Access microbiology最新文献

{"title":"Development of acute Pseudomonas aeruginosa and Acinetobacter baumannii lung mono-challenge models in mice using oropharyngeal aspiration.","authors":"Irene Jurado-Martín, Chaoying Ma, Nouran Rezk, Maite Sainz-Mejías, Yueran Hou, John A Baugh, Siobhán McClean","doi":"10.1099/acmi.0.000860.v3","DOIUrl":"10.1099/acmi.0.000860.v3","url":null,"abstract":"<p><p>Antimicrobial-resistant pathogens such as <i>Pseudomonas aeruginosa</i> and <i>Acinetobacter baumannii</i> can cause potentially fatal infections in susceptible individuals, with respiratory tract infections among the most common clinical presentations. The development of novel treatments or prophylactic interventions to combat these infections is urgently needed and requires robust, reliable animal models for their preclinical evaluation. In particular, the bacterial burden needs to be accurately determined before and after administration of the potential therapy under evaluation to quantify the effectiveness of the treatment. We provide two reliable, non-invasive murine acute lung challenge models with either <i>P. aeruginosa</i> or <i>A. baumannii</i> using an oropharyngeal aspiration technique, which has been widely overlooked in studies testing vaccines or treatments for these pathogens. Here, we show that this non-surgical technique to deliver suspensions into mouse lungs does not significantly impact animal welfare (based on welfare monitoring and weight) and allows uniform bilateral distribution of the bacterial dose, resulting in even bioburden in both lungs. The optimal timepoint for humane killing and organ harvest was 24 h after challenge for both pathogens, and at least 4×10⁶ and 10⁷ c.f.u. per mouse were needed to obtain a reproducible <i>P. aeruginosa</i> or <i>A. baumannii</i> bioburden, respectively. These mouse challenge models offer a valuable tool to assess therapeutic interventions against <i>P. aeruginosa</i> or <i>A. baumannii</i> infections.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11580749/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142690262","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Whole genome sequencing assisted outbreak investigation of Salmonella enteritidis, at a hospital in South Africa, September 2022.","authors":"Brian Brümmer, Anthony Marius Smith, Motshabi Modise, Juno Thomas, Hetani Mdose, Ramasedi Mokoena, Dikeledi Baleni","doi":"10.1099/acmi.0.000835.v3","DOIUrl":"10.1099/acmi.0.000835.v3","url":null,"abstract":"<p><p>Health authorities were notified of a suspected outbreak of foodborne disease in a hospital in South Africa, where staff and patients reported acute onset of abdominal cramps, diarrhoea, fever and rigours after eating a chicken pasta meal. The aim of this report is to discuss the use of whole genome sequencing (WGS) analysis of bacterial isolates to support an epidemiological investigation. An epidemiological investigation led by the Infection Control Manager of the hospital and supported by an outbreak response team was conducted. Standard microbiological procedures were used to process stool samples and culture/identify diarrhoeal pathogens. Bacterial cultures were investigated using WGS performed using Illumina NextSeq technology, and WGS data were analysed using multiple bioinformatics tools, including those available at the Center for Genomic Epidemiology and EnteroBase. Core genome multilocus sequence typing (cgMLST) was used to investigate the phylogeny of isolates. Forty-nine cases were identified, with stool samples collected from 21 cases, and nontyphoidal <i>Salmonella</i> isolated from 19 out of 21 (90%) of the samples. All isolates were identified as <i>Salmonella enterica</i> serovar Enteritidis and differed from each other by ≤2 allele differences on cgMLST, indicating that isolates are highly genetically related. Delays in testing of food retention samples rendered the negative test results of limited value. A case-control study was conducted; eating chicken pasta was strongly associated with developing gastroenteritis (Odds Ration (OR) = 15.4, Chi-Square test with Yates correction <i>p</i> value = 0.02). The epidemiological evidence suggests that the chicken pasta was the likely vehicle of transmission in this outbreak, although the source of <i>S. enterica</i> serovar Enteritidis remains unknown.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11572493/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142670208","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Enterotoxigenic Escherichia coli in Blantyre, Malawi.","authors":"Philip M Ashton, Zefaniah Joel Katuah, Arnold Botomani, Belson M Kutambe, Nigel A Cunliffe, Astrid von Mentzer, Chisomo Msefula, Khuzwayo C Jere","doi":"10.1099/acmi.0.000885.v3","DOIUrl":"10.1099/acmi.0.000885.v3","url":null,"abstract":"<p><p>We announce the deposition of the first two enterotoxigenic <i>Escherichia coli</i> (ETEC) genomes from Malawi. They were isolated from the faeces of asymptomatically infected children obtained in 2014. Both genomes encode the porcine variant of the heat-labile toxin and no known ETEC colonization factors.