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Systematic Review: Accuracy of Diagnostic Methods for Clostridioides difficile Infection. 系统评价:艰难梭菌感染诊断方法的准确性。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-13 DOI: 10.1016/j.anaerobe.2026.103038
Bianca Caroline Salvador, Diego Lima Gomes, Ariane Gonçalves Silva de Araujo, Ana Carolina Cardoso Gomes Marcelino, Carolina Rempel, Renata Szpak, Talita Antunes Antoniolli Pontes, Fernanda Stumpf Tonin, Keite da Silva Nogueira, Astrid Wiens

Objectives: To analyze the accuracy of diagnostic methodologies for Clostridioides difficile infection (CDI).

Methods: Systematic review was conducted in Medline, Embase, and Lilacs (July 2024). Studies with patients suspected of CDI using any diagnostic method (TC [toxigenic culture], LA [latex agglutination], CCNA [cell cytotoxicity neutralization assay], EIA [enzyme immunoassay], or NAAT [nucleic acid amplification test]) were included. Studies qualities were assessed using QUADAS-2 and QUADAS-C (Quality Assessment of Diagnostic Accuracy Studies - 2 and Comparative Accuracy), and evidence quality using GRADE (Grading of Recommendations Assessment, Development and Evaluation). Meta-analysis (MA) was performed considering central value and 95% confidence interval. This study was registered in PROSPERO (CRD42021234898) and supported by CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brasil).

Results: 170 studies were included, 79 entered the MA, covering at least 98,786 stool samples. Studies evaluated several methodologies, such as TC; EIA for GDH (glutamate dehydrogenase), GDH and toxin A, GDH and toxin AB, EIA for toxin A or toxin AB; molecular tests like NAAT for toxin A, toxin AB, toxin B and ribotype 027, toxin B/Bi and ribotype 027, toxin A/B/Bi and ribotype 027, toxin B and LA. TC was the most commonly used reference test (93.5%). MA showed variability among methods. Molecular biology methodologies were favored for identifying toxins A and B, with significant accuracy. EIA for GDH was an effective screening method (sensitivity: 91.599% [89.149 - 94.049]).

Conclusion: CDI detection presents challenges without defined gold standard. EIA and NAAT revolutionized diagnostics, offering high accuracy, and faster diagnosis.

目的:分析艰难梭菌感染(CDI)诊断方法的准确性。方法:对Medline、Embase、Lilacs期刊(2024年7月)进行系统评价。采用任何诊断方法(TC[产毒培养]、LA[乳胶凝集]、CCNA[细胞毒性中和试验]、EIA[酶免疫试验]或NAAT[核酸扩增试验])对疑似CDI患者进行研究。使用QUADAS-2和QUADAS-C(诊断准确性研究质量评估-2和比较准确性)评估研究质量,使用GRADE(建议评估、发展和评估分级)评估证据质量。考虑中心值和95%置信区间进行meta分析(MA)。本研究已在PROSPERO注册(CRD42021234898),并得到CAPES(巴西Superior - Brasil)的支持。结果:纳入170项研究,79项进入MA,涵盖至少98,786份粪便样本。研究评估了几种方法,如TC;GDH(谷氨酸脱氢酶)EIA、GDH与毒素A、GDH与毒素AB、毒素A或毒素AB EIA;毒素A、毒素AB、毒素B和核型027、毒素B/Bi和核型027、毒素A/B/Bi和核型027、毒素B和LA等分子检测。TC是最常用的参考检查(93.5%)。MA显示不同方法之间存在差异。分子生物学方法被用于识别毒素A和B,具有显著的准确性。EIA是一种有效的筛选GDH的方法(灵敏度为91.599%[89.149 ~ 94.049])。结论:CDI的检测缺乏明确的金标准。EIA和NAAT彻底改变了诊断方法,提供了更高的准确性和更快的诊断。
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引用次数: 0
Impact of saliva on the efficacy of antiseptics against selected periopathogens. 唾液对防腐剂对选定的周围病原菌功效的影响。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-06 DOI: 10.1016/j.anaerobe.2026.103036
Marzena Korbecka-Paczkowska, Tomasz M Karpiński

Objective: Oral anaerobic bacteria are key contributors to infectious diseases, including endodontic-, periodontal-, peri-implant infections, and oral abscesses. The management of these conditions frequently involves the use of antiseptics. However, the influence of saliva on the antimicrobial efficacy of antiseptics remains insufficiently elucidated. This study assessed the activity of boric acid (BA), chlorhexidine (CHX), ethacridine lactate (ET), hydrogen peroxide (H2O2), octenidine (OCT), polyhexanide (PHMB), potassium permanganate (KMnO4), and povidone-iodine (PVI), against three representative anaerobes: Fusobacterium nucleatum, Porphyromonas gingivalis, Prevotella intermedia, and facultative anaerobe Schaalia odontolytica, in the presence of Schaedler medium or human saliva.

Methods: The minimal inhibitory concentrations (MICs) of antiseptics were determined using the broth microdilution technique. Assays were performed in both Schaedler medium and unstimulated human saliva to compare the antimicrobial effect.

