Fems Microbiology Letters最新文献_第4页

Knockout of adenylosuccinate synthase purA increases susceptibility to colistin in Escherichia coli. 敲除腺苷琥珀酸合成酶 purA 会增加大肠杆菌对可乐定的敏感性。

IF 2.2 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae007

Tomonori Kano, Kazuya Ishikawa, Kazuyuki Furuta, Chikara Kaito

{"title":"Knockout of adenylosuccinate synthase purA increases susceptibility to colistin in Escherichia coli.","authors":"Tomonori Kano, Kazuya Ishikawa, Kazuyuki Furuta, Chikara Kaito","doi":"10.1093/femsle/fnae007","DOIUrl":"10.1093/femsle/fnae007","url":null,"abstract":"Colistin is a cationic cyclic antimicrobial peptide used as a last resort against multidrug-resistant gram-negative bacteria. To understand the factors involved in colistin susceptibility, we screened colistin-sensitive mutants from an E. coli gene-knockout library (Keio collection). The knockout of purA, whose product catalyzes the synthesis of adenylosuccinate from IMP in the de novo purine synthesis pathway, resulted in increased sensitivity to colistin. Adenylosuccinate is subsequently converted to AMP, which is phosphorylated to produce ADP, a substrate for ATP synthesis. The amount of ATP was lower in the purA-knockout mutant than that in the wild-type strain. ATP synthesis is coupled with proton transfer, and it contributes to the membrane potential. Using the membrane potential probe, 3,3'-diethyloxacarbocyanine iodide [DiOC2(3)], we found that the membrane was hyperpolarized in the purA-knockout mutant compared to that in the wild-type strain. Treatment with the proton uncoupler, carbonyl cyanide m-chlorophenyl hydrazone (CCCP), abolished the hyperpolarization and colistin sensitivity in the mutant. The purA-knockout mutant exhibited increased sensitivity to aminoglycosides, kanamycin, and gentamicin; their uptake requires a membrane potential. Therefore, the knockout of purA, an adenylosuccinate synthase, decreases ATP synthesis concurrently with membrane hyperpolarization, resulting in increased sensitivity to colistin.","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.2,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10876104/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139671609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Merging and concatenation of sequencing reads: a bioinformatics workflow for the comprehensive profiling of microbiome from amplicon data. 测序读数的合并与连接：从扩增子数据全面分析微生物组的生物信息学工作流程。

IF 2.2 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae009

Meganathan P Ramakodi

{"title":"Merging and concatenation of sequencing reads: a bioinformatics workflow for the comprehensive profiling of microbiome from amplicon data.","authors":"Meganathan P Ramakodi","doi":"10.1093/femsle/fnae009","DOIUrl":"10.1093/femsle/fnae009","url":null,"abstract":"A comprehensive profiling of microbial diversity is essential to understand the ecosystem functions. Universal primer sets such as the 515Y/926R could amplify a part of 16S and 18S rRNA and infer the diversity of prokaryotes and eukaryotes. However, the analyses of mixed sequencing data pose a bioinformatics challenge; the 16S and 18S rRNA sequences need to be separated first and analysed individually/independently due to variations in the amplicon length. This study describes an alternative strategy, a merging and concatenation workflow, to analyse the mixed amplicon data without separating the 16S and 18S rRNA sequences. The workflow was tested with 24 mock community (MC) samples, and the analyses resolved the composition of prokaryotes and eukaryotes adequately. In addition, there was a strong correlation (cor = 0.950; P-value = 4.754e-10) between the observed and expected abundances in the MC samples, which suggests that the computational approach could infer the microbial proportions accurately. Further, 18 samples collected from the Sundarbans mangrove region were analysed as a case study. The analyses identified Proteobacteria, Bacteroidota, Actinobacteriota, Cyanobacteria, and Crenarchaeota as dominant bacterial phyla and eukaryotic divisions such as Metazoa, Gyrista, Cryptophyta, Chlorophyta, and Dinoflagellata were found to be dominant in the samples. Thus, the results support the applicability of the method in environmental microbiome research. The merging and concatenation workflow presented here requires considerably less computational resources and uses widely/commonly used bioinformatics packages, saving researchers analyses time (for equivalent sample numbers, compared to the conventional approach) required to infer the diversity of major microbial domains from mixed amplicon data at comparable accuracy.","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.2,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139671610","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

PqqF inhibits T6SS secretion by decreasing the pH in Serratia marcescens FS14. PqqF 通过降低 Serratia marcescens FS14 的 pH 值来抑制 T6SS 的分泌。

IF 2.2 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae047

Fengyu Jia, Xuede Peng, Xiaomei Yang, Shenshen Qiu, Shanshan Jia, Tingting Ran, Weiwu Wang, Dongqing Xu

