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Genome sequence of the plant-growth-promoting bacterium Bacillus velezensis EU07. 促进植物生长的芽孢杆菌 EU07 的基因组序列。
Pub Date : 2024-05-30 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000762.v3
Ömür Baysal, David J Studholme, Catherine Jimenez-Quiros, Mahmut Tör

Many Gram-positive spore-forming rhizobacteria of the genus Bacillus show potential as biocontrol biopesticides that promise improved sustainability and ecological safety in agriculture. Here, we present a draft-quality genome sequence for Bacillus velezensis EU07, which shows growth-promotion in tomato plants and biocontrol against Fusarium head blight. We found that the genome of EU07 is almost identical to that of the commercially used strain QST713, but identified 46 single-nucleotide differences that distinguish these strains from each other. The availability of this genome sequence will facilitate future efforts to unravel the genetic and molecular basis for EU07's beneficial properties.

芽孢杆菌属的许多革兰氏阳性孢子形成根瘤菌具有生物防治生物农药的潜力,有望提高农业的可持续性和生态安全性。在这里,我们展示了枯草芽孢杆菌 EU07 的高质量基因组序列草案,该菌株可促进番茄植株的生长,并对镰刀菌头疫病具有生物防治作用。我们发现,EU07 的基因组与商用菌株 QST713 的基因组几乎完全相同,但发现了 46 个单核苷酸差异,从而将这两个菌株区分开来。该基因组序列的获得将有助于今后揭示 EU07有益特性的遗传和分子基础。
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引用次数: 0
Exceptional association of two species of bacteria causing acute appendicitis: Haemophilus influenzae and Enterobacter cloacae. 引起急性阑尾炎的两种细菌:流感嗜血杆菌和泄殖腔肠杆菌的特殊关联。
Pub Date : 2024-05-28 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000794.v3
Fatima Zahra Adil, Elmostafa Benaissa, Yassine Ben Lahlou, Leila Laamara, Fatna Bssaibis, Adil Maleb, Mariama Chadli, Mostafa Elouennass

Appendicitis, typically caused by appendiceal lumen obstruction, is a prevalent abdominal surgical emergency worldwide. While most cases involve Enterobacterales, Haemophilus influenzae, primarily known for upper respiratory infections, is infrequently associated with gastrointestinal infections. This article presents an exceptional case of acute appendicitis caused by both Haemophilus influenza and Enterobacter cloacae in a 15-year-old child, highlighting the significance of recognizing uncommon pathogens in appendicitis and emphasizing the necessity for thorough microbiological investigations to refine diagnostic approaches.

阑尾炎通常由阑尾管腔阻塞引起,是全球普遍存在的腹部外科急症。虽然大多数病例涉及肠杆菌,但主要因上呼吸道感染而闻名的流感嗜血杆菌却很少与胃肠道感染有关。本文介绍了一例由流感嗜血杆菌和泄殖腔肠杆菌同时引起的 15 岁儿童急性阑尾炎的特殊病例,强调了识别阑尾炎中不常见病原体的重要性,并强调了进行彻底的微生物学检查以完善诊断方法的必要性。
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引用次数: 0
Corrigendum: The Enterococcus secretome inhibits the growth of Mycobacterium tuberculosis complex mycobacteria. 更正:肠球菌分泌物抑制结核分枝杆菌复合体分枝杆菌的生长。
Pub Date : 2024-05-22 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000843
Wafaa Achache, Jean Louis Mege, Mustapha Fellag, Michel Drancourt

[This corrects the article DOI: 10.1099/acmi.0.000471.v3.].