Results: OCT, CHX, PHMB, PVI and H2O2 demonstrated strong antimicrobial effects against tested periopathogens, regardless of the medium used. ET and BA showed moderate inhibitory effects, whereas KMnO4 had weak activity under the experimental conditions. The antiseptics antimicrobial potency was not substantially diminished by the presence of saliva.

Conclusion: OCT, CHX, PHMB, PVI and H2O2 retain their antimicrobial efficacy in the salivary environment, underscoring their potential for use in oral hygiene and the management of anaerobic oral infections. Saliva had minimal impact on the antimicrobial efficacy of the antiseptics, with only a slight non-significant reduction for OCT, CHX and PHMB.

目的:口腔厌氧菌是导致牙髓、牙周、种植体周围感染和口腔脓肿等传染病的主要原因。这些情况的处理通常涉及使用防腐剂。然而,唾液对防腐剂抑菌效果的影响尚不清楚。本研究评估了硼酸(BA)、氯己定(CHX)、乳酸乙二吖啶(ET)、过氧化氢(H2O2)、辛嘌呤(OCT)、聚己酸(PHMB)、高锰酸钾(KMnO4)和聚维酮碘(PVI)在Schaedler培养基或人类唾液存在下对三种典型厌氧菌的活性:核梭杆菌、牙龈卟啉单胞菌、中间普雷沃氏菌和兼性厌氧菌溶牙沙利亚菌。方法:采用肉汤微量稀释法测定防腐剂的最低抑菌浓度(mic)。在Schaedler培养基和未受刺激的人唾液中进行测定,比较其抗菌效果。结果:无论使用何种培养基,OCT、CHX、PHMB、PVI和H2O2均表现出较强的抗菌作用。ET和BA表现出中等抑制作用,而KMnO4在实验条件下表现出较弱的抑制作用。防腐剂的抗菌效力并没有因为唾液的存在而大大降低。结论:OCT、CHX、PHMB、PVI和H2O2在唾液环境中保持抗菌作用,在口腔卫生和口腔厌氧感染的治疗中具有潜在的应用价值。唾液对抗菌药物的抗菌效果影响最小,仅对OCT、CHX和PHMB有轻微的非显著性降低。
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引用次数: 0
Botulinum neurotoxins: A distinct subclass of SNARE-Cleaving endopeptidases 肉毒杆菌神经毒素:一种独特的破网内肽酶亚类。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-02-28 DOI: 10.1016/j.anaerobe.2026.103035
Sabine Pellett
Botulinum neurotoxins (BoNTs) are bacterial protein toxins that cause the severe and potentially fatal neuro-paralytic disease botulism in humans and vertebrate animals. Together with tetanus toxin (TeNT), BoNTs comprise the large family of clostridial neurotoxins (CNTs). Structurally, CNTs share conserved features: a 50 kDa zinc-dependent light chain endopeptidase with an HExxH motif linked via a disulfide bond to a 100 kDa heavy chain with distinct domains for translocation and receptor binding that mediate neuronal specificity. During the last decade, genomic analyses have uncovered bont-like genes in non-clostridial species including as Weissella oryzae, Enterococcus faecium, Paeniclostridium ghonii, Chryseobacterium piperi, Paraclostridium bifermentans, and Bacillus toyonensis. The BoNT-like proteins encoded by these genes retain SNARE-cleaving activity and share structural motifs with BoNTs, yet studies during the last decade have shown they exhibit minimal toxicity in vertebrate systems and form phylogenetically distinct clades, suggesting alternative ecological roles. Growing evidence suggests insects as the target of BoNT-like proteins. The expanding repertoire of BoNT-like proteins with conserved architecture and enzymatic function supports the classification of BoNTs as a distinct sub-family within a broader super-family of SNARE-cleaving endopeptidases. We propose the designation SNACLEs (SNARE-Cleaving-Endopeptidases) for this protein super-family, with CNTs and BoNT-like proteins as a distinct families.
肉毒杆菌神经毒素(BoNTs)是一种细菌蛋白毒素,可引起人类和脊椎动物严重和潜在致命的神经麻痹性疾病肉毒杆菌中毒。与破伤风毒素(TeNT)一起,bont构成了梭状菌神经毒素(CNTs)的大家族。在结构上,CNTs具有保守的特征:一个50 kDa的锌依赖性轻链内肽酶,其HExxH基序通过二硫键连接到一个100 kDa的重链,该重链具有不同的易位和受体结合结构域,介导神经元特异性。在过去的十年中,基因组分析已经在非梭状芽孢杆菌物种中发现了类似骨的基因,包括米芽孢杆菌、屎肠球菌、古氏芽孢杆菌、红绿杆菌、双歧旁梭状芽孢杆菌和toyonensis。由这些基因编码的bont样蛋白保留了snare - cle裂解活性,并与bont共享结构基序,但过去十年的研究表明,它们在脊椎动物系统中表现出最小的毒性,并形成了系统发育上不同的进化支,这表明它们具有不同的生态作用。越来越多的证据表明昆虫是bont样蛋白质的目标。具有保守结构和酶功能的bont样蛋白的扩展库支持将bont分类为更广泛的snare切割内肽酶超家族中的一个独特亚家族。我们建议将该蛋白超家族命名为SNACLEs (snare -卵裂-内多肽酶),并将CNTs和bont样蛋白作为不同的家族。
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引用次数: 0
Genome-based reclassification of the genus Thermoanaerobacter: taxonomic emendations and new combinations 热厌氧菌属的基因组重分类:分类修正和新组合。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-01-23 DOI: 10.1016/j.anaerobe.2026.103027
Noureddine Bouras , Guendouz Dif , Saïd Belghit , Scott V. Nguyen , Jonathan L. Jacobs , Omrane Toumatia , Sherif S. Ebada , Imen Nouioui

Objective

The genus Thermoanaerobacter is comprised of strictly anaerobic, thermophilic, rod-shaped bacteria predominantly isolated from geothermal environments. Due to phylogenetic and taxonomic overlaps among certain species, this study aims to clarify the taxonomic status of key Thermoanaerobacter members through genome-based analyses.