引用次数: 0

Metabolic reprogramming in the food-borne pathogen Listeria monocytogenes as a critical defence against acid stress. 食源性病原体单核细胞增生李斯特菌的代谢重编程是抵御酸胁迫的关键。

IF 2.2 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae060

Jialun Wu, Chuhan Wang, Conor O'Byrne

{"title":"Metabolic reprogramming in the food-borne pathogen Listeria monocytogenes as a critical defence against acid stress.","authors":"Jialun Wu, Chuhan Wang, Conor O'Byrne","doi":"10.1093/femsle/fnae060","DOIUrl":"10.1093/femsle/fnae060","url":null,"abstract":"The ability to sense and respond effectively to acidic stress is important for microorganisms to survive and proliferate in fluctuating environments. As specific metabolic activities can serve to buffer the cytoplasmic pH, microorganisms rewire their metabolism to favour these reactions and thereby mitigate acid stress. The orally acquired pathogen Listeria monocytogenes exploits alternative metabolic activities to overcome the acidic stress encountered in the human stomach or food products. In this minireview, we discuss the metabolic processes in L. monocytogenes that mitigate acid stress, with an emphasis on the proton-depleting reactions, including glutamate decarboxylation, arginine/agmatine deimination, and fermentative acetoin production. We also summarize the recent findings on regulatory mechanisms that control the expression of genes that are responsible for these metabolic activities, including the general stress response regulator SigB, arginine repressor ArgR, and the recently discovered RofA-like transcriptional regulatory GadR. We further discuss the importance of this metabolic reprogramming in the context of food products and within the host. Finally, we highlight some outstanding challenges in the field, including an understanding of acid-sensing mechanisms, the role of intraspecies heterogeneity in acid resistance, and how a fundamental understanding of acid stress response can be exploited for food formulation to improve food safety and reduce food waste.","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.2,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11334721/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141906372","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Bacteria involved in the sulfur cycle in tarballs collected from the Alabama Gulf Coast. 从阿拉巴马州海湾沿岸收集的焦油球中参与硫循环的细菌。

IF 2.1 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae003

Joo-Han Gwak, Sung-Keun Rhee, Joong-Wook Park

引用次数: 0

In memoriam: Prof Yuri Alexandrovich Trotsenko (1941-2021). 悼念尤里-亚历山德罗维奇-特罗岑科教授（1941-2021）。

IF 2.1 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae024

Rich Boden

引用次数: 0

The influence of cigR gene on the pathogenicity of Salmonella paratyphi A in vitro and in vivo. cigR 基因对副伤寒甲型沙门氏菌体外和体内致病性的影响。

IF 2.2 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae067

Junlei Yin, Lijun Wang, Ronghua Shen, Jinjiao He, Shaozu Li, Huajian Wang, Zhao Cheng

{"title":"The influence of cigR gene on the pathogenicity of Salmonella paratyphi A in vitro and in vivo.","authors":"Junlei Yin, Lijun Wang, Ronghua Shen, Jinjiao He, Shaozu Li, Huajian Wang, Zhao Cheng","doi":"10.1093/femsle/fnae067","DOIUrl":"10.1093/femsle/fnae067","url":null,"abstract":"Salmonella Paratyphi A is the causative agent of paratyphoid fever A which is a serious threat to human health in many countries. The cigR gene located in Salmonella pathogenicity island 3 is a type III secretion system 2 effector gene. However, the influence of cigR gene on the pathogenicity of Salmonella Paratyphi A remains unclear. Here, a cigR gene deletion mutant of Salmonella Paratyphi A was constructed and its pathogenic changes were also evaluated. It was found that both the growth and biochemical features have not changed after the loss of cigR, but the absence of cigR significantly enhanced the replication and/or survival ability in phorbol-12-myristate-13-acetate (PMA)-differentiated human macrophage THP-1 cells and in mouse; the proliferative activity and apoptosis of PMA-differentiated THP-1 cell were significantly decreased and increased, respectively, after the lack of cigR gene; and the mutant showed increased virulence to a mouse infection model by decreased half-lethal dose (LD50) value and enhanced the proliferation ratio of bacteria in vivo. These results demonstrated that CigR is an anti-virulence factor and plays an important role in the pathogenicity of Salmonella Paratyphi A.","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.2,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142008540","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

Unlocking the plant growth-promoting potential of yeast spp.: exploring species from the Moroccan extremophilic environment for enhanced plant growth and sustainable farming. 发掘酵母菌对植物生长的促进潜力：探索摩洛哥嗜极环境中的物种，促进植物生长和可持续农业。

