Frontiers in Microbiology最新文献

{"title":"Clinical factors associated with invasive pulmonary aspergillosis in patients with severe fever with thrombocytopenia syndrome: analysis of a 6-year clinical experience","authors":"Huan Wang, Miao Luo, David Fisher, Khrystyna Pronyuk, Erkin Musabaev, Hien Nguyen Thi Thu, Pian Ye, Lei Zhao","doi":"10.3389/fmicb.2024.1448710","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1448710","url":null,"abstract":"BackgroundInvasive pulmonary aspergillosis (IPA) typically occurs in immunocompromised individuals. Severe fever with thrombocytopenia syndrome (SFTS) patients are typically characterized by fever, thrombocytopenia, and leukopenia. These patients typically present with dysregulation of cellular and humoral immunity, which may predispose them to IPA. Our study aimed to identify risk factors for SFTS-associated invasive pulmonary aspergillosis (SAPA) and evaluate its associated prognostic impact.MethodsWe conducted a cohort study between January 2017 and December 2022 in a tertiary hospital in Wuhan City, China. All SFTS patients hospitalized in our department who formally consented were divided into a SAPA group and a non-SAPA group according to whether they were coinfected with aspergillosis or not. The independent risk factors for the SAPA group were determined by multivariate logistic regression. Receiver operating characteristic (ROC) analysis was used to assess the statistical value of parameters to predict SAPA patients. The survival analysis was carried out using the Kaplan–Meier (KM) method.ResultsOf the 269 hospitalized SFTS patients enrolled in the study, 118 (43.87%) cases were diagnosed with SAPA with an average age of 65.71 ± 9.7 years. Multivariate logistic regression analysis revealed that age, neurological complications, serum severe fever with thrombocytopenia syndrome virus (SFTSV) RNA loads, the white blood cell (WBC) count, platelet (PLT) count, albumin (ALB) and globulin (GLB) concentrations, and cardiac troponin I (cTNI) were complementary risk factors for the development of IPA in SFTS patients. The risk score is calculated as 5 times age, plus 6 times neurological complications, plus 10 times RNA (log), plus 5 times WBC, minus 5 times PLT, minus 5 times ALB, plus 5 times GLB, and plus 6 times cTNI. ROC curve analysis showed that the area under the receiver operating characteristic (AUROC) curve represented a risk score of 0.837 (95% <jats:italic>CI</jats:italic>: 0.789–0.885, <jats:italic>p</jats:italic> &amp;lt; 0.001) for predicting IPA in SFTS patients. The average length of hospitalization in the SAPA group was more prolonged than non-SAPA. SAPA and non-SAPA groups had significantly different mortality rates: 25.42% (SAPA) and 3.97% (non-SAPA) (<jats:italic>p</jats:italic> &amp;lt; 0.05).ConclusionSFTS patients with IPA have high morbidity and mortality. Early monitoring of neurological complications, SFTSV RNA loads, WBC, PLT, ALB, GLB, and cTNI in SFTS patients may be useful in predicting the occurrence of IPA.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142186982","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Schizosaccharomyces pombe ornithine-N5-oxygenase Sib2 interacts with the N5-transacetylase Sib3 in the ferrichrome biosynthetic pathway","authors":"Berthy Mbuya, Samuel Plante, Farouk Ammar, Ariane Brault, Simon Labbé","doi":"10.3389/fmicb.2024.1467397","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1467397","url":null,"abstract":"The fission yeast <jats:italic>Schizosaccharomyces pombe</jats:italic> produces the hydroxamate-type siderophore ferrichrome (Fc). The biosynthesis of Fc requires the Fc synthase Sib1, the ornithine-N<jats:sup>5</jats:sup>-oxygenase Sib2, and the N<jats:sup>5</jats:sup>-hydroxyornithine-N<jats:sup>5</jats:sup>-transacetylase Sib3. In this study, we demonstrate the critical importance of the His<jats:sup>248</jats:sup> residue of Sib3 in Fc production. Cells expressing a <jats:italic>sib3H248A</jats:italic> mutant allele fail to grow in iron-poor media without Fc supplementation. These <jats:italic>sib3H248A</jats:italic> mutant cells are consistently unable to promote Fc-dependent growth of <jats:italic>Saccharomyces cerevisiae</jats:italic> cells in cross-feeding experiments. Green fluorescent protein (GFP)-tagged wild-type Sib3 and mutant Sib3H248A exhibit a pancellular distribution. Coimmunoprecipitation assays revealed that both wild-type and Sib3H248A physically interact with Sib2. Further analysis identified a minimal C-terminal region from amino acids 290–334 of Sib3 that is required for interaction with Sib2. Deletion mapping analysis identified two regions of Sib2 as being required for its association with Sib3. The first region encompasses amino acids 1–135, and the second region corresponds to amino acids 281–358 of Sib2. Taken together, these results describe the first example of a physical interaction between an ornithine-N<jats:sup>5</jats:sup>-oxygenase and an N<jats:sup>5</jats:sup>-hydroxyornithine-N<jats:sup>5</jats:sup>-transacetylase controlling the biosynthesis of a hydroxamate-type siderophore.