Access microbiology最新文献_第10页

Evaluation of an optimal agar medium for detecting hypervirulent Klebsiella pneumoniae using string test. 用串试验评价检测高致病性肺炎克雷伯菌的最佳琼脂培养基。

Access microbiology Pub Date : 2024-09-20 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000834.v3

Naoki Watanabe, Akari Masuda, Tomohisa Watari, Yoshihito Otsuka, Kazufumi Yamagata, Miyuki Fujioka

引用次数: 0

Comparative genome analyses of Staphylococcus aureus from platelet concentrates reveal rearrangements involving loss of type VII secretion genes. 来自血小板浓缩物的金黄色葡萄球菌的比较基因组分析揭示了涉及VII型分泌基因丢失的重排。

Access microbiology Pub Date : 2024-09-13 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000820.v4

Sylvia Ighem Chi, Annika Flint, Kelly Weedmark, Franco Pagotto, Sandra Ramirez-Arcos

{"title":"Comparative genome analyses of Staphylococcus aureus from platelet concentrates reveal rearrangements involving loss of type VII secretion genes.","authors":"Sylvia Ighem Chi, Annika Flint, Kelly Weedmark, Franco Pagotto, Sandra Ramirez-Arcos","doi":"10.1099/acmi.0.000820.v4","DOIUrl":"10.1099/acmi.0.000820.v4","url":null,"abstract":"Staphylococcus aureus has been involved in transfusion-transmitted fatalities associated with platelet concentrates (PCs) due to its heightened pathogenicity enhanced by genome-encoded virulence and antibiotic resistance genes. This may be facilitated by mobile genetic elements (MGEs) that can cause rearrangements. Several factors contribute to S. aureus virulence, including the type VII secretion system (T7SS), composed of six core genes conserved across S. aureus strains. In this study, we conducted comparative genome analyses of five S. aureus isolates from PCs (CI/BAC/25/13 /W, PS/BAC/169/17 /W and PS/BAC/317/16 /W were detected during PCs screening with the BACT/ALERT automated culture system, and ATR-20003 and CBS2016-05 were missed during screening and caused septic transfusion reactions). Multiple alignments of the genomes revealed evidence of rearrangements involving phage Sa3int in PS/BAC/169/17 /W and PS/BAC/317/16 /W. While the former had undergone translocation of its immune evasion cluster (IEC), the latter had lost part of the phage, leaving behind the IEC. This observation highlights S. aureus genome plasticity. Unexpectedly, strain CBS2016-05 was found to encode a pseudo-type VII secretion system (T7SS) that had lost five of the conserved core genes (esxA, esaA, essA, esaB and essB) and contained a 5' truncated essC. Since these genes are essential for the function of the T7SS protein transport machinery, which plays a key role in S. aureus virulence, CBS2016-05 probably compensates by recruiting other export mechanisms and/or alternative virulence factors, such as neu-tralizing immunity proteins. This study unravels genome rearrangements in S. aureus isolated from PCs and reports the first S. aureus isolate lacking conserved T7SS core genes.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11652724/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142857478","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}

引用次数: 0

Aspergillus oesophagitis in a patient with solid tumors: a case report. 一名实体瘤患者的食道曲霉菌炎：病例报告。

Access microbiology Pub Date : 2024-09-13 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000842.v4

Vanessa Abi Rached, Karine Azar, Sarah Gerges, Souheil Hallit, Elie Akoury, Georges Chahine, Rabih Hallit, Bassem Akiki, Rita Rizk