Methods

We conducted a comprehensive taxonomic re-evaluation using multiple genomic metrics, including digital DNA-DNA hybridization (dDDH), average nucleotide identity (ANI via FastANI), average amino acid identity (AAI), and percentage of conserved proteins (POCP). These analyses were supported by 16S rRNA gene sequencing and genome-based phylogenomic reconstruction.

Results

Genome-based metrics and phylogenomic analyses revealed several taxonomic inconsistencies within the genus. As a result, Thermoanaerobacter thermohydrosulfuricus is redefined to include Thermoanaerobacter ethanolicus subsp. thermohydrosulfuricus, Thermoanaerobacter ethanolicus subsp. siderophilus, Thermoanaerobacter ethanolicus subsp. ethanolicus and Thermoanaerobacter ethanolicus subsp. indiensis under Thermoanaerobacter thermohydrosulfuricus subsp. thermohydrosulfuricus subsp. nov., while Thermoanaerobacter wiegelii is assigned to Thermoanaerobacter thermohydrosulfuricus subsp. wiegelii subsp. nov., comb. nov. Thermoanaerobacter pseudethanolicus, Thermoanaerobacter brockii subsp. finnii, and Thermoanaerobacter brockii subsp. lactiethylicus DSM 9801T were reclassified as Thermoanaerobacter brockii. Additionally, Thermoanaerobacter mathranii, Thermoanaerobacter italicus, and Thermoanaerobacter pentosaceus are reclassified as Thermoanaerobacter thermocopriae.