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11572489/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142670207","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A systematic review and meta-analysis of the association between neglected tropical diseases and malnutrition: more research needed on diseases other than intestinal parasites, leishmaniasis and leprosy.","authors":"Aloysius Loglo, Wilfred Aniagyei, Monika Mira Vivekanandan, Abigail Agbanyo, Evans Adu Asamoah, Richard O Phillips, Reginald Annan, Barbara Engel, Rachel E Simmonds","doi":"10.1099/acmi.0.000800.v3","DOIUrl":"10.1099/acmi.0.000800.v3","url":null,"abstract":"<p><p><b>Background.</b> According to the World Health Organization, neglected tropical diseases (NTDs) affect over two billion people worldwide. While the links between nutrition and many diseases have become clear over recent decades, NTDs have lagged behind and the linkage with nutrition is largely unknown. We conducted this systematic review with meta-analysis to determine the current knowledge on the association between NTDs and malnutrition. <b>Methodology.</b> PubMed, Embase, Scopus and African Journals Online databases were searched using predefined search terms. We included all original articles with a case-control design and at least one NTD. The studies had to compare nutritional parameters between infected cases and control participants. Articles that did not report original data were excluded. The quality of the studies was assessed using the Newcastle-Ottawa scale. Pooled estimates were conducted using the random effect model. The publication bias of the studies was determined by funnel plots. <i>Q</i> and <i>I</i> ² statistics were used to assess the heterogeneity of the studies. <b>Results.</b> After screening 1294 articles, only 16 qualified for the systematic review and 12 for meta-analysis. These predominately had a focus on soil-transmitted helminthiasis (ascariasis, hookworm diseases and trichuriasis) and schistosomiasis, with a minority concerning leishmaniasis and leprosy. Pooled estimates showed an association between intestinal parasites and stunting in children [odds ratio (OR) = 1.38, 95% confidence interval (CI): 1.14-1.66, <i>I</i> ² = 0%, tau² = 0]. We also identified a moderate association established between serum iron deficiency (OR = 4.67, 95% CI: 1.91-11.44, tau² = 0) and intestinal parasites. <b>Conclusions/significance.</b> Of the 20 NTDs, the links between diet and disease have been explored for only 4. There is a paucity of data from low- and middle-income countries and least-developed countries where the NTD burden is high. Therefore, more research into the role of malnutrition in NTDs other than intestinal parasites, leishmaniasis and leprosy is needed.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11559247/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633016","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Cell division cycle fluctuation of Pal concentration in Escherichia coli.","authors":"Laureen M Y Mertens, Xinwei Liu, Jolanda Verheul, Alexander J F Egan, Waldemar Vollmer, Tanneke den Blaauwen","doi":"10.1099/acmi.0.000759.v3","DOIUrl":"10.1099/acmi.0.000759.v3","url":null,"abstract":"<p><p>The Tol-Pal proteins stabilize the outer membrane during cell division in many Gram-negative bacteria, including <i>Escherichia coli</i>. Pal is an outer membrane lipoprotein that can bind peptidoglycan. It accumulates at the septum during division by a mobilization-and-capture mechanism. This work further substantiates and extends knowledge of Pal's localization in <i>E. coli</i> using immunolabelling; this method enables the detection of endogenous proteins. The midcell localization of Pal and TolB, as seen with fluorescent protein fusions, during cell division, was confirmed. The retention of Pal in newly formed cell poles seemed to persist longer than observed with fluorescent Pal fusions. The concentration of endogenous Pal during the cell division cycle fluctuated: it decreased initially (to half the fluorescence concentration (32.1 au µm^-3) of the maximum (64.1 au µm^-3) reached during the cell cycle) and then increased during the second half of the cell division cycle. We probed for possible regulators and proposed two new putative regulators of Pal. By deleting the periplasmic protease, Prc decreased the total Pal abundance (to ~65% of the fluorescence concentration in WT cells) and affected its concentration fluctuation during the cell cycle. This suggests that Prc controls a cell division stage-specific regulator of Pal. Immunolabelling also supported the prediction that the small RNA MicA suppresses Pal expression (the fluorescence concentration of Pal in cells without MicA is double that of Pal in WT cells). However, the regulation by MicA occurred in a cell cycle-independent manner. All these findings urge further research on the tight regulation of the dividing cell envelope stability.