MicrobiologyOpen最新文献_第10页

Bioinformatic survey of CRISPR loci across 15 Serratia species 15种沙雷氏菌CRISPR基因座的生物信息学调查

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2023-03-02 DOI: 10.1002/mbo3.1339

Maria Scrascia, Roberta Roberto, Pietro D'Addabbo, Yosra Ahmed, Francesco Porcelli, Marta Oliva, Carla Calia, Angelo Marzella, Carlo Pazzani

{"title":"Bioinformatic survey of CRISPR loci across 15 Serratia species","authors":"Maria Scrascia, Roberta Roberto, Pietro D'Addabbo, Yosra Ahmed, Francesco Porcelli, Marta Oliva, Carla Calia, Angelo Marzella, Carlo Pazzani","doi":"10.1002/mbo3.1339","DOIUrl":"10.1002/mbo3.1339","url":null,"abstract":"The Clustered Regularly Interspaced Short Palindromic Repeats and CRISPR-associated proteins (CRISPR–Cas) system of prokaryotes is an adaptative immune defense mechanism to protect themselves from invading genetic elements (e.g., phages and plasmids). Studies that describe the genetic organization of these prokaryotic systems have mainly reported on the Enterobacteriaceae family (now reorganized within the order of Enterobacterales). For some genera, data on CRISPR–Cas systems remain poor, as in the case of Serratia (now part of the Yersiniaceae family) where data are limited to a few genomes of the species marcescens. This study describes the detection, in silico, of CRISPR loci in 146 Serratia complete genomes and 336 high-quality assemblies available for the species ficaria, fonticola, grimesii, inhibens, liquefaciens, marcescens, nematodiphila, odorifera, oryzae, plymuthica, proteomaculans, quinivorans, rubidaea, symbiotica, and ureilytica. Apart from subtypes I-E and I-F1 which had previously been identified in marcescens, we report that of I-C and the I-E unique locus 1, I-E*, and I-F1 unique locus 1. Analysis of the genomic contexts for CRISPR loci revealed mdtN-phnP as the region mostly shared (grimesii, inhibens, marcescens, nematodiphila, plymuthica, rubidaea, and Serratia sp.). Three new contexts detected in genomes of rubidaea and fonticola (puu genes-mnmA) and rubidaea (osmE-soxG and ampC-yebZ) were also found. The plasmid and/or phage origin of spacers was also established.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 2","pages":""},"PeriodicalIF":3.4,"publicationDate":"2023-03-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1339","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9846260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

The mystery of the ice cold rose—Microbiome of an Arctic winter frost flower 冰冷玫瑰的奥秘——北极冬季霜花的微生物群

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2023-02-04 DOI: 10.1002/mbo3.1345

Stefan Thiele, Anna Vader, Lise Øvreås

引用次数: 0

A new role for monomeric ParA/Soj in chromosome dynamics in Bacillus subtilis 单体ParA/Soj在枯草芽孢杆菌染色体动力学中的新作用

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2023-01-16 DOI: 10.1002/mbo3.1344

David M. Roberts

引用次数: 1

A new spray-based method for the in-vitro development of dry-surface biofilms 基于喷雾的体外培养干表面生物膜的新方法

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2023-01-11 DOI: 10.1002/mbo3.1330

Esther Christine, Claude Olive, Myriam Louisin, Moustapha Dramé, Karine Marion-Sanchez