Conclusions

This study supports a taxonomic rearrangement within Thermoanaerobacter, refining species boundaries based on robust genomic evidence. The proposed changes enhance the taxonomic resolution and phylogenetic consistency of thermophilic anaerobic bacteria within this genus.
目的:热厌氧菌属由严格厌氧,嗜热,杆状细菌主要从地热环境中分离。由于某些物种之间存在系统发育和分类上的重叠,本研究旨在通过基因组分析来阐明热厌氧菌关键成员的分类地位。方法:采用多种基因组指标,包括数字DNA-DNA杂交(dDDH)、平均核苷酸同源性(ANI通过FastANI)、平均氨基酸同源性(AAI)和保守蛋白百分比(POCP),对其进行了全面的分类重新评估。这些分析得到了16S rRNA基因测序和基于基因组的系统基因组重建的支持。结果:基因组计量学和系统基因组学分析揭示了该属的几种分类不一致之处。因此,热厌氧菌热氢硫化菌被重新定义为热厌氧菌乙醇亚菌。热氢硫化菌;热厌氧菌;嗜铁菌,嗜热厌氧菌乙醇亚种。乙醇菌和热厌氧菌乙醇亚菌。热厌氧菌thermohydrosulphicus subsp下的印度菌。thermohydrosulfuricus无性系种群。11月11日,韦氏热厌氧菌被分配到热氢硫化热厌氧菌亚群。wiegelii无性系种群。11月,梳子。11 .伪乙醇热厌氧菌;和热厌氧菌西兰花亚种。将lactiethylicus DSM 9801T重新归类为热厌氧菌种。另外,将mathranii热厌氧菌、italicus热厌氧菌和pentosaceus热厌氧菌重新分类为thermo厌氧菌thermocopriae。结论:该研究支持热厌氧菌的分类重排,基于强大的基因组证据完善物种边界。提出的变化提高了该属内嗜热厌氧细菌的分类分辨率和系统发育一致性。
{"title":"Genome-based reclassification of the genus Thermoanaerobacter: taxonomic emendations and new combinations","authors":"Noureddine Bouras ,&nbsp;Guendouz Dif ,&nbsp;Saïd Belghit ,&nbsp;Scott V. Nguyen ,&nbsp;Jonathan L. Jacobs ,&nbsp;Omrane Toumatia ,&nbsp;Sherif S. Ebada ,&nbsp;Imen Nouioui","doi":"10.1016/j.anaerobe.2026.103027","DOIUrl":"10.1016/j.anaerobe.2026.103027","url":null,"abstract":"<div><h3>Objective</h3><div>The genus <em>Thermoanaerobacter</em> is comprised of strictly anaerobic, thermophilic, rod-shaped bacteria predominantly isolated from geothermal environments. Due to phylogenetic and taxonomic overlaps among certain species, this study aims to clarify the taxonomic status of key <em>Thermoanaerobacter</em> members through genome-based analyses.</div></div><div><h3>Methods</h3><div>We conducted a comprehensive taxonomic re-evaluation using multiple genomic metrics, including digital DNA-DNA hybridization (dDDH), average nucleotide identity (ANI via FastANI), average amino acid identity (AAI), and percentage of conserved proteins (POCP). These analyses were supported by 16S rRNA gene sequencing and genome-based phylogenomic reconstruction.</div></div><div><h3>Results</h3><div>Genome-based metrics and phylogenomic analyses revealed several taxonomic inconsistencies within the genus. As a result, <em>Thermoanaerobacter thermohydrosulfuricus</em> is redefined to include <em>Thermoanaerobacter ethanolicus</em> subsp. <em>thermohydrosulfuricus</em>, <em>Thermoanaerobacter ethanolicus</em> subsp. <em>siderophilus</em>, <em>Thermoanaerobacter ethanolicus</em> subsp. <em>ethanolicus</em> and <em>Thermoanaerobacter ethanolicus</em> subsp. <em>indiensis</em> under <em>Thermoanaerobacter thermohydrosulfuricus</em> subsp. <em>thermohydrosulfuricus</em> subsp. nov., while <em>Thermoanaerobacter wiegelii</em> is assigned to <em>Thermoanaerobacter thermohydrosulfuricus</em> subsp. <em>wiegelii</em> subsp. nov., comb. nov. <em>Thermoanaerobacter pseudethanolicus</em>, <em>Thermoanaerobacter brockii</em> subsp. <em>finnii</em>, and <em>Thermoanaerobacter brockii</em> subsp. <em>lactiethylicus</em> DSM 9801<sup>T</sup> were reclassified as <em>Thermoanaerobacter brockii</em>. Additionally, <em>Thermoanaerobacter mathranii</em>, <em>Thermoanaerobacter italicus</em>, and <em>Thermoanaerobacter pentosaceus</em> are reclassified as <em>Thermoanaerobacter thermocopriae</em>.</div></div><div><h3>Conclusions</h3><div>This study supports a taxonomic rearrangement within <em>Thermoanaerobacter</em>, refining species boundaries based on robust genomic evidence. The proposed changes enhance the taxonomic resolution and phylogenetic consistency of thermophilic anaerobic bacteria within this genus.</div></div>","PeriodicalId":8050,"journal":{"name":"Anaerobe","volume":"97 ","pages":"Article 103027"},"PeriodicalIF":2.6,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146045954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Beta-lactamases in anaerobic, intestinal bacteria: a narrative review 厌氧肠道细菌中的β -内酰胺酶:叙述性回顾。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-01-30 DOI: 10.1016/j.anaerobe.2026.103024
Marion Dutkiewicz , József Sóki , Etienne Ruppé
Anaerobic bacteria in the human intestinal microbiota play a pivotal role in antibiotic resistance, primarily through the production of β-lactamases. This narrative review explores the diversity of β-lactamases found in intestinal anaerobes, their functional characteristics, and clinical implications. Species of the genus Bacteroides are major producers, harboring enzymes from Ambler classes A (e.g. CepA, CfxA and CblA), B (e.g. CfiA and CcrA) and D (e.g. OXA-347), with activity ranging from cephalosporinases to carbapenemases and oxacillinases. Other gut members, including Clostridioides difficile, Fusobacterium nucleatum, and Acidaminococcus fermentans, also encode specific β-lactamases. These enzymes contribute to microbiota resilience following β-lactam exposure and can protect neighboring bacteria via extracellular degradation. This protective mechanism has inspired therapeutic applications, such as recombinant β-lactamases (ribaxamase, SYN-006) designed to preserve gut integrity during antibiotic therapy. Understanding these intrinsic resistance mechanisms is essential for optimizing antibiotic stewardship and mitigating the spread of resistance genes.
人类肠道微生物群中的厌氧菌在抗生素耐药性中起着关键作用,主要是通过产生β-内酰胺酶。本文综述了肠道厌氧菌中发现的β-内酰胺酶的多样性、它们的功能特征和临床意义。拟杆菌属的种类是主要的生产者,含有Ambler类A(例如CepA, CfxA和CblA), B(例如CfiA和CcrA)和D(例如OXA-347)的酶,其活性范围从头孢菌素酶到碳青霉烯酶和oxacillinases。其他肠道成员,包括艰难梭菌、核梭菌和发酵酸胺球菌,也编码特异性β-内酰胺酶。这些酶有助于微生物群在β-内酰胺暴露后的恢复能力,并可以通过细胞外降解保护邻近的细菌。这种保护机制激发了治疗应用,如重组β-内酰胺酶(利巴沙酶,SYN-006)被设计用于在抗生素治疗期间保持肠道完整性。了解这些内在的耐药机制对于优化抗生素管理和减轻耐药基因的传播至关重要。
{"title":"Beta-lactamases in anaerobic, intestinal bacteria: a narrative review","authors":"Marion Dutkiewicz ,&nbsp;József Sóki ,&nbsp;Etienne Ruppé","doi":"10.1016/j.anaerobe.2026.103024","DOIUrl":"10.1016/j.anaerobe.2026.103024","url":null,"abstract":"<div><div>Anaerobic bacteria in the human intestinal microbiota play a pivotal role in antibiotic resistance, primarily through the production of β-lactamases. This narrative review explores the diversity of β-lactamases found in intestinal anaerobes, their functional characteristics, and clinical implications. Species of the genus <em>Bacteroides</em> are major producers, harboring enzymes from Ambler classes A (e.g. CepA, CfxA and CblA), B (e.g. CfiA and CcrA) and D (e.g. OXA-347), with activity ranging from cephalosporinases to carbapenemases and oxacillinases. Other gut members, including <em>Clostridioides difficile</em>, <em>Fusobacterium nucleatum</em>, and <em>Acidaminococcus fermentans</em>, also encode specific β-lactamases. These enzymes contribute to microbiota resilience following β-lactam exposure and can protect neighboring bacteria via extracellular degradation. This protective mechanism has inspired therapeutic applications, such as recombinant β-lactamases (ribaxamase, SYN-006) designed to preserve gut integrity during antibiotic therapy. Understanding these intrinsic resistance mechanisms is essential for optimizing antibiotic stewardship and mitigating the spread of resistance genes.</div></div>","PeriodicalId":8050,"journal":{"name":"Anaerobe","volume":"97 ","pages":"Article 103024"},"PeriodicalIF":2.6,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146099575","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Clostridioides difficile infection in patients with COVID-19 pneumonia - Analysis of occurrence and genetic distribution from three intensive care units COVID-19肺炎患者难辨梭菌感染——3个重症监护室病例发生及遗传分布分析
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-01-23 DOI: 10.1016/j.anaerobe.2026.103026
Fredrik Hammarskjöld , Knut Taxbro , Catarina Alkemark , Anneli Hammarskjöld , Cecilia Magnusson , Sara Mernelius