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187006","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Microbial landscape of cooked meat products: evaluating quality and safety in vacuum-packaged sausages using culture-dependent and culture-independent methods over 1 year in a sustainable food chain","authors":"Wilson José Fernandes Lemos Junior, Lucas Marques Costa, Carlos Alberto Guerra, Vanessa Sales de Oliveira, Angela Gava Barreto, Fabiano Alves de Oliveira, Breno Pereira de Paula, Erick Almeida Esmerino, Viviana Corich, Alessio Giacomini, André Fioravante Guerra","doi":"10.3389/fmicb.2024.1457819","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1457819","url":null,"abstract":"Over the last few decades, advancements in process safety and quality methods have been significantly improved, yet new challenges continue to emerge in the sustainable food supply chain. This study aimed to investigate some physicochemical and microbiological parameters impacting meat products, particularly cooked sausages, within a sustainable supply chain, focusing on quality, spoilage populations, and syneresis formation under vacuum conditions. A comprehensive analysis was conducted on 355 samples collected over four seasons using high-throughput sequencing (16S/ITS) and microbiological and physicochemical [pH and water activity (a<jats:sub>w</jats:sub>)] assessments. The microbial growth predictor MicroLab_ShelfLife was employed, and multiple factor analysis (MFA) and agglomerative hierarchical clustering (AHC) were utilized to understand how these variables influence the microbiome resilience of these products. Lactic and acetic acids were correlated with the microbiome of the sausages and the liquid coating covering them using metagenomic analyses. The study highlighted that 52% of the evaluated meat industries in southeastern Brazil are implementing effective protocols for sustainable chain production. The results indicated that the durability of vacuum-packaged cooked sausages was primarily influenced by storage temperature (RV coefficient of 0.906), initial microbial load (0.755), and a<jats:sub>w</jats:sub> (0.624). Average microbial counts were 4.30 log cfu/g (initial), 4.61 (7°C/4 days), 4.90 (7°C/8 days), 6.06 (36°C/4 days), and 6.79 (36°C/8 days). Seasonal durability analysis revealed that winter had the highest average durability of 45.58 days, while summer had the lowest at 26.33 days. Yeast populations, including <jats:italic>Trichosporon</jats:italic> sp. and <jats:italic>Candida</jats:italic> sp., were identified as key genera influencing spoilage dynamics. In addition, <jats:italic>Bacillus</jats:italic> species emerged as dominant spoilage microorganisms, highlighting the need for new critical controls. This study demonstrates the impact of metagenomic approaches, including <jats:italic>ITS</jats:italic> and <jats:italic>16S</jats:italic> amplicon sequencing, in revealing microbial community dynamics, storage temperature, and a<jats:sub>w</jats:sub>, which are essential for developing targeted interventions to enhance food safety and quality sustainably.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187008","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification and pathogenicity of Alternaria and Fusarium species associated with bagged apple black spot disease in Shaanxi, China","authors":"Dandan Ding, Yating Shao, Jirong Zhao, Jinshui Lin, Xiangqian Zhang, Xiukang Wang, Xiangming Xu, Chengnan Xu","doi":"10.3389/fmicb.2024.1457315","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1457315","url":null,"abstract":"Apple is an economically important fruit crop in northern Shaanxi Province in China. In recent years, a new type of apple black spot disease, “bagged apple black spot disease,” has occurred in the main apple production area of Yan’an City, Shaanxi Province, during the apple ripening season. It seriously affects the appearance quality and commercial value of apples. In this study, 120 isolates recovered from symptomatic apples were identified based on morphological characteristics, pathogenicity, and multilocus sequence analyses of the internal transcribed spacer of ribosomal DNA (rDNA-ITS), translation elongation