[此处更正了文章 DOI:10.1099/acmi.0.000471.v3.]。
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引用次数: 0
Brief Report: Nasal colonization with Staphylococcus aureus and methicillin resistant Staphylococcus aureus among community-dwelling older adults with comorbidities seeking follow-up medical care in Central Sri Lanka. 简要报告:斯里兰卡中部在社区居住并有合并症的老年人鼻腔定植金黄色葡萄球菌和耐甲氧西林金黄色葡萄球菌。
Pub Date : 2024-05-21 eCollection Date: 2024-01-01 DOI: 10.1099/acmi.0.000724.v3
Ifaaz Iqbal, Zeenath Sabri, Adithya Illangasinghe, Ashini Isurindi, Rashmi Jayakodi, Wasana Jayasekara, Kaveesha Jayarathna, Nonduni Jayasinghe, Mekhala Ishani, Ishan Jayasekara, Nelum Handapangoda, Dilrukshi Menike, Rasadanie Dissanayake, Asela Ekanayake, Veranja Liyanapathirana

Older adults are more severely affected by infections caused by drug-resistant bacteria including Methicillin-Resistant Staphylococcus aureus (MRSA). We aimed to identify the MRSA colonization rates and associated factors among older adults aged more than 65-years-old. Among the 309 recruited, 152 (49.2 %) were males. Self-collected nasal swabs were used to isolate Staphylococcus aureus and MRSA with routine microbiological methods. Staphylococcus aureus was isolated from 36 (11.7 %) participants while 11 (3.6 %) were colonized with MRSA. We identified a significant association between the male sex and MRSA colonization (P=0.028, Chi-square test). However, this needs careful interpretation given the smaller number of outcome events. Other factors studied had no statistically significant association with MRSA colonization.

老年人受到耐药细菌(包括耐甲氧西林金黄色葡萄球菌(MRSA))感染的影响更为严重。我们旨在确定 65 岁以上老年人的 MRSA 定植率和相关因素。在招募的 309 人中,152 人(49.2%)为男性。使用自取的鼻拭子以常规微生物学方法分离金黄色葡萄球菌和 MRSA。36 名参与者(11.7%)分离出了金黄色葡萄球菌,11 名参与者(3.6%)定植了 MRSA。我们发现男性性别与 MRSA 定植之间存在明显关联(P=0.028,卡方检验)。但是,由于结果事件的数量较少,因此需要仔细解释。所研究的其他因素与 MRSA 定植无统计学意义。
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引用次数: 0
Development of selective isolation media for detecting the genera Actinomyces and Schaalia from oral specimens containing indigenous bacteria 开发用于从含有本地细菌的口腔标本中检测放线菌属和沙雷菌属的选择性分离培养基
Pub Date : 2024-05-10 DOI: 10.1099/acmi.0.000768.v3
Sadao Aoki, Hiroko Yahara, Ryoma Nakao, Osamu Tsuzukibashi, K. Yahara
To isolate specific bacteria from samples constituting the microbiota, it is essential to employ selective media that suppress the growth of resident bacteria other than specific target bacteria. Selective media for clinically important Actinomyces (including Schaalia, which was previously taxonomically classified as part of the genus Actinomyces) have been limited because they have been designed for a limited range of species within the genus and require ingredients which are difficult to prepare and handle. This study aimed to develop a selective medium [referred to as Actinomyces and Schaalia Selective Medium (ASSM)] for the isolation of a broad range of Actinomyces and Schaalia species from samples mixed with resident bacteria. The composition of ASSM includes yeast extract, agar, brain heart infusion (BHI), levofloxacin (LVFX), fosfomycin (FOM), colistin (CL) and metronidazole (MNZ). Evaluation of the medium using 24 swab samples serially collected from the roots of the teeth of a healthy individual for whom metagenome sequencing data of a saliva sample are publicly available revealed that ASSM adjusted to concentrations of LVFX 0.5 mg l−1, FOM 5 mg l−1, CL 1 mg l−1 and MNZ 2 mg l−1 and cultured anaerobically at 35 °C for 7 days enabled the isolation of Actinomyces species from 37.5 % of the samples. The inclusion of CL and MNZ in ASSM can also be useful for samples harbouring other bacterial species. The selective isolation medium is expected to contribute to studies investigating the relationship between these bacteria and their pathogenesis or disease.