Background

The Coronavirus Disease 2019 (COVID-19) pandemic challenged several of the well-known routines to prevent Clostridioides difficile infection (CDI) in intensive care units (ICUs). There are limited data evaluating CDI in ICU patients with COVID-19 pneumonia and acute respiratory distress syndrome. The objective of this study was to determine the occurrence of CDI and possible transmission of C. difficile within three ICUs in patients with COVID-19 pneumonia.

Methods

A retrospective analysis was conducted on all patients with confirmed COVID-19 pneumonia treated in the ICU between March 14, 2020 and July 31, 2021. All patients were assessed for the presence of diarrhoea, as well as for positive C. difficile antigen analysis. C. difficile isolates underwent high molecular weight (HMW) typing and whole genome sequencing (WGS) for the assessment of transmission.

Results

A total of 343 patients were treated in the ICUs during the study period. Diarrhoea was observed in 219 (63.8 %) patients, and 8 patients (2.3 %) were diagnosed with CDI. No evidence of transmission between patients was seen.

Conclusion

This study reveals a low occurrence of CDI in ICU patients with COVID-19 pneumonia. WGS was superior to HMW-typing in evaluating potential transmission.
背景:2019冠状病毒病(COVID-19)大流行挑战了重症监护病房(icu)预防艰难梭菌感染(CDI)的几个众所周知的常规。评估COVID-19肺炎合并急性呼吸窘迫综合征ICU患者CDI的资料有限。本研究的目的是确定COVID-19肺炎患者在3个icu内CDI的发生和艰难梭菌的可能传播。方法:回顾性分析2020年3月14日至2021年7月31日ICU收治的所有确诊COVID-19肺炎患者。评估所有患者是否存在腹泻,以及艰难梭菌抗原分析是否呈阳性。艰难梭菌分离株采用高分子量(HMW)分型和全基因组测序(WGS)进行传播评估。结果:研究期间共有343例患者在icu接受治疗。219例(63.8%)患者出现腹泻,8例(2.3%)诊断为CDI。没有发现患者之间传播的证据。结论:本研究显示COVID-19肺炎ICU患者CDI发生率较低。在评价潜在传播方面,WGS分型优于hmw分型。
{"title":"Clostridioides difficile infection in patients with COVID-19 pneumonia - Analysis of occurrence and genetic distribution from three intensive care units","authors":"Fredrik Hammarskjöld ,&nbsp;Knut Taxbro ,&nbsp;Catarina Alkemark ,&nbsp;Anneli Hammarskjöld ,&nbsp;Cecilia Magnusson ,&nbsp;Sara Mernelius","doi":"10.1016/j.anaerobe.2026.103026","DOIUrl":"10.1016/j.anaerobe.2026.103026","url":null,"abstract":"<div><h3>Background</h3><div>The Coronavirus Disease 2019 (COVID-19) pandemic challenged several of the well-known routines to prevent <em>Clostridioides difficile</em> infection (CDI) in intensive care units (ICUs). There are limited data evaluating CDI in ICU patients with COVID-19 pneumonia and acute respiratory distress syndrome. The objective of this study was to determine the occurrence of CDI and possible transmission of <em>C. difficile</em> within three ICUs in patients with COVID-19 pneumonia.</div></div><div><h3>Methods</h3><div>A retrospective analysis was conducted on all patients with confirmed COVID-19 pneumonia treated in the ICU between March 14, 2020 and July 31, 2021. All patients were assessed for the presence of diarrhoea, as well as for positive <em>C. difficile</em> antigen analysis. <em>C. difficile</em> isolates underwent high molecular weight (HMW) typing and whole genome sequencing (WGS) for the assessment of transmission.</div></div><div><h3>Results</h3><div>A total of 343 patients were treated in the ICUs during the study period. Diarrhoea was observed in 219 (63.8 %) patients, and 8 patients (2.3 %) were diagnosed with CDI. No evidence of transmission between patients was seen.</div></div><div><h3>Conclusion</h3><div>This study reveals a low occurrence of CDI in ICU patients with COVID-19 pneumonia. WGS was superior to HMW-typing in evaluating potential transmission.</div></div>","PeriodicalId":8050,"journal":{"name":"Anaerobe","volume":"97 ","pages":"Article 103026"},"PeriodicalIF":2.6,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146045848","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Heat-inactivated Akkermansia muciniphila AKK-PROBIO ameliorates cyclophosphamide-induced immunosuppression via the NF-κB/MAPK pathway and gut microbiota modulation 热灭活的嗜粘Akkermansia muciniphila AKK-PROBIO通过NF-κB/MAPK途径和肠道菌群调节改善环磷酰胺诱导的免疫抑制
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2025-11-24 DOI: 10.1016/j.anaerobe.2025.103016
Linglan Suo , Rao Li , Menghe Chen , Xin Ma , Dayong Ren , Ji Wang