factor 1-α (<jats:italic>EF1-α</jats:italic>), RNA polymerase II subunit B (<jats:italic>RPB2</jats:italic>), endopolygalacturonase (<jats:italic>endo-PG</jats:italic>), and anonymous region <jats:italic>OPA1-3. Alternaria alternata</jats:italic> was the most abundant species (64%), followed by <jats:italic>Fusarium acuminatum</jats:italic> (36%). Pathogenicity assays were conducted by inoculating them individually and together on detached apples (Venus Golden and Fuji varieties). The results showed that the two fungal species could infect apples individually and together. Co-infection enhanced the disease severity. <jats:italic>F. acuminatum</jats:italic> led to increased severity and speed of disease development compared to <jats:italic>A. alternata</jats:italic>. This is the first report of <jats:italic>Fusarium</jats:italic> and <jats:italic>Alternaria</jats:italic> co-infection causing apple black spot disease worldwide, and the first report of <jats:italic>F. acuminatum</jats:italic> affecting apples. The optimal growth of <jats:italic>A. alternata</jats:italic> occurred at 25–30°C and pH 7; the optimal growth of <jats:italic>F. acuminatum</jats:italic> occurred at 25°C and pH 7. The results of this study can provide a theoretical basis for exploring the occurrence and epidemiology of apple black spot disease and strategies for its control.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187005","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The microbiota and metabolome dynamics and their interactions modulate solid-state fermentation process and enhance clean recycling of brewers’ spent grain","authors":"Yueqin Xie, Dongyun Liu, Yang Liu, Jiayong Tang, Hua Zhao, Xiaoling Chen, Gang Tian, Guangmang Liu, Jingyi Cai, Gang Jia","doi":"10.3389/fmicb.2024.1438878","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1438878","url":null,"abstract":"The massive yield of brewers’ spent grain (BSG) waste inevitably threaten environmental health. Here, solid-state fermentation (SSF) technology featuring multi-strain (MS) inoculation and high-throughput sequencing technology were employed to facilitate the sustainable and clean recycling of BSG waste while revealing the associated underlying microbiological and metabolic mechanisms. MS inoculation displayed a lower pH value (3.91 vs. 4.12) and neutral detergent fiber content (446.24 vs. 476.23 g/kg DM), a higher levels of lactic acid (86.64 vs. 33.07 g/kg DM), acetic acid (6.13 vs. 4.87 g/kg DM), propionic acid (2.78 vs. 2.18 g/kg DM) and crude protein (307.5 vs. 289.15 g/kg DM) than those in the control group. Moreover, MS inoculation inhibited the formation of non-protein-N and ammonia-N, and spoilage microorganism resuscitation, while enhanced substrate preservation. Microbiologically, during the SSF, the group treated with MS inoculation exhibited an increase in the relative abundance of <jats:italic>Leuconostoc</jats:italic> (0.58%∼6.60%), <jats:italic>Weissella</jats:italic> (6.22%∼15.42%), <jats:italic>Enterococcus</jats:italic> (3.15%∼9.08%), <jats:italic>Bacillus</jats:italic> (17.63%∼31.29%), <jats:italic>Lactobacillus</jats:italic> (12.89%∼8.29%), <jats:italic>Pseudoalteromonas</jats:italic> (12.87%∼16.29%), and a decrease in the relative abundance of <jats:italic>Acinetobacter</jats:italic> (0.79%∼0.02%) and <jats:italic>Enterobacteriaceae</jats:italic> (0.78%∼0.24%). Metabolically, starch and sucrose metabolism, arginine and proline metabolism, and phenylalanine metabolism significantly influenced the quality of extruded BSG fermented by MS during SSF. The examination of the correlation between the microbiota, metabolites, and fermentation parameters revealed that complex interactions between microbes and the environment factors impact metabolite production. Collectively, inoculating with MS improved fermentation quality and stability, facilitated the clean recycling of BSG, which is linked to complex interactions among microbes, the environment factors and metabolite production.