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11559426/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633147","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Bacterial co-infections in mucormycosis in severely ill populations: an overlooked and complex challenge.","authors":"D E Corzo Leon, V H Ahumada-Topete, L Ostrosky-Zeichner","doi":"10.1099/acmi.0.000850.v4","DOIUrl":"https://doi.org/10.1099/acmi.0.000850.v4","url":null,"abstract":"<p><p>Mucormycosis is found in co-infection with bacteria in >50% of the cases. Most of these cases were reported among people with haematological diseases. The two most frequent bacteria found were <i>Pseudomonas aeruginosa</i> and <i>Klebsiella pneumoniae</i>. Almost 40% of the identified bacteria were reported as multidrug resistant.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11556431/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633228","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular characteristics of CTX-M β-lactamase-producing and quinolone-resistant Escherichia coli among deer in a popular tourist spot in Japan.","authors":"Shiori Ikushima, Michiyo Sugiyama, Tetsuo Asai","doi":"10.1099/acmi.0.000882.v3","DOIUrl":"https://doi.org/10.1099/acmi.0.000882.v3","url":null,"abstract":"<p><p><b>Introduction.</b> Antimicrobial resistance (AMR) is a growing global concern. Clonal lineages of CTX-M β-lactamase-producing <i>Escherichia coli</i> (CTXE) and quinolone-resistant <i>E. coli</i> (QREC) were disseminated among the deer population in a famous tourist destination (Nara Park; NP) in Japan. <b>Hypothesis/gap statement.</b> The molecular characteristics of CTXE or QREC isolates, which could pose a threat to public health, have not been elucidated. <b>Aim.</b> This study aimed to characterize the genetic traits of CTXE and QREC isolates derived from NP deer and compare them with lineages prevalent worldwide. <b>Methodology.</b> Sixteen CTXE and three QREC isolates recovered from NP deer faeces between 2018 and 2020 were analysed using whole-genome sequencing (WGS). For endemic lineages, phylogenetic trees were constructed against the isolates registered in the EnteroBase database using the core genome SNP scheme. <b>Results.</b> The most prevalent lineage in NP deer was ST3580. Several pandemic lineages, such as sequence type (ST) 38, ST58 and ST117, were included. The QREC lineages prevalent among deer were designated as extra-intestinal pathogenic <i>E. coli</i> or uropathogenic <i>E. coli</i> (UPEC). Thirteen of the 24 antimicrobial resistance genes (ARGs) were considered high-risk ARG families. Chromosomal integration of <i>bla</i> _CTX-M-15 was observed in all plasmid-negative isolates. Phylogenetic analysis suggested relationships between NP isolates and isolates sourced from the environment or poultry. <b>Conclusion.</b> ST3580 has a high potential for clonal dissemination. Furthermore, multiple clinically relevant lineages of CTXE and QREC are endemic in NP deer; however, they could be less virulent than isolates belonging to the same lineages, which could cause severe infectious diseases. Further studies are required to investigate the relationship between chromosomal integration of plasmid-encoded genes and the stable propagation of AMR bacteria in wildlife and the environment.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11556432/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633172","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Diversity of HBV genotypes and their association with precore/basal core mutations among HBsAg-positive patients in Ibadan, Nigeria.","authors":"Adedayo Omotayo Faneye, Babatunde Olanrewaju Motayo, Aisha Mustafa, Georgina Odiabo","doi":"10.1099/acmi.0.000821.v3","DOIUrl":"https://doi.org/10.1099/acmi.0.000821.v3","url":null,"abstract":"<p><p><b>Background.</b> Hepatitis B virus (HBV) is the most implicated cause of severe liver disease and hepatocellular carcinoma worldwide. Studies have shown that the basal core protein (BCP) and precore protein (PC) of HBV play a significant role in HBV-related carcinogenesis. There is a paucity of data on the type and effect of BCP and PC mutations in Nigeria. This study aims to genotype HBV and investigate any mutations within the BCP and PC among HBV patients in Ibadan, Nigeria. <b>Methods.