Background

Immune dysfunction underlies numerous diseases. While Akkermansia muciniphila exhibits immunomodulatory potential, the efficacy of its heat-inactivated form remains incompletely characterized.

Methods

This study investigated whether oral heat-inactivated A. muciniphila AKK PROBIO alleviates cyclophosphamide (CTX)-induced immunosuppression in mice and elucidated mechanisms. Mice received CTX injections followed by oral heat-inactivated A. muciniphila for 14 days. Analyses included body/organ indices, hematology (WBC, RBC, HGB, lymphocytes), serum immunoglobulins (IgA, IgG, IgM), liver antioxidants (CAT, GSH-PX, SOD), splenic cytokines (IL-1β, IL-2, IL-4, IL-6, IL-8, IL-10, IFN-γ, TNF-α), immune organ histopathology, immune function (ear swelling, carbon clearance), splenic NF-κB/MAPK gene expression, gut microbiota, and short-chain fatty acids (SCFAs).

Results

Heat-inactivated A. muciniphila significantly reversed CTX-induced weight loss, hematological abnormalities, reduced immunoglobulins, and immune organ damage. It enhanced liver antioxidant activity and restored immune function (increased ear swelling, improved carbon clearance). Cytokine imbalances were corrected: suppressed cytokines (IL-1β, IL-2, IL-6, TNF-α) increased, while elevated ones (IL-4, IL-8, IFN-γ) decreased. The treatment downregulated overactivated splenic NF-κB/MAPK signaling. Gut dysbiosis was ameliorated via reduced Bacteroidota/Bacillota ratio and enrichment of beneficial taxa (e.g., o_Clostridia_UCG-014). Reduced SCFAs, particularly propanoic and isovaleric acid, were replenished.

Conclusions

In conclusion, heat-inactivated A. muciniphila AKK PROBIO effectively counteracts CTX-induced immunosuppression through multi-faceted mechanisms involving immune restoration, antioxidant enhancement, NF-κB/MAPK pathway regulation, and gut microbiota correction, highlighting its promise as a safe postbiotic therapeutic agent.
背景:免疫功能障碍是许多疾病的基础。虽然嗜粘阿克曼氏菌具有免疫调节潜能,但其热灭活形式的功效仍未完全表征。方法:研究口服热灭活A. muciniphila AKK PROBIO是否能减轻环磷酰胺(cyclophosphamide, CTX)诱导的小鼠免疫抑制,并阐明其机制。小鼠接受CTX注射,然后口服热灭活嗜粘杆菌14天。分析包括身体/器官指数、血液学(白细胞、红细胞、血红蛋白、淋巴细胞)、血清免疫球蛋白(IgA、IgG、IgM)、肝脏抗氧化剂(CAT、GSH-PX、SOD)、脾脏细胞因子(IL-1β、IL-2、IL-4、IL-6、IL-8、IL-10、IFN-γ、TNF-α)、免疫器官组织病理学、免疫功能(耳部肿胀、碳清除)、脾脏NF-κB/MAPK基因表达、肠道微生物群和短链脂肪酸(SCFAs)。结果:热灭活嗜粘杆菌显著逆转ctx诱导的体重减轻、血液学异常、免疫球蛋白减少和免疫器官损伤。它增强肝脏抗氧化活性,恢复免疫功能(增加耳肿胀,改善碳清除)。细胞因子失衡得到纠正:抑制的细胞因子(IL-1β、IL-2、IL-6、TNF-α)增加,而升高的细胞因子(IL-4、IL-8、IFN-γ)减少。治疗可下调过度激活的脾NF-κB/MAPK信号。通过降低拟杆菌/芽孢杆菌比例和丰富有益分类群(如o_Clostridia_UCG-014),肠道生态失调得到改善。减少的scfa,特别是丙酸和异戊酸,被补充。结论:热灭活的a . muciniphila AKK PROBIO通过免疫恢复、抗氧化增强、NF-κB/MAPK通路调节和肠道菌群校正等多种机制有效对抗ctx诱导的免疫抑制,是一种安全的后生物治疗药物。
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引用次数: 0
Expression of concern: "Pyrosequencing study of fecal microflora of autistic and control children". 关注表达:“自闭症和正常儿童粪便菌群的焦磷酸测序研究”。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-02-14 DOI: 10.1016/j.anaerobe.2026.103033
{"title":"Expression of concern: \"Pyrosequencing study of fecal microflora of autistic and control children\".","authors":"","doi":"10.1016/j.anaerobe.2026.103033","DOIUrl":"https://doi.org/10.1016/j.anaerobe.2026.103033","url":null,"abstract":"","PeriodicalId":8050,"journal":{"name":"Anaerobe","volume":"97 ","pages":"103033"},"PeriodicalIF":2.6,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147466946","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Vertebrate host or tick vector? Which is to blame for Borrelia lusitaniae population structure? 脊椎动物宿主还是蜱虫媒介?谁该为卢西塔伯氏疏螺旋体的种群结构负责?
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2026-02-12 DOI: 10.1016/j.anaerobe.2026.103032
Ana Cláudia Norte , Miguel A. Carretero , Luís P. da Silva , Gregorio Moreno-Rueda , Jorge Garrido-Bautista , Francisco Javier Zamora-Camacho , Mar Comas , Fernando Gómez-Ramirez , Catarina Rato , Jaime A. Ramos , Afonso Rocha , El-Mustapha Laghzaoui , Rodrigo Megía-Palma , Emilio Civantos , M. Sofia Núncio , Isabel Lopes de Carvalho , Volker Fingerle , Gabriele Margos