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187011","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effects of supplemental feeding of Chinese herbal mixtures to perinatal sows on antioxidant capacity and gut microbiota of sows and their offspring piglets","authors":"Xuelei Duan, Xiao Wang, Zhaonian Li, Chenggong Liu, Yongzhan Bao, Wanyu Shi, Xinghua Zhao","doi":"10.3389/fmicb.2024.1459188","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1459188","url":null,"abstract":"The stress response of pig herds poses a significant challenge in the pig breeding industry, and investigating strategies to mitigate this stress is of paramount importance. The objective of this study was to investigate the impacts of supplemental feeding of Chinese herbal mixtures to perinatal sows on antioxidant capacity and gut microbiota of sows and their offspring piglets. A total of 60 healthy sows (Large white) at fourth parity were randomly assigned to five treatment groups. The control group received a basal diet, while the TRT1 group received a basal diet supplemented with 2kg/t Bazhen powder (BZP). The TRT2, TRT3, and TRT4 groups were fed a basal diet supplemented with 1kg/t, 2kg/t, and 3kg/t Qi-Zhu- Gui-Shao soothing liver and replenishing blood powder (QZGSP), respectively. The trial lasted for 5weeks, starting from day 100 of gestation until day 21 of delivery. The results demonstrated that the inclusion of 2kg/t and 3kg/t QZGSP significantly enhanced the antioxidant capacity of sows and their offspring piglets to different degrees, thereby effectively alleviating oxidative stress. Analysis of gut microbiota revealed that QZGSP influenced the composition of gut microbiota in both sows and their offspring piglets. Specifically, at the genus level, the abundance of &lt;jats:italic&gt;Christensenellaceae_R-7_group&lt;/jats:italic&gt; in the gut microbiota of sows in the TRT4 group was significantly lower than that in the TRT1 group (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05), while the relative abundance of Lactobacillus in the gut microbiota of sows in the TRT4 group was significantly higher than that in the CON group (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05). Furthermore, at the genus level, compared to those in the TRT1 group, piglets from the TRT4 group exhibited a significant decrease in relative abundance of &lt;jats:italic&gt;Escherichia-Shigella&lt;/jats:italic&gt;, Parabacteroides, and &lt;jats:italic&gt;Methanobrevivacter&lt;/jats:italic&gt; (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05), but a significant increase in &lt;jats:italic&gt;Phascolarctobacterium&lt;/jats:italic&gt; (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05). Spearman correlation analysis indicated a positive correlation between relative abundance of &lt;jats:italic&gt;Christensenellaceae_R-7_group&lt;/jats:italic&gt; and serum contents of T-AOC and CAT (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05), as well as a negative correlation with serum concentration MDA (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05). Additionally, there was a positive correlation between relative abundance &lt;jats:italic&gt;Lactobacillus&lt;/jats:italic&gt; and serum levels SOD (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.01) and GSH-Px (&lt;jats:italic&gt;p&lt;/jats:italic&gt; &amp;lt; 0.05). Therefore, supplementation of 3kg/t QZGSP in the periparturient sow diet significantly augmented antioxidant capacity in both sows and offspring piglets, while concurrently modulating the composition and structure of their intestinal microflora. The findings from this study demonstra","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142186981","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Whole-genome comparison using complete genomes from Campylobacter fetus strains revealed single nucleotide polymorphisms on non-genomic islands for subspecies differentiation","authors":"Chian Teng Ong, Patrick. J. Blackall, Gry B. Boe-Hansen, Sharon deWet, Ben J. Hayes, Lea Indjein, Victoria Korolik, Catherine Minchin, Loan To Nguyen, Yusralimuna Nordin, Hannah Siddle, Conny Turni, Bronwyn Venus, Mark E. Westman, Zhetao Zhang, Ala E. Tabor","doi":"10.3389/fmicb.2024.1452564","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1452564","url":null,"abstract":"IntroductionBovine Genital Campylobacteriosis (BGC), caused by &lt;jats:italic&gt;Campylobacter fetus&lt;/jats:italic&gt; subsp. venerealis, is a sexually transmitted bacterium that significantly impacts cattle reproductive performance. However, current detection methods lack consistency and reliability due to the close genetic similarity between &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. venerealis and &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. fetus. Therefore, this study aimed to utilize complete genome analysis to distinguish genetic features between &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. venerealis and other subspecies, thereby enhancing BGC detection for routine screening and epidemiological studies.Methods and resultsThis study reported the complete genomes of four &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. fetus and five &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. venerealis, sequenced using long-read