</b> Forty HBV-DNA-positive patients were recruited into this study, and the viral load assay and genotyping by nested multiplex PCR were done. The partial X gene region was amplified and Sanger sequenced. The BPC and PC genomic regions were then analysed using bioinformatics. <b>Results.</b> Twenty-three participants recorded HBV DNA viral load of >20 000 IU, while 17 had <20 000 IU and 28 samples were genotyped. Five genotypes (A, B, C, D and E) and four mixed genotypes (AC, AD ACD and ABCD) were detected. Genotype AC was the most frequently encountered, while genotypes E and B were the least encountered. Mutation was highest in ages 34-45 years. Double mutation A1762T and G1764A within the BCP region was the most encountered mutation. <b>Conclusions.</b> We report a diverse HBV genetic landscape, with mixed infections between genotypes with BCP double-mutation A1762T/G1764A, signalling the likelihood of poor HBV-related liver disease prognosis. Our findings contribute to our understanding of the molecular characteristics of HBV and its potential implications for disease progression and management among HBV-infected Nigerians.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 11","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11542583/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142633151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Salmonella Weltevreden lung abscess and empyema without preceding gastrointestinal symptoms: an emerging pathogen in Australia?","authors":"Victoria Grey, Ernest Tee, Lauren Phillips, Gino Micalizzi, Mark Armstrong","doi":"10.1099/acmi.0.000635.v3","DOIUrl":"10.1099/acmi.0.000635.v3","url":null,"abstract":"<p><p>Non-typhoidal <i>Salmonella</i> lung infections are rare and are usually confined to immunocompromised hosts. Previous case reports have found that usually patients have either gastroenteritis or bacteraemia in addition to pulmonary involvement. We present the first known reported case of a <i>Salmonella</i> Weltevreden lung abscess and empyema in an immunocompetent patient without gastroenteritis. Despite the use of antimicrobials active against the pathogen, the patient needed surgical intervention to achieve adequate source control. While <i>S</i>. Weltevreden has previously been associated with returned travellers, especially from Southeast Asia, its incidence in Queensland is now increasing. Therefore, it is important for clinicians to be aware of its potential severity as well as the range of presentations.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 10","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11524162/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142549947","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Corynebacterium amycolatum peritonitis in a patient undergoing peritoneal dialysis: case report and literature review.","authors":"Fatima Zahra Adil, Imane Aragon, Elmostafa Benaissa, Yassine Ben Lahlou, Fatna Bssaibis, Adil Maleb, Mariama Chadli, Mostafa Elouennass","doi":"10.1099/acmi.0.000880.v3","DOIUrl":"10.1099/acmi.0.000880.v3","url":null,"abstract":"<p><p>Peritoneal dialysis is a blood purification technique used in cases of end-stage chronic kidney failure, based on the filtering capabilities of the peritoneum. Infections, often caused by poor asepsis during catheter manipulation, are generally attributed to <i>Staphylococcus epidermidis</i> and <i>Staphylococcus aureus. Corynebacterium</i>, usually considered non-pathogenic, is rarely involved in these infections. We present a case of peritonitis due to <i>Corynebacterium amycolatum</i> in a patient undergoing peritoneal dialysis. The diagnosis was made based on cytobacteriological examination of the dialysate fluid, which on two occasions showed high levels of white blood cells with a predominance of neutrophilic polymorphonuclear and a monomorphic appearance of colonies on agar medium, whose identification by biochemical tests and antibiotic sensitivity study confirmed the presence of <i>C. amycolatum</i>. The patient was successfully treated with vancomycin, resulting in symptom resolution and sterilization of the dialysate fluid. Although rare, the involvement of <i>Corynebacterium</i> species underscores the importance of confirming its pathogenicity. Further studies are needed to better understand the epidemiology of these infections and guide future treatments. This case also highlights the need for a rigorous approach to confirming the pathogenicity of <i>Corynebacterium</i> despite its traditional classification as a contaminant.</p>","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 10","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11524318/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142549946","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}