Objective

Borrelia lusitaniae is a lizard-associated spirochaete which shows highly genetically structured populations in western Europe. Our objective was to assess whether selective forces acting on the Ixodes tick vector or the reservoir lizard, Psammodromus algirus, shaped its population structure.

Methods

We collected ticks feeding on P. algirus in the Iberian Peninsula and north Africa, and genetically characterized B. lusitaniae, the infected ticks, and the vertebrate host.

Results

The goeBURST analysis on seven MLST B. lusitaniae genes identified two main clusters: one from central Europe and other from north Africa and Portugal (south of Tagus river), with some connections between the north Tagus populations in central Spain and north African ones. The Ixodes sp. nuclear gene trospA did not entirely correspond with the B. lusitaniae population structure. The P. algirus's phylogeny based on the ND4 mitochondrial gene also did not show lineage distinctions between north and south Tagus.

Conclusion

Both the clustering of B. lusitaniae lineages from this region together with those of south Portugal and north Africa, and the presence of ticks belonging to different trospA clades, suggests Central Spain, a contact area between lineages of P. algirus, as pivotal in the phylogeography of the host, its ticks and Borrelia.
目的:卢西塔伯氏疏螺旋体是一种与蜥蜴相关的螺旋体,在西欧显示出高度遗传结构的种群。我们的目的是评估是否选择力作用于蜱虫载体或水库蜥蜴,沙谟沙蜥,塑造了其种群结构。方法:在伊比利亚半岛和北非地区采集采食白蜱的蜱虫,对卢西塔尼亚白蜱、感染蜱虫和寄主脊椎动物进行遗传特征分析。结果:7个MLST卢西塔尼亚B. lusitaniae基因的goeBURST分析鉴定出两个主要集群:一个来自中欧,另一个来自北非和葡萄牙(塔霍河以南),西班牙中部的塔霍河北部种群与北非种群之间存在一定的联系。伊蚊核基因trospA与卢西塔尼亚白蝇种群结构不完全一致。基于ND4线粒体基因的P. algirus的系统发育也没有显示南北塔古斯之间的谱系差异。结论:该地区与葡萄牙南部和北非地区的卢西塔伊蚊谱系聚集,且存在不同分支的蜱虫,表明西班牙中部地区是阿尔吉纳伊蚊谱系的接触区,在宿主、蜱虫和伯氏疏螺旋体的系统地理学中起关键作用。
{"title":"Vertebrate host or tick vector? Which is to blame for Borrelia lusitaniae population structure?","authors":"Ana Cláudia Norte ,&nbsp;Miguel A. Carretero ,&nbsp;Luís P. da Silva ,&nbsp;Gregorio Moreno-Rueda ,&nbsp;Jorge Garrido-Bautista ,&nbsp;Francisco Javier Zamora-Camacho ,&nbsp;Mar Comas ,&nbsp;Fernando Gómez-Ramirez ,&nbsp;Catarina Rato ,&nbsp;Jaime A. Ramos ,&nbsp;Afonso Rocha ,&nbsp;El-Mustapha Laghzaoui ,&nbsp;Rodrigo Megía-Palma ,&nbsp;Emilio Civantos ,&nbsp;M. Sofia Núncio ,&nbsp;Isabel Lopes de Carvalho ,&nbsp;Volker Fingerle ,&nbsp;Gabriele Margos","doi":"10.1016/j.anaerobe.2026.103032","DOIUrl":"10.1016/j.anaerobe.2026.103032","url":null,"abstract":"<div><h3>Objective</h3><div><em>Borrelia lusitaniae</em> is a lizard-associated spirochaete which shows highly genetically structured populations in western Europe. Our objective was to assess whether selective forces acting on the <em>Ixodes</em> tick vector or the reservoir lizard, <em>Psammodromus algirus</em>, shaped its population structure.</div></div><div><h3>Methods</h3><div>We collected ticks feeding on <em>P. algirus</em> in the Iberian Peninsula and north Africa, and genetically characterized <em>B. lusitaniae</em>, the infected ticks, and the vertebrate host.</div></div><div><h3>Results</h3><div>The goeBURST analysis on seven MLST <em>B. lusitaniae</em> genes identified two main clusters: one from central Europe and other from north Africa and Portugal (south of Tagus river), with some connections between the north Tagus populations in central Spain and north African ones. The <em>Ixodes</em> sp. nuclear gene <em>trospA</em> did not entirely correspond with the <em>B. lusitaniae</em> population structure. The <em>P. algirus</em>'s phylogeny based on the ND4 mitochondrial gene also did not show lineage distinctions between north and south Tagus.</div></div><div><h3>Conclusion</h3><div>Both the clustering of <em>B. lusitaniae</em> lineages from this region together with those of south Portugal and north Africa, and the presence of ticks belonging to different <em>trospA</em> clades, suggests Central Spain, a contact area between lineages of <em>P. algirus,</em> as pivotal in the phylogeography of the host, its ticks and <em>Borrelia</em>.</div></div>","PeriodicalId":8050,"journal":{"name":"Anaerobe","volume":"97 ","pages":"Article 103032"},"PeriodicalIF":2.6,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146197260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
MALDI-TOF mass spectrometry coupled with machine learning: an accurate tool to detect toxigenic Clostridioides difficile strains MALDI-TOF质谱与机器学习相结合:一种检测产毒艰难梭菌菌株的准确工具。
IF 2.6 3区 生物学 Q3 MICROBIOLOGY Pub Date : 2026-03-01 Epub Date: 2025-11-29 DOI: 10.1016/j.anaerobe.2025.103017
Slim Hmidi , Sophie Edouard , Jérémy Delerce , Aurélia Caputo , Carine Couderc , Simon Robinne , Pierre-Edouard Fournier , Anthony Levasseur , Hervé Chaudet , Nadim Cassir