sequencing technologies. Comparative whole-genome analyses (&lt;jats:italic&gt;n&lt;/jats:italic&gt; = 25) were conducted, incorporating an additional 16 complete &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; genomes from the NCBI database, to investigate the genomic differences between these two closely related &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subspecies. Pan-genomic analyses revealed a core genome consisting of 1,561 genes and an accessory pangenome of 1,064 genes between the two &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subspecies. However, no unique predicted genes were identified in either subspecies. Nonetheless, whole-genome single nucleotide polymorphisms (SNPs) analysis identified 289 SNPs unique to one or the &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subspecies. After the removal of SNPs located on putative genomic islands, recombination sites, and those causing synonymous amino acid changes, the remaining 184 SNPs were functionally annotated. Candidate SNPs that were annotated with the KEGG “Peptidoglycan Biosynthesis” pathway were recruited for further analysis due to their potential association with the glycine intolerance characteristic of &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subsp. venerealis and its biovar variant. Verification with 58 annotated &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; genomes, both complete and incomplete, from RefSeq, successfully classified these seven SNPs into two groups, aligning with their phenotypic identification as CFF (&lt;jats:italic&gt;Campylobacter fetus&lt;/jats:italic&gt; subsp. fetus) or CFV/CFVi (&lt;jats:italic&gt;Campylobacter fetus&lt;/jats:italic&gt; subsp. venerealis and its biovar variant). Furthermore, we demonstrated the application of mraY SNPs for detecting &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subspecies using a quantitative PCR assay.DiscussionOur results highlighted the high genetic stability of &lt;jats:italic&gt;C. fetus&lt;/jats:italic&gt; subspecies. Nevertheless, &lt;jats:italic&gt;Campylobacter fetus&lt;/jats:italic&gt; subsp. venerealis and its biovar variants encoded common SNPs in genes related to glycine intolerance, which differentiates them from &lt;jats:italic&gt;C.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142186983","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Trends in horizontal gene transfer research in Salmonella antimicrobial resistance: a bibliometric analysis","authors":"Jin Yan, Benoît Doublet, Agnès Wiedemann","doi":"10.3389/fmicb.2024.1439664","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1439664","url":null,"abstract":"Horizontal gene transfer (HGT) favors the acquisition and spread of antimicrobial resistance (AMR) genes in <jats:italic>Salmonella</jats:italic>, making it a major public health concern. We performed a bibliometric analysis to provide the current landscape of HGT in research on <jats:italic>Salmonella</jats:italic> AMR and identify emerging trends and potential research directions for the future. Data were collected from the Web of Science Core Collection and limited to articles and reviews published between 1999 and 2024 in English. VOSviewer 1.6.19 and CiteSpace 6.2.R1 software were used to conduct bibliometric analysis and visualize co-occurring keywords. A total of 1,467 publications were retrieved for analysis. American researchers contributed the most articles (<jats:italic>n</jats:italic> = 310). In the meantime, Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement have the highest citation/publication rate of 85.6. Recent studies have focused on the application of whole genome sequencing (WGS), <jats:italic>Salmonella</jats:italic> quinolone and colistin resistance, and the biocontrol of <jats:italic>Salmonella</jats:italic> AMR. These findings provide new insights into the role of HGT and help identify new targets for controlling the spread of AMR in <jats:italic>Salmonella</jats:italic> populations.