{"title":"A new spray-based method for the in-vitro development of dry-surface biofilms","authors":"Esther Christine, Claude Olive, Myriam Louisin, Moustapha Dramé, Karine Marion-Sanchez","doi":"10.1002/mbo3.1330","DOIUrl":"10.1002/mbo3.1330","url":null,"abstract":"The inanimate environment immediately surrounding the patient in healthcare facilities is a reservoir of microorganisms embedded in dry-surface biofilms (DSB). These biofilms, first highlighted in 2012, are increasingly studied, but currently available in-vitro models only allow for the growth of semi-hydrated biofilms. We developed a new in-vitro method under actual dehydration conditions based on the hypothesis that surface contamination is mainly due to splashes of respiratory secretions. The main objective of this study was to show that the operating conditions we have defined allowed the growth of DSB with a methicillin resistant Staphylococcus aureus strain. The second objective was to show that extended-spectrum beta-lactamase-producing Enterobacteriaceae, that is, Klebsiella pneumoniae and Enterobacter cloacae were also able to grow such biofilms under these conditions. Monobacterial suspensions in sterile artificial saliva (SAS) were sprayed onto polyethylene surfaces. Nutrients and hydration were provided daily by spraying SAS enriched with 20% of Brain Heart Infusion broth. The primary outcome was mean surface coverage measured by image analysis after crystal violet staining. The method applied to S. aureus for 12 days resulted in reproducible and repeatable DSB consisting of isolated and confluent microcolonies embedded in extracellular polymeric substances as shown in scanning electron microscopy images. Similar DSB were obtained with both Enterobacteriaceae applying the same method. No interspecies variation was shown between the three strains in terms of surface coverage. These first trials are the starting point for a 3-year study currently in process.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2023-01-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1330","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9367407","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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: 1

Assessing pH-dependent activities of virulence factors secreted by Candida albicans 评估白色念珠菌分泌的毒力因子的ph依赖性活性

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2023-01-03 DOI: 10.1002/mbo3.1342

Asier Ramos-Pardo, Rocío Castro-Álvarez, Guillermo Quindós, Elena Eraso, Elena Sevillano, Vladimir R. Kaberdin

{"title":"Assessing pH-dependent activities of virulence factors secreted by Candida albicans","authors":"Asier Ramos-Pardo, Rocío Castro-Álvarez, Guillermo Quindós, Elena Eraso, Elena Sevillano, Vladimir R. Kaberdin","doi":"10.1002/mbo3.1342","DOIUrl":"10.1002/mbo3.1342","url":null,"abstract":"Candida albicans is an opportunistic pathogen that can thrive under adverse conditions including suboptimal pH, nutrient scarcity, and low levels of oxygen. Its pathogenicity is associated with the production of virulence factors such as extracellular hydrolytic enzymes and toxins. This study was aimed at determining the effect of external pH, substrate nature, and strain origin on protease, lipase, and hemolysin production. To achieve this objective, agar plate assays were performed at pH 5.0, 6.5, and 7.5 with substrates suitable for the detection of each family of enzymes. Moreover, the study was conducted with 20 clinical C. albicans isolates from blood, oral cavity, skin, urine, and vagina. The hydrolytic zones formed around the colonies were further measured to calculate the Ez (enzymatic zone) indexes. We found that detection of proteases in skim milk agar plates was possible for most isolates only at pH 5 (80%) and pH 6.5 (75%), whereas BSA plates could confer protease detection exclusively at pH 5 (80%). Similarly, the percentage of isolates possessing lipolytic activities was higher at pH 5 (90%) than at pH 6.5 (70%) and pH 7.5 (35%). In contrast, hemolytic activities were detected in all isolates at pH 6.5 and 7.5 but not at pH 5. Further analysis revealed that some differences in the detected activities could potentially be attributed to the anatomical origin of these isolates. Collectively, these findings suggest that the pH of the site of infection might be critical for mimicking the microenvironment employed to experimentally discover the key virulence factors.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2023-01-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1342","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9072648","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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: 3

Adaptive laboratory evolution for increased temperature tolerance of the diatom Nitzschia inconspicua 提高硅藻耐温性的适应性实验室进化

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2022-12-25 DOI: 10.1002/mbo3.1343

Alaina J. LaPanse, Tyson A. Burch, Jacob M. Tamburro, Jesse C. Traller, Agnieszka Pinowska, Matthew C. Posewitz

