB, n = 45). Among the patients, 35 developed at least one hematogenous complication (14 %), including suppurative thrombophlebitis (n = 15), endocarditis (n = 7) and metastatic infections (n = 16). In multivariate analysis, hemodialysis, persistent bacteremia for at least 3 days, and CRBIs caused by SA were associated with increased risk for hematogenous complications, while previous curative anticoagulant treatment was associated with reduced risk. Diabetes, CVC maintenance, and hematogenous complications were associated with increased 3-month mortality.</p></div><div><h3>Conclusion</h3><p>A thorough investigation of hematogenous complications should be envisioned in patients with persistent bacteremia, particularly those with SA infections and those on hemodialysis.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 3","pages":"Article 104859"},"PeriodicalIF":3.5,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000149/pdfft?md5=4f6e59903889ec88873673ad7c6658ad&pid=1-s2.0-S2666991924000149-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681052","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Change of epidemiological characteristics of four respiratory viral infections in children before and during COVID-19 pandemic","authors":"Dan Xu,&nbsp;Zhimin Chen,&nbsp;Guohong Zhu","doi":"10.1016/j.idnow.2024.104858","DOIUrl":"10.1016/j.idnow.2024.104858","url":null,"abstract":"<div><h3>Objectives</h3><p>Viruses are the main infectious agents of acute respiratory infections (ARIs) in children. We aim to describe the changes in epidemic characteristics of viral ARIs in outpatient children before and during the COVID-19 pandemic.</p></div><div><h3>Patients and methods</h3><p>From 2017 to 2022<strong>,</strong> the results of viral detection in oral pharyngeal swabs in 479,236 children with ARIs in the outpatient department of Children’s Hospital, Zhejiang University School of Medicine, were retrospectively analyzed. Viral antigens, including adenovirus (ADV), influenza A (FLUA), influenza B (FLUB) and respiratory syncytial virus (RSV) were detected by the colloidal gold method.</p></div><div><h3>Results</h3><p>The median age was 3.4 (1.6–5.6) years. Among all the children, 159,895 cases (33.4 %) were positive for at least one virus. The total positive rate for ADV, FLUA and FLUB during the pandemic period was lower than during the pre-pandemic period in every season (pre-pandemic period vs. pandemic period11.7 % vs. 4.7 %, 13.9 % vs. 9.2 %, 7.0 % vs. 5.2 %, respectively, with overall <em>p</em> value &lt; 0.001). However, the positive rate fir RSV was not significantly different between the pre-pandemic period and the pandemic period (5.6 % vs. 5.8 %, <em>p</em> = 0.117). Atypical timing of RSV (summer-autumn 2021) and FLUA (summer 2022) was noted.</p></div><div><h3>Conclusions</h3><p>Public health interventions for different pathogens are maximally effective. While positive rates for ADV, FLUA and FLUB decreased during the COVID-19 pandemic period, positive rates for RSV remained similar. In RSV and FLUA, off-season outbreaks were observed. Measures need to be taken to protect children from possible infection surges due to immunity debt having accrued over the last three years.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 3","pages":"Article 104858"},"PeriodicalIF":3.5,"publicationDate":"2024-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991924000137/pdfft?md5=2c61c64d44aabefe4629bdd16c0d8e7e&pid=1-s2.0-S2666991924000137-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139681053","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparison of HIV-1 DNA load measurements in blood and in relation to successful proviral sequencing","authors":"Anne Fuchs ,&nbsp;Antoine Wasser ,&nbsp;Clayton Faua ,&nbsp;Stéphanie Caspar ,&nbsp;Frédéric Jegou ,&nbsp;Aurélie Velay ,&nbsp;Elodie Laugel ,&nbsp;Axel Ursenbach ,&nbsp;David Rey ,&nbsp;Samira Fafi-Kremer ,&nbsp;Pierre Gantner","doi":"10.1016/j.idnow.2023.104845","DOIUrl":"https://doi.org/10.1016/j.idnow.2023.104845","url":null,"abstract":"<div><h3>Objective</h3><p>HIV DNA sequencing is now routinely used for HIV-infected individuals on antiretroviral therapy (ART) with or without partial genotypic history. Successful amplification of HIV <em>pol</em> gene has yet to be correlated with HIV DNA levels. Here, we assessed the relationship between HIV DNA load and sequencing results.