要从构成微生物群的样本中分离出特定细菌,必须使用选择性培养基,抑制特定目标细菌以外的其他常驻细菌的生长。临床上重要的放线菌(包括沙利亚,以前在分类学上被归为放线菌属的一部分)的选择性培养基一直很有限,因为这些培养基是为放线菌属中的有限种类设计的,并且需要难以制备和处理的成分。本研究旨在开发一种选择性培养基[称为放线菌和沙雷菌选择性培养基(ASSM)],用于从与常住菌混合的样本中分离多种放线菌和沙雷菌。ASSM 的成分包括酵母提取物、琼脂、脑心输液(BHI)、左氧氟沙星(LVFX)、磷霉素(FOM)、可乐定(CL)和甲硝唑(MNZ)。使用从一名健康人的牙根处连续采集的 24 份拭子样本对培养基进行评估后发现,将 ASSM 的浓度调整为 LVFX 0.5 毫克升-1、FOM 5 毫克升-1、CL 1 毫克升-1 和 MNZ 2 毫克升-1,并在 35 °C 下厌氧发酵培养 7 天后,可从 37.5% 的样本中分离出放线菌。在 ASSM 中加入 CL 和 MNZ 对含有其他细菌物种的样品也很有用。预计这种选择性分离培养基将有助于研究这些细菌与其致病机理或疾病之间的关系。
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引用次数: 0
Kaposi’s sarcoma herpesvirus viral FLICE inhibitory protein modulates A20 deubiquitinase activity 卡波西肉瘤疱疹病毒FLICE抑制蛋白调节A20去泛素化酶的活性
Pub Date : 2024-05-09 DOI: 10.1099/acmi.0.000625.v4
Kevin Herold, Ayana Ruffin, Jennifer C. Chmura, Anna J Dellomo, Elana S. Ehrlich
KSHV viral FLICE inhibitory protein (vFLIP) is a potent activator of NF-κB signalling and an inhibitor of apoptosis and autophagy. Inhibition of vFLIP function and NF-κB signalling promotes lytic reactivation. Here we provide evidence for a novel function of vFLIP through inhibition of the deubiquitinating (DUB) activity of the negative regulator, A20. We demonstrate direct interaction of vFLIP with Itch and A20 and provide evidence for subsequent loss of A20 DUB activity. Our results provide further insight into the function of vFLIP in the regulation of NF-κB signalling.
KSHV 病毒 FLICE 抑制蛋白(vFLIP)是 NF-κB 信号的强效激活剂,也是细胞凋亡和自噬的抑制剂。抑制 vFLIP 功能和 NF-κB 信号可促进裂解再活化。在这里,我们通过抑制负调控因子 A20 的去泛素化(DUB)活性,为 vFLIP 的新功能提供了证据。我们证明了 vFLIP 与 Itch 和 A20 的直接相互作用,并提供了随后 A20 DUB 活性丧失的证据。我们的研究结果进一步揭示了 vFLIP 在 NF-κB 信号调控中的功能。
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引用次数: 0
Clinical presentation and outcome of enteric fever in adult patients with cancer: a perspective from Pakistan 成年癌症患者肠热病的临床表现和预后:来自巴基斯坦的视角
Pub Date : 2024-05-01 DOI: 10.1099/acmi.0.000719.v3
Seemal Aslam, Salma Abbas, S. Nizamuddin, Muhammad Shehbaz, Azra Parveen, Faisal Sultan, Aun Raza
Introduction. Enteric fever is a significant health concern in endemic countries. While extensive research has been conducted to understand its presentation and outcomes in non-cancer patients, limited data exist on its impact on cancer patients. This descriptive study aims to investigate the clinical presentation and outcome in cancer patients. Methodology. This retrospective observational study analysed 90 adult cancer patients from a single centre in Pakistan from January 2017 to December 2022. Inclusion criteria involved documented blood culture infections with Salmonella typhi or paratyphi A, B, or C. We examined clinical presentation, laboratory parameters, antimicrobial resistance, complications, and outcomes. Additionally, we explored the effects of chemotherapy, comorbidities, type of malignancy, and patient age on complications and mortality. Results. Salmonella typhi was the most prevalent organism (72.2 %), followed by Salmonella paratyphi A (22.2 %) and B (5.5 %). Variably-resistant isolates constituted 51.5 %, multi-drug resistant (MDR) isolates accounted for 20 %, extensively drug-resistant (XDR) for 14.4 % and ESBL-producers for 15.5 %, of all enteric fever infections. Enteric fever-associated complications were observed in 21.1 % of cases. Chemotherapy in the preceding month did not affect mortality, nor did age, gender, or malignancy type. However, comorbidities were statistically significant for mortality (p-value 0.03). A total of 8.8 % of patients required ICU care, and the all-cause 30 day mortality rate was 13.3 % Conclusion. Enteric fever remains prevalent in our geographical region. Unlike non-typhoidal Salmonella (NTS), enteric fever does not behave differently in an immunocompromised population, including cancer patients.