{"title":"Aspergillus oesophagitis in a patient with solid tumors: a case report.","authors":"Vanessa Abi Rached, Karine Azar, Sarah Gerges, Souheil Hallit, Elie Akoury, Georges Chahine, Rabih Hallit, Bassem Akiki, Rita Rizk","doi":"10.1099/acmi.0.000842.v4","DOIUrl":"https://doi.org/10.1099/acmi.0.000842.v4","url":null,"abstract":"Oesophageal aspergillosis is a rare occurrence primarily documented in hematologic malignancies, and only rarely occurring among patients with solid tumours. In this case report, we present the unique case of an 81-year-old Lebanese man who had a remarkable medical history, including four solid tumours. The patient sought medical attention due to dysphagia and weight loss, prompting a gastroscopic examination that revealed a necrotic abscess at the oesophagogastric junction. Initial treatment with fluconazole and esomeprazole was administered, but the recurrence of similar symptoms led to a repeat gastroscopy, unveiling a diagnosis of Aspergillus oesophagitis. Intravenous voriconazole was promptly initiated; however, the patient developed a significant pericardial effusion and expired, with Aspergillus species identified in the pericardial fluid prior to patient expiring. This exceptional case emphasizes the importance of considering oesophageal aspergillosis in cancer patients who present with refractory symptoms such as epigastric pain, dysphagia, nausea, and vomiting, despite symptomatic treatment. Our findings underscore the need for increased awareness and the inclusion of gastrointestinal endoscopy as part of the diagnostic approach for this rare but potentially life-threatening condition.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11397932/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142305495","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}

引用次数: 0

Human metapneumovirus (hMPV): an associated etiology of severe acute respiratory infection in children of Eastern Uttar Pradesh, India. 人类偏肺病毒（hMPV）：印度北方邦东部儿童严重急性呼吸道感染的相关病因。

Access microbiology Pub Date : 2024-09-12 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000829.v4

Hirawati Deval, Niraj Kumar, Mitali Srivastava, Varsha Potdar, Anita Mehta, Ayushi Verma, Rajeev Singh, Asif Kavathekar, Rajni Kant, Manoj Murhekar

{"title":"Human metapneumovirus (hMPV): an associated etiology of severe acute respiratory infection in children of Eastern Uttar Pradesh, India.","authors":"Hirawati Deval, Niraj Kumar, Mitali Srivastava, Varsha Potdar, Anita Mehta, Ayushi Verma, Rajeev Singh, Asif Kavathekar, Rajni Kant, Manoj Murhekar","doi":"10.1099/acmi.0.000829.v4","DOIUrl":"https://doi.org/10.1099/acmi.0.000829.v4","url":null,"abstract":"Acute respiratory infections (ARIs) are a serious public health concern across the world, causing considerable morbidity and mortality. Every year, around 13 million children under the age of five die. Approximately 95% of them are from developing nations, and ARIs are responsible for one-third of all deaths. Human Metapneumovirus (hMPV) is one of the causative agents associated with respiratory tract infections. There is lack of information about hMPV from the eastern region of Uttar Pradesh. At Indian Council of Medical Research- Regional Medical Research Centre, Gorakhpur (ICMR-RMRC, Gorakhpur) in Uttar Pradesh, India; we tested respiratory pathogens in under-five patients presenting with ARI and severe acute respiratory illness (SARI) through semi nested PCR. A total of 100 nasal and throat specimens were collected from the outdoor and indoor patient Departments (OPD) and (IPD) of Department of Paediatrics, BRD Medical College, Gorakhpur during February to April 2022. Out of 100 enrolled paediatric patients, 4(4%) were found to be hMPV positive. Among the patients who tested positive for hMPV, 25%(1/4) unfortunately died. The phylogenetic analysis of hMPV showed the close resemblance with the clade of Singapore and USA hMPV isolates. The study underlines the importance of hMPV as the cause of acute respiratory infections in children and the highlight the need for routine testing for this virus in laboratories. Further more comprehensive detailed study on various aspects of hMPV in this area is needed.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11391948/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142305496","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}

引用次数: 0

Modelling SARS-CoV-2 infection in a human alveolus microphysiological system. 模拟人肺泡微生理系统中的SARS-CoV-2感染。

Access microbiology Pub Date : 2024-09-11 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000814.v3

Tanja Šuligoj, Naomi S Coombes, Catherine Booth, George M Savva, Kevin R Bewley, Simon G P Funnell, Nathalie Juge