IF 2.1 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae015

Anas Raklami, Olubukola Oluranti Babalola, Martin Jemo, Ahmed Nafis

{"title":"Unlocking the plant growth-promoting potential of yeast spp.: exploring species from the Moroccan extremophilic environment for enhanced plant growth and sustainable farming.","authors":"Anas Raklami, Olubukola Oluranti Babalola, Martin Jemo, Ahmed Nafis","doi":"10.1093/femsle/fnae015","DOIUrl":"10.1093/femsle/fnae015","url":null,"abstract":"In this study, we successfully isolated two distinct yeasts from Moroccan extreme environments. These yeasts were subjected to molecular characterization by analyzing their Internal Transcribed spacer (ITS) regions. Our research thoroughly characterizes plant growth-promoting abilities and their drought and salt stress tolerance. In a greenhouse assay, we examined the impact of selected yeasts on Medicago sativa's growth. Four treatments were employed: (i) control without inoculation (NI), (ii) inoculation with L1, (iii) inoculation with L2, and (iv) inoculation with the mixture L1 + L2. L1 isolated from Toubkal Mountain shared 99.83% sequence similarity to Rhodotorula mucilaginosa. Meanwhile, L2, thriving in the arid Merzouga desert, displayed a similar identity to Naganishia albida (99.84%). Yeast strains were tolerant to NaCl (2 M) and 60% PEG (polyethylene glycol P6000) in case of drought. Both strains could solubilize phsphorus, with L2 additionally demonstrating potassium solubilization. In addition, both strains produce indole acetic acid (up to 135 µl ml-1), have siderophore ability, and produce aminocyclopropane-1-carboxylic acid deaminase. Isolates L1 and L2, and their consortium showed that the single or combined strain inoculation of M. sativa improved plant growth, development, and nutrient assimilation. These findings pave the way for harnessing yeast-based solutions in agricultural practices, contributing to enhanced crop productivity and environmental sustainability.","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.1,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10950045/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139989706","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

An experience of multidisciplinary tutorials sessions about antibiotics in the third year of pharmacy studies in Angers, France: learning assessment and evaluation of students' feelings by a mixed approach. 法国昂热药剂学专业三年级抗生素多学科辅导课的经验：采用混合方法进行学习评估和学生感受评价。

IF 2.1 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae016

Audrey Taisne, Samuel Legeay, Isabelle Baglin, Olivier Duval, Matthieu Eveillard

{"title":"An experience of multidisciplinary tutorials sessions about antibiotics in the third year of pharmacy studies in Angers, France: learning assessment and evaluation of students' feelings by a mixed approach.","authors":"Audrey Taisne, Samuel Legeay, Isabelle Baglin, Olivier Duval, Matthieu Eveillard","doi":"10.1093/femsle/fnae016","DOIUrl":"10.1093/femsle/fnae016","url":null,"abstract":"For undergraduate pharmacy students, the first step of antimicrobial stewardship learning objectives is to integrate antimicrobial knowledge from the foundational sciences. We hypothesised that using a multidisciplinary approach including two sessions of tutorials could be relevant in term of students' interest, satisfaction and learning retention time. The evaluation of students' feelings was based on a questionnaire including different dimensions and three focus groups with four students. Quantitative data were analysed with the EPI-INFO 7.2 software and a thematic analysis was implemented for qualitative data by using NVivo 12 software. The evaluation of students' learning concerned both short-time learning retention (STLR) and medium-time learning retention (MTLR), six months after the last session. Overall, 63 students responded to the questionnaire. Most of them appreciated the tutorials according to the different dimensions envisaged. Focus groups confirmed the interest of students for the multidisciplinary approach, interactions with teachers and opportunities of learning transfers. Concurrently, a lack of self-efficacy, low confidence towards the other students, external regulation of motivation and poor autonomy were recorded for some participants. Finally, there was no significant decrease between the scores of the STLR assessment and those of the MTLR assessment (58.5 ± 12.1/100 and 54.4 ± 8.9/100, respectively).","PeriodicalId":12214,"journal":{"name":"Fems Microbiology Letters","volume":null,"pages":null},"PeriodicalIF":2.1,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140059060","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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

An extensive ion-pair/hydrogen-bond network contributes to the thermostability of the MutL ATPase domain from Aquifex aeolicus. 广泛的离子对/氢键网络有助于提高 Aquifex aeolicus 的 MutL ATPase 结构域的耐热性。

IF 2.1 4区生物学

Fems Microbiology Letters Pub Date : 2024-01-09 DOI: 10.1093/femsle/fnae020

Ayaka Shibuya, Maki Yokote, Atsushi Suzuki, Kenji Fukui, Takato Yano

引用次数: 0