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187010","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Antibiotic-induced dysbiosis in the SCIME™ recapitulates microbial community diversity and metabolites modulation of in vivo disease","authors":"Elena Dalle Vedove, Alessia Benvenga, Gianluca Nicolai, Marcella Massimini, Maria Veronica Giordano, Francesco Di Pierro, Benedetta Bachetti","doi":"10.3389/fmicb.2024.1455839","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1455839","url":null,"abstract":"Establishing the contextIntestinal dysbiosis is a significant concern among dog owners, and the gut health of pets is an emerging research field. In this context, the Simulator of the Canine Intestinal Microbial Ecosystem (SCIME™) was recently developed and validated with <jats:italic>in vivo</jats:italic> data.Stating the purpose/introducing the studyThe current study presents a further application of this model by using amoxicillin and clavulanic acid to induce dysbiosis, aiming to provoke changes in microbial community and metabolite production, which are well-known markers of the disease <jats:italic>in vivo</jats:italic>.Describing methodologyFollowing the induction of dysbiosis, prebiotic supplementation was tested to investigate the potential for microbiota recovery under different dietary conditions.Presenting the resultsThe results showed that antibiotic stimulation in the SCIME™ model can produce significant changes in microbial communities and metabolic activity, including a decrease in microbial richness, a reduction in propionic acid production, and alterations in microbial composition. Additionally, changes in ammonium and butyric acid levels induced by the tested diets were observed.Discussing the findingsThis alteration in microbial community and metabolites production mimicks <jats:italic>in vivo</jats:italic> canine dysbiosis patterns. A novel dynamic <jats:italic>in vitro</jats:italic> model simulating canine antibiotic-induced dysbiosis, capable of reproducing microbial and metabolic changes observed <jats:italic>in vivo</jats:italic>, has been developed and is suitable for testing the effects of nutritional changes.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187007","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Far-red light photoacclimation in a desert Chroococcidiopsis strain with a reduced FaRLiP gene cluster and expression of its chlorophyll f synthase in space-resistant isolates","authors":"Giorgia di Stefano, Mariano Battistuzzi, Nicoletta La Rocca, Vera M. Selinger, Dennis J. Nürnberg, Daniela Billi","doi":"10.3389/fmicb.2024.1450575","DOIUrl":"https://doi.org/10.3389/fmicb.2024.1450575","url":null,"abstract":"IntroductionSome cyanobacteria can use far-red light (FRL) to drive oxygenic photosynthesis, a phenomenon known as Far-Red Light Photoacclimation (FaRLiP). It can expand photosynthetically active radiation beyond the visible light (VL) range. Therefore, it holds promise for biotechnological applications and may prove useful for the future human exploration of outer space. Typically, FaRLiP relies on a cluster of ~20 genes, encoding paralogs of the standard photosynthetic machinery. One of them, a highly divergent D1 gene known as <jats:italic>chlF</jats:italic> (or <jats:italic>psbA4</jats:italic>), is the synthase responsible for the formation of the FRL-absorbing chlorophyll <jats:italic>f</jats:italic> (Chl <jats:italic>f</jats:italic>) that is essential for FaRLiP. The minimum gene set required for this phenotype is unclear. The desert cyanobacterium <jats:italic>Chroococcidiopsis</jats:italic> sp. CCMEE 010 is unusual in being capable of FaRLiP with a reduced gene cluster (15 genes), and it lacks most of the genes encoding FR-Photosystem I.MethodsHere we investigated whether the reduced gene cluster of <jats:italic>Chroococcidiopsis</jats:italic> sp. CCMEE 010 is transcriptionally regulated by FRL and characterized the spectral changes that occur during the FaRLiP response of <jats:italic>Chroococcidiopsis</jats:italic> sp. CCMEE 010. In addition, the heterologous expression of the Chl <jats:italic>f</jats:italic> synthase from CCMEE 010 was attempted in three closely related desert strains of <jats:italic>Chroococcidiopsis</jats:italic>.ResultsAll 15 genes of the FaRLiP cluster were preferentially expressed under FRL, accompanied by a progressive red-shift of the photosynthetic absorption spectrum. The Chl <jats:italic>f</jats:italic> synthase from CCMEE 010 was successfully expressed in two desert strains of <jats:italic>Chroococcidiopsis</jats:italic> and transformants could be selected in both VL and FRL.DiscussionIn <jats:italic>Chroococcidiopsis</jats:italic> sp. CCME 010, all the far-red genes of the unusually reduced FaRLiP cluster, are transcriptionally regulated by FRL and two closely related desert strains heterologously expressing the chlF010 gene could grow in FRL. Since the transformation hosts had been reported to survive outer space conditions, such an achievement lays the foundation toward novel cyanobacteria-based technologies to support human space exploration.","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":null,"pages":null},"PeriodicalIF":5.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142187009","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}