</p></div><div><h3>Methods</h3><p>We analyzed three different qPCR measurements of total (LTR and LTR-gag) and integrated (Alu-LTR) HIV DNA in blood samples collected from viremic as well as virally suppressed HIV-infected individuals on ART. HIV DNA levels were compared to HIV DNA Sanger sequencing and clinical and therapeutic parameters.</p></div><div><h3>Results</h3><p>Among the 135 individuals analyzed for HIV DNA measurements and sequencing, all three HIV DNA measurements were associated with HIV DNA Sanger sequencing results. A threshold of around 2 and 1.5 log copies/million leukocytes of total HIV DNA was identified for LTR and LTR-gag qPCRs, respectively. Integrated HIV DNA positivity was also associated with successful sequencing. We further compared HIV DNA measurement techniques in an extended cohort of 312 individuals and showed that all measurements correlated between the different techniques, regardless of the HIV-1 subtypes analyzed. However, higher detection rates were observed with LTR (96%) compared to LTR-gag (86%) and Alu-LTR (59%) qPCRs. Duration of virological control on ART and CD4 nadir were the main determinants of HIV reservoir size.</p></div><div><h3>Conclusions</h3><p>HIV DNA measurement is associated with Sanger sequencing success, regardless of the technique used. In a clinical setting, Application of HIV DNA quantification before sequencing should be further evaluated.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104845"},"PeriodicalIF":3.5,"publicationDate":"2023-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991923002075/pdfft?md5=b7f2c7f4f3b415fd89a68db3469774ef&pid=1-s2.0-S2666991923002075-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138738940","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The clinical and epidemiological impacts of whole genomic sequencing on bacterial and virological agents","authors":"Sarah Timsit ,&nbsp;Laurence Armand-Lefèvre ,&nbsp;Jérôme Le Goff ,&nbsp;Maud Salmona","doi":"10.1016/j.idnow.2023.104844","DOIUrl":"10.1016/j.idnow.2023.104844","url":null,"abstract":"<div><p><em>Whole Genome Sequencing</em> (WGS) is a molecular biology tool consisting in the sequencing of the entire genome of a given organism. Due to its ability to provide the finest available resolution of bacterial and virological genetics, it is used at several levels in the field of infectiology. On an individual scale and through application of a single technique, it enables the typological identification and characterization of strains, the characterization of plasmids, and enhanced search for resistance genes and virulence factors. On a collective scale, it enables the characterization of strains and the determination of phylogenetic links between different microorganisms during community outbreaks and healthcare-associated epidemics. The information provided by WGS enables real-time monitoring of strain-level epidemiology on a worldwide scale, and facilitates surveillance of the resistance dissemination and the introduction or emergence of pathogenic variants in humans or their environment. There are several possible approaches to completion of an entire genome. The choice of one method rather than another is essentially dictated by the matrix, either a clinical sample or a culture isolate, and the clinical objective. WGS is an advanced technology that remains costly despite a gradual decrease in its expenses, potentially hindering its implementation in certain laboratories and thus its use in routine microbiology. Even though WGS is making steady inroads as a reference method, efforts remain needed in view of so harmonizing its interpretations and decreasing the time to generation of conclusive results.</p></div>","PeriodicalId":13539,"journal":{"name":"Infectious diseases now","volume":"54 2","pages":"Article 104844"},"PeriodicalIF":3.5,"publicationDate":"2023-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S2666991923002063/pdfft?md5=47661a753049bf7ce687cc292c6d7f56&pid=1-s2.0-S2666991923002063-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138803878","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}