{"title":"Modelling SARS-CoV-2 infection in a human alveolus microphysiological system.","authors":"Tanja Šuligoj, Naomi S Coombes, Catherine Booth, George M Savva, Kevin R Bewley, Simon G P Funnell, Nathalie Juge","doi":"10.1099/acmi.0.000814.v3","DOIUrl":"10.1099/acmi.0.000814.v3","url":null,"abstract":"The coronavirus 2019 pandemic has highlighted the importance of physiologically relevant in vitro models to assist preclinical research. Here, we describe the adaptation of a human alveolus microphysiological system (MPS) model consisting of primary human alveolar epithelial and lung microvascular endothelial cells to study infection with SARS-CoV-2 at Biosafety Level 3 facility. This infection model recapitulates breathing-like stretch and culture of epithelial cells at the air-liquid interface and resulted in clinically relevant cytopathic effects including cell rounding of alveolar type 2 cells and disruption of the tight junction protein occludin. Viral replication was confirmed by immunocytochemical nucleocapsid staining in the epithelium and increased shedding of SARS-CoV-2 virus within 2 days post-infection, associated with changes in innate host immune responses. Together, these data demonstrate that, under the experimental conditions used in this work, this human alveolus MPS chip can successfully model SARS-CoV-2 infection of human alveolar lung cells.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11652720/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142857483","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}

引用次数: 0

How to set up and run a Bad Bugs Bookclub group. 如何建立和运营坏虫书友会小组。

Access microbiology Pub Date : 2024-09-06 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000846.v3

Joanna Verran

引用次数: 0

Esophageal actinobacillosis mimicking a diverticulum in a cow: a case report. 模仿憩室的奶牛食道放线杆菌病：病例报告。

Access microbiology Pub Date : 2024-09-06 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000819.v4

Rahul Kumar, Gulshan Kumar, R P Pandey

引用次数: 0

Genomic epidemiology of mecC-carrying Staphylococcus aureus isolates from human clinical cases in New Zealand. 从新西兰人类临床病例中分离出的携带 mecC 的金黄色葡萄球菌的基因组流行病学。

Access microbiology Pub Date : 2024-09-05 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000849.v2

Hilary Miller, Julia Howard, Juliet Elvy, Patrick Campbell, Trevor Anderson, Sarah Bakker, Alexandra Eustace, Hermes Perez, David Winter, Kristin Dyet

{"title":"Genomic epidemiology of mecC-carrying Staphylococcus aureus isolates from human clinical cases in New Zealand.","authors":"Hilary Miller, Julia Howard, Juliet Elvy, Patrick Campbell, Trevor Anderson, Sarah Bakker, Alexandra Eustace, Hermes Perez, David Winter, Kristin Dyet","doi":"10.1099/acmi.0.000849.v2","DOIUrl":"10.1099/acmi.0.000849.v2","url":null,"abstract":"In 2011, a novel methicillin resistance gene, mecC, was described in human and bovine Staphylococcus aureus isolates. mecC-positive S. aureus is most commonly associated with livestock and wildlife populations across Europe and is particularly prevalent in hedgehogs, but only occasionally causes human infections. In this study, we characterize and investigate the origin of two human S. aureus isolates containing mecC genes from New Zealand. The two isolates were identified from patients with severe invasion infections as part of an S. aureus bacteraemia study. Whole-genome sequencing was used to characterize staphylococcal cassette chromosome mec (SCCmec) elements and perform phylogenetic comparisons with publicly available strains from mecC-associated clonal complexes, including isolates from hedgehogs from New Zealand and Europe/United Kingdom (UK), and livestock, wildlife and human isolates from Europe/UK. The two isolates from our study have almost identical SCCmec type XI elements containing a mecC gene. However, this gene contains a premature stop codon, consistent with the methicillin-susceptible phenotype observed for these isolates. Core genome SNP analyses showed that the two isolates are 234 SNPs apart and are most closely related to an isolate obtained from a New Zealand hedgehog. However, there are considerable differences in the mecC mobile element between the human and hedgehog isolates, indicating the presence of an as-yet-unknown reservoir of mecC S. aureus in the New Zealand environment.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11376224/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142142283","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}

引用次数: 0

A case of pleural Mycobacterium tuberculosis infection with reversion of Quantiferon Gold Plus results from positive to negative. 一例胸膜结核分枝杆菌感染病例，Quantiferon Gold Plus 结果由阳性转为阴性。

Access microbiology Pub Date : 2024-09-05 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000737.v3