{"title":"Adaptive laboratory evolution for increased temperature tolerance of the diatom Nitzschia inconspicua","authors":"Alaina J. LaPanse, Tyson A. Burch, Jacob M. Tamburro, Jesse C. Traller, Agnieszka Pinowska, Matthew C. Posewitz","doi":"10.1002/mbo3.1343","DOIUrl":"10.1002/mbo3.1343","url":null,"abstract":"Outdoor microalgal cultivation for the production of valuable biofuels and bioproducts typically requires high insolation and strains with high thermal (>37°C) tolerance. While some strains are naturally thermotolerant, other strains of interest require improved performance at elevated temperatures to enhance industrial viability. In this study, adaptive laboratory evolution (ALE) was performed for over 300 days using consecutive 0.5°C temperature increases in a constant temperature incubator to attain greater thermal tolerance in the industrially relevant diatom Nitzschia inconspicua str. Hildebrandi. The adapted strain was able to grow at a constant temperature of 37.5°C; whereas this constant temperature was lethal to the parental control, which had an upper-temperature boundary of 35.5°C before adaptive evolution. Several high-temperature clonal isolates were obtained from the evolved population following ALE, and increased temperature tolerance was observed in the clonal, parent, and non-clonal adapted cultures. This ALE method demonstrates the development of enhanced industrial algal strains without the production of genetically modified organisms (GMOs).","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2022-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1343","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9367408","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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 in-house 45-plex array for the detection of antimicrobial resistance genes in Gram-positive bacteria 一种用于检测革兰氏阳性细菌耐药基因的内部45-plex阵列

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2022-12-25 DOI: 10.1002/mbo3.1341

Carole Kowalewicz, Michael Timmermans, David Fretin, Pierre Wattiau, Cécile Boland

{"title":"An in-house 45-plex array for the detection of antimicrobial resistance genes in Gram-positive bacteria","authors":"Carole Kowalewicz, Michael Timmermans, David Fretin, Pierre Wattiau, Cécile Boland","doi":"10.1002/mbo3.1341","DOIUrl":"10.1002/mbo3.1341","url":null,"abstract":"Identifying antimicrobial resistance (AMR) genes and determining their occurrence in Gram-positive bacteria provide useful data to understand how resistance can be acquired and maintained in these bacteria. We describe an in-house bead array targeting AMR genes of Gram-positive bacteria and allowing their rapid detection all at once at a reduced cost. A total of 41 AMR probes were designed to target genes frequently associated with resistance to tetracycline, macrolides, lincosamides, streptogramins, pleuromutilins, phenicols, glycopeptides, aminoglycosides, diaminopyrimidines, oxazolidinones and particularly shared among Enterococcus and Staphylococcus spp. A collection of 124 enterococci and 62 staphylococci isolated from healthy livestock animals through the official Belgian AMR monitoring (2018–2020) was studied with this array from which a subsample was further investigated by whole-genome sequencing. The array detected AMR genes associated with phenotypic resistance for 93.0% and 89.2% of the individual resistant phenotypes in enterococci and staphylococci, respectively. Although linezolid is not used in veterinary medicine, linezolid-resistant isolates were detected. These were characterized by the presence of optrA and poxtA, providing cross-resistance to other antibiotics. Rarer, vancomycin resistance was conferred by the vanA or by the vanL cluster. Numerous resistance genes circulating among Enterococcus and Staphylococcus spp. were detected by this array allowing rapid screening of a large strain collection at an affordable cost. Our data stress the importance of interpreting AMR with caution and the complementarity of both phenotyping and genotyping methods. This array is now available to assess other One-Health AMR reservoirs.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2022-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1341","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9072646","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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: 1

Deciphering the role of host species for two Mycobacterium bovis genotypes from the European 3 clonal complex circulation within a cattle‐badger‐wild boar multihost system 破译牛-獾-野猪多宿主系统中欧洲3克隆复杂循环中两种牛分枝杆菌基因型的宿主物种作用

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2022-12-15 DOI: 10.1002/mbo3.1331