导言。在肠热病流行的国家,肠热病是一个重大的健康问题。虽然已经开展了大量研究来了解肠热病在非癌症患者中的表现和预后,但有关其对癌症患者影响的数据却十分有限。本描述性研究旨在调查癌症患者的临床表现和预后。 研究方法。这项回顾性观察研究分析了 2017 年 1 月至 2022 年 12 月期间巴基斯坦一个中心的 90 名成年癌症患者。纳入标准包括有记录的甲型、乙型或丙型伤寒沙门氏菌或副伤寒沙门氏菌血培养感染。我们研究了临床表现、实验室参数、抗菌药耐药性、并发症和预后。此外,我们还探讨了化疗、合并症、恶性肿瘤类型和患者年龄对并发症和死亡率的影响。 研究结果伤寒沙门氏菌是最常见的病原菌(72.2%),其次是副伤寒甲型沙门氏菌(22.2%)和乙型沙门氏菌(5.5%)。在所有肠热感染病例中,变异耐药分离菌占 51.5%,多重耐药分离菌占 20%,广泛耐药分离菌占 14.4%,产 ESBL 菌占 15.5%。21.1%的病例出现肠热相关并发症。前一个月的化疗对死亡率没有影响,年龄、性别或恶性肿瘤类型也没有影响。不过,合并症对死亡率的影响具有统计学意义(p 值为 0.03)。共有 8.8% 的患者需要重症监护室护理,30 天内全因死亡率为 13.3% 结论:肠热仍然是一种流行病。肠热病在我国地区仍然很普遍。与非伤寒沙门氏菌 (NTS) 不同,肠热病在免疫力低下人群(包括癌症患者)中的表现并无不同。
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引用次数: 0
An improved genome editing system for Sphingomonadaceae 改进的鞘氨醇单胞菌科基因组编辑系统
Pub Date : 2024-05-01 DOI: 10.1099/acmi.0.000755.v3
Inmaculada García-Romero, Rubén de Dios, Francisca Reyes-Ramírez
The sphingomonads encompass a diverse group of bacteria within the family Sphingomonadaceae, with the presence of sphingolipids on their cell surface instead of lipopolysaccharide as their main common feature. They are particularly interesting for bioremediation purposes due to their ability to degrade or metabolise a variety of recalcitrant organic pollutants. However, research and development on their full bioremediation potential has been hampered because of the limited number of tools available to investigate and modify their genome. Here, we present a markerless genome editing method for Sphingopyxis granuli TFA, which can be further optimised for other sphingomonads. This procedure is based on a double recombination triggered by a DNA double-strand break in the chromosome. The strength of this protocol lies in forcing the second recombination rather than favouring it by pressing a counterselection marker, thus avoiding laborious restreaking or passaging screenings. Additionally, we introduce a modification with respect to the original protocol to increase the efficiency of the screening after the first recombination event. We show this procedure step by step and compare our modified method with respect to the original one by deleting ecfG2, the master regulator of the general stress response in S. granuli TFA. This adds to the genetic tool repertoire that can be applied to sphingomonads and stands as an efficient option for fast genome editing of this bacterial group.