Purpose

Clostridioides difficile infection (CDI) is one of the most common healthcare-associated infections, causing significant morbidity and mortality. A CDI diagnosis involves a clinical assessment and laboratory testing. This study aimed to evaluate the effectiveness of MALDI-TOF mass spectrometry in identifying toxigenic C. difficile strains.

Methods

From May 2019 to March 2024, all clinical samples received for C. difficile and toxins testing by PCR were also tested by culture under anaerobic conditions. At least one MALDI-TOF spectrum was used to identify all the C. difficile strains that were isolated. Whole genome sequencing was then performed to characterise the C. difficile isolates by searching for toxin genes. Machine learning and deep learning algorithms were used to distinguish between toxigenic and non-toxigenic C. difficile strains.

Results

A total of 389 C. difficile strains, isolated from the stools of 315 patients, were analyzed. Of these, 249 were toxigenic (225 ToxA + B + CDT−, 22 ToxA + B + CDT+, and 2 ToxA−B + CDT+), and 140 were non-toxigenic (ToxA−B−CDT−). The support vector machine algorithm produced the most accurate results (91.5 % accuracy and a κ value of 0.831) with high sensitivity (93.1 %) and specificity (90 %), as well as high positive and negative predictive values (PPV of 90.3 % and NPV of 92.3 %, respectively). The random forest algorithm demonstrated accuracies as high as 87.7 %.

Conclusions

Supervised machine learning paves the way for inexpensive and easy-to-use alternative methods that enable the use of MALDI-TOF MS to recognise toxigenic and non-toxigenic C. difficile strains.
目的:艰难梭菌感染(CDI)是最常见的卫生保健相关感染之一,引起显著的发病率和死亡率。CDI诊断包括临床评估和实验室检测。本研究旨在评价MALDI-TOF质谱法鉴定产毒艰难梭菌菌株的有效性。方法:2019年5月至2024年3月,对所有临床标本进行艰难梭菌和PCR毒素检测,并在厌氧条件下进行培养。使用至少一个MALDI-TOF谱来鉴定分离的所有艰难梭菌菌株。然后进行全基因组测序,通过寻找毒素基因来表征艰难梭菌分离物。使用机器学习和深度学习算法来区分产毒和非产毒艰难梭菌菌株。结果:从315例患者的粪便中分离到艰难梭菌389株。其中249例为产毒株(225例为ToxA+B+CDT-, 22例为ToxA+B+CDT+, 2例为ToxA-B+CDT+), 140例为非产毒株(ToxA-B-CDT-)。支持向量机算法的准确率为91.5%,κ值为0.831,灵敏度为93.1%,特异度为90%,阳性预测值和阴性预测值均较高(PPV为90.3%,NPV为92.3%)。随机森林算法的准确率高达87.7%。结论:有监督的机器学习为廉价和易于使用的替代方法铺平了道路,使MALDI-TOF质谱能够识别出产毒和非产毒的艰难梭菌菌株。
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引用次数: 0
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Anaerobe
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