L. Canini, Gabriela Modenesi, Aurélie Courcoul, M. Boschiroli, B. Durand, L. Michelet

{"title":"Deciphering the role of host species for two Mycobacterium bovis genotypes from the European 3 clonal complex circulation within a cattle‐badger‐wild boar multihost system","authors":"L. Canini, Gabriela Modenesi, Aurélie Courcoul, M. Boschiroli, B. Durand, L. Michelet","doi":"10.1002/mbo3.1331","DOIUrl":"https://doi.org/10.1002/mbo3.1331","url":null,"abstract":"Bovine tuberculosis is a common disease affecting cattle and wildlife worldwide. Mycobacterium bovis circulation in wildlife decreases the efficacy of surveillance and control programs in cattle. Strains of the European 3 clonal complex are the most frequent in France. The aim of our work was hence to investigate the role played by cattle and wildlife species in the circulation of two M. bovis European 3 strains circulation. WGS of M. bovis strains collected between 2010 and 2017 in two distinct areas (Nouvelle‐Aquitaine region, NAq, and Côte‐d'Or département, CdO), from badgers, wild boars, and cattle were used in an evolutionary model to infer the transition between the three species. We computed host species transition and persistence between two consecutive nodes and the average number of transitions per tree. In total, 144 and 218 samples were collected respectively in CdO and NAq. In CdO, three between‐species transition rates stood out: from cattle to badgers, from badgers to wild boars, and from wild boars to cattle. In NAq an additional fourth transition rate was identified: from badgers to cattle. However, host transition remained a rare event. Our results suggest that wild boars could be an intermediary host between badgers and cattle in the circulation of the studied strains in CdO and NAq. Our results also highlight the differences between these two areas, suggesting that the transition pattern does not only depend on the host species and other ecological, landscape and anthropic factors are important.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2022-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"51226578","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: 3

Deciphering the role of host species for two Mycobacterium bovis genotypes from the European 3 clonal complex circulation within a cattle-badger-wild boar multihost system 牛-獾-野猪多宿主系统中欧洲3克隆复合体循环中两种牛分枝杆菌基因型宿主物种的作用

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2022-12-15 DOI: 10.1002/mbo3.1331

Laetitia Canini, Gabriela Modenesi, Aurélie Courcoul, Maria-Laura Boschiroli, Benoit Durand, Lorraine Michelet

{"title":"Deciphering the role of host species for two Mycobacterium bovis genotypes from the European 3 clonal complex circulation within a cattle-badger-wild boar multihost system","authors":"Laetitia Canini, Gabriela Modenesi, Aurélie Courcoul, Maria-Laura Boschiroli, Benoit Durand, Lorraine Michelet","doi":"10.1002/mbo3.1331","DOIUrl":"https://doi.org/10.1002/mbo3.1331","url":null,"abstract":"Bovine tuberculosis is a common disease affecting cattle and wildlife worldwide. Mycobacterium bovis circulation in wildlife decreases the efficacy of surveillance and control programs in cattle. Strains of the European 3 clonal complex are the most frequent in France. The aim of our work was hence to investigate the role played by cattle and wildlife species in the circulation of two M. bovis European 3 strains circulation. WGS of M. bovis strains collected between 2010 and 2017 in two distinct areas (Nouvelle-Aquitaine region, NAq, and Côte-d'Or département, CdO), from badgers, wild boars, and cattle were used in an evolutionary model to infer the transition between the three species. We computed host species transition and persistence between two consecutive nodes and the average number of transitions per tree. In total, 144 and 218 samples were collected respectively in CdO and NAq. In CdO, three between-species transition rates stood out: from cattle to badgers, from badgers to wild boars, and from wild boars to cattle. In NAq an additional fourth transition rate was identified: from badgers to cattle. However, host transition remained a rare event. Our results suggest that wild boars could be an intermediary host between badgers and cattle in the circulation of the studied strains in CdO and NAq. Our results also highlight the differences between these two areas, suggesting that the transition pattern does not only depend on the host species and other ecological, landscape and anthropic factors are important.","PeriodicalId":18573,"journal":{"name":"MicrobiologyOpen","volume":"12 1","pages":""},"PeriodicalIF":3.4,"publicationDate":"2022-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mbo3.1331","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"50133196","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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: 3

The cell cycle of Staphylococcus aureus: An updated review 金黄色葡萄球菌的细胞周期:最新综述

IF 3.4 3区生物学

MicrobiologyOpen Pub Date : 2022-12-09 DOI: 10.1002/mbo3.1338

Maria D. Barbuti, Ine S. Myrbråten, Danae Morales Angeles, Morten Kjos

引用次数: 7