鞘氨醇单胞菌是鞘氨醇单胞菌科(Sphingomonadaceae)中的一个多样化细菌群,其主要共同特征是细胞表面存在鞘氨醇脂而不是脂多糖。由于它们能够降解或代谢各种难降解的有机污染物,因此在生物修复方面特别有意义。然而,由于可用于研究和修改其基因组的工具数量有限,对其全部生物修复潜力的研究和开发一直受到阻碍。在这里,我们介绍了一种针对颗粒鞘氨醇 TFA 的无标记基因组编辑方法,该方法可进一步优化用于其他鞘氨醇单胞菌。该方法基于染色体中 DNA 双链断裂引发的双重组。该方案的优势在于通过按下反选标记来强制进行第二次重组,而不是偏向于第二次重组,从而避免了费力的重组或传代筛选。此外,我们还对原始方案进行了修改,以提高第一次重组后的筛选效率。我们逐步展示了这一过程,并比较了我们与原始方法的不同之处,即删除了ecfG2,它是颗粒细胞TFA中一般应激反应的主调控因子。这增加了可应用于鞘氨醇单胞菌的遗传工具库,是对该细菌群进行快速基因组编辑的有效选择。
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引用次数: 0
Peritoneal tuberculosis, an underestimated diagnosis: a case report 腹膜结核,一个被低估的诊断:病例报告
Pub Date : 2024-05-01 DOI: 10.1099/acmi.0.000753.v3
Leila Laamara, E. Benaissa, Amine Achemlal, Amal Bounakhla, F. Bssaibis, Y. Benlahlou, Adil Maleb, Mariama Chadli, Mostafa Elouennass
Tuberculosis is an infectious disease that most often affects the lungs, caused by human-to-human transmission of Mycobacterium tuberculosis. Peritoneal tuberculosis is an extra-pulmonary form of the disease that usually manifests as an ascitic syndrome, with or without fever, in a context of altered general condition, often in endemic areas. The diagnosis of peritoneal tuberculosis is not always easy, as the clinical signs are often insidious and unspecific. We report a case of peritoneal tuberculosis in an 18-year-old female, who had presented for 10 days with a progressive increase in abdominal volume associated with vomiting and diarrhoea.
结核病是一种最常影响肺部的传染病,由结核分枝杆菌在人与人之间传播引起。腹膜结核是一种肺外形式的疾病,通常表现为腹水综合征,伴有或不伴有发热,在全身状况改变的情况下,通常发生在地方病流行的地区。腹膜结核的诊断并不总是那么容易,因为其临床症状往往是隐匿性和非特异性的。我们报告了一例腹膜结核病例,患者是一名 18 岁女性,10 天来腹部体积逐渐增大,并伴有呕吐和腹泻。
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引用次数: 0
Microbiota of healthy dogs demonstrate a significant decrease in richness and changes in specific bacterial groups in response to supplementation with resistant starch, but not psyllium or methylcellulose, in a randomized cross-over trial 在一项随机交叉试验中,健康狗的微生物群对补充抗性淀粉(而非洋车前子或甲基纤维素)的反应显示出丰富度的显著下降和特定细菌群的变化
Pub Date : 2024-05-01 DOI: 10.1099/acmi.0.000774.v4
S. Salavati Schmitz, Jorge Perez-Accino Salgado, Laura Glendinning
Microbiota of healthy dogs demonstrate significant changes in specific bacterial groups in response to supplementation with resistant starch (but not psyllium or methylcellulose) in this randomized cross-over trial.
在这项随机交叉试验中,健康狗的微生物群显示出特定细菌群对补充抗性淀粉(而不是洋车前子或甲基纤维素)的反应发生了显著变化。
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引用次数: 0
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Access microbiology
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