N Goire, M S Suchard, A Barling, R Fernando, L Dreyer, A A Mahony

{"title":"A case of pleural Mycobacterium tuberculosis infection with reversion of Quantiferon Gold Plus results from positive to negative.","authors":"N Goire, M S Suchard, A Barling, R Fernando, L Dreyer, A A Mahony","doi":"10.1099/acmi.0.000737.v3","DOIUrl":"10.1099/acmi.0.000737.v3","url":null,"abstract":"Introduction. Mycobacterium tuberculosis (MTB) infections continue to have a high mortality and morbidity burden globally. Interferon-gamma release assays such as Quantiferon Gold Plus (QFG-Plus) aid in diagnosis of latent TB but diagnosis of pleural TB remains challenging. We present a case of active pleural MTB infection with reversion from positive to negative of IGRA result as well as negative Xpert MTB/RIF Ultra PCR result from tissues obtained from pleural biopsy. Case summary. A 52-year-old otherwise healthy male presented in August 2022 with a 2 week history of pleuritic chest pain associated with modest elevation in inflammatory markers. The patient had had a positive QFG-Plus result in 2018, however QFG-Plus during this admission was negative. Computed-tomography pulmonary angiogram and needle thoracocentesis showed an exudative left pleural effusion with predominant lymphocytes. The patient's symptoms failed to resolve with empiric antimicrobial therapy for community-acquired pneumonia. Broncho-alveolar lavage as well as biopsies of pleural tissues via video-assisted thoracoscopic surgery from the left lower lobe yielded negative results on routine microbiological culture as well as Xpert Ultra PCR. Growth of acid-fast bacilli was noted from mycobacterial cultures of pleural tissues which was identified as MTB. Conclusion. Despite significant technological advances, microbiological diagnosis of MTB infections remains challenging. We document QFG-Plus reversion during development from latent to active pleural TB. Decline in the ability of CD4+ and CD8+ T cells to produce interferon gamma in response to TB antigens (ESAT-6 and CFP-10) was likely associated with loss of host control of latent MTB. This case serves as a reminder that despite exhaustive testing with state-of-art diagnostic platforms, MTB infections can still elude discovery.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11376222/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142142282","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}

引用次数: 0

Genomic insights into indole-3-acetic acid catabolism in the marine algae-associated bacterium, Marinomonas sp. NFXS50. 海洋藻类相关细菌马林单胞菌 NFXS50 的吲哚-3-乙酸分解代谢基因组学研究。

Access microbiology Pub Date : 2024-09-04 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000856.v3

Constança Bertrand, Rodrigo Martins, Francisco Nunes, Pedro Brandão, Francisco X Nascimento

{"title":"Genomic insights into indole-3-acetic acid catabolism in the marine algae-associated bacterium, Marinomonas sp. NFXS50.","authors":"Constança Bertrand, Rodrigo Martins, Francisco Nunes, Pedro Brandão, Francisco X Nascimento","doi":"10.1099/acmi.0.000856.v3","DOIUrl":"10.1099/acmi.0.000856.v3","url":null,"abstract":"Auxins, mainly in the form of indole-3-acetic acid (IAA), regulate several aspects of plant and algal growth and development. Consequently, plant and algae-associated bacteria developed the ability to modulate IAA levels, including IAA catabolism. In this work, we present and analyse the genome sequence of the IAA-degrading and marine algae-associated bacterium, Marinomonas sp. NFXS50, analyse its IAA catabolism gene cluster and study the prevalence of IAA catabolism genes in other Marinomonas genomes. Our findings revealed the presence of homologs of the Pseudomonas iac gene cluster, implicated in IAA catabolism, in the genome of strain NFXS50; however, differences were observed in the content and organization of the Marinomonas iac gene cluster when compared to that of the model iac-containing Pseudomonas putida 1290. These variations suggest potential adaptations in the IAA catabolism pathway, possibly influenced by substrate availability and evolutionary factors. The prevalence of iac genes across several Marinomonas species underscores the significance of IAA catabolism in marine environments, potentially influencing plant/algae-bacteria interactions. This study provides novel insights into the IAA catabolism in Marinomonas, laying the groundwork for future investigations into the role of iac genes in Marinomonas physiology and the regulation of marine plant/algae-bacteria interactions.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"6 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11373566/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142142284","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}

引用次数: 0