Environmental Microbiology Reports最新文献

Bacterial 16S Ribosomal Gene Fingerprints as a Tool to Diagnose and Mitigate Fish Larvae Gut Dysbiosis 细菌16S核糖体基因指纹图谱作为诊断和缓解鱼类幼鱼肠道生态失调的工具。

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-10-03 DOI: 10.1111/1758-2229.70187

Babak Najafpour, Adelino V. M. Canario, Deborah M. Power

{"title":"Bacterial 16S Ribosomal Gene Fingerprints as a Tool to Diagnose and Mitigate Fish Larvae Gut Dysbiosis","authors":"Babak Najafpour, Adelino V. M. Canario, Deborah M. Power","doi":"10.1111/1758-2229.70187","DOIUrl":"10.1111/1758-2229.70187","url":null,"abstract":"Dysbiosis is associated with shifts in the diversity or relative abundance of beneficial versus harmful bacteria, leading to health issues in organisms. This study investigated gut bacterial dysbiosis associated with larval quality using 16S rRNA gene sequencing. The gut microbiome of gilthead sea bream and European sea bass, key commercial species and vertebrate models, was examined in high- and low-quality larvae batches from several European hatcheries. Larval quality, hatchery site and species influenced bacterial diversity in the gut. Individuals from larval batches that performed well had higher microbial diversity in the gut and individuals from batches that performed poorly had a gut microbiota dominated by pathogenic Vibrio (e.g., V. aestuarianus and V. cortegadensis). The bacterial dysbiosis index revealed a notable predominance of Fusobacteriota and Firmicutes phyla, Thermoanaerobacteria class and Lactobacillaceae, Moritellaceae, Clostridiaceae, Thiotrichaceae and Shewanellaceae families in good-quality larvae batches, and a prevalence of the Proteobacteria phylum, Gammaproteobacteria class, Sphingomonadaceae and Vibrionaceae families in the gut of individuals from poor-quality larvae batches. A positive dysbiosis index (cutoff > 0.4) was associated with a high risk of decreased larval performance and quality. Additionally, the abundance of Clostridium_sensu_stricto_15, Shewanellaceae_unclassified, Cetobacterium, Psychrilyobacter, Moritella and Latilactobacillus genera in the gut of good production batches, and the Vibrio genus in the gut of poor production batches, identified these genus as potential markers for diagnosing and mitigating bacterial dysbiosis in fish and potentially other vertebrates.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-10-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70187","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145211230","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

The Endosymbiont Consortia of Two Cixiidae Planthoppers Reveal an Ancient Symbiosis With 'Candidatus Mirabilia Symbiotica'. 两种慈竹科飞虱的内共生体揭示了与“Mirabilia Symbiotica候选者”的古老共生关系。

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-10-01 DOI: 10.1111/1758-2229.70204

Jessica Dittmer, Mathieu Mahillon, Christophe Debonneville, Franco Faoro, Xavier Foissac, Olivier Schumpp, Bessem Chouaia

{"title":"The Endosymbiont Consortia of Two Cixiidae Planthoppers Reveal an Ancient Symbiosis With 'Candidatus Mirabilia Symbiotica'.","authors":"Jessica Dittmer, Mathieu Mahillon, Christophe Debonneville, Franco Faoro, Xavier Foissac, Olivier Schumpp, Bessem Chouaia","doi":"10.1111/1758-2229.70204","DOIUrl":"https://doi.org/10.1111/1758-2229.70204","url":null,"abstract":"Insects of the suborder Auchenorrhyncha harbour multiple ancient endosymbionts that jointly produce essential nutrients lacking from the host's diet. Compared to cicadas, leafhoppers, and spittlebugs, our understanding of the multipartite symbioses among planthoppers, an extremely diverse insect group, is still very limited. Herein, we assembled the genomes of the primary endosymbionts of two planthopper species from the Cixiidae family, Cixius wagneri and Pentastiridius leporinus, both vectors of phytopathogenic Arsenophonus in Europe. Each species harboured a different tripartite endosymbiont consortium: while P. leporinus carried the well-known combination 'Candidatus Karelsulcia muelleri', 'Ca. Vidania fulgoroideae', and 'Ca. Purcelliella pentastirinorum', C. wagneri harboured a yet unknown Gammaproteobacterium in addition to Karelsulcia and Vidania. This new endosymbiont 'Ca. Mirabilia symbiotica' is likely much older than Purcelliella, considering its extremely reduced genome. In both species, Karelsulcia and Vidania jointly produce the 10 essential amino acids, whereas Purcelliella and Mirabilia provide the non-essential amino acid cysteine and slightly different gene sets encoding B vitamins. Our findings confirm the functional stability of multipartite planthopper endosymbiont consortia despite changing partners over evolutionary time. In addition, we describe a new Rickettsia strain from the Meloidae group colonising P. leporinus, highlighting the diversity of bacterial endosymbionts associated with planthoppers.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":"e70204"},"PeriodicalIF":2.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145249034","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

Salinity Negatively Impacts Protistan and Fungal Community Stability and Shapes Assembly Processes in Freshwater Ecosystems. 盐度对淡水生态系统原生生物和真菌群落稳定性和形态组装过程有负面影响。

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-10-01 DOI: 10.1111/1758-2229.70209

Ivana Stanić, Andrea Čačković, Sandi Orlić

{"title":"Salinity Negatively Impacts Protistan and Fungal Community Stability and Shapes Assembly Processes in Freshwater Ecosystems.","authors":"Ivana Stanić, Andrea Čačković, Sandi Orlić","doi":"10.1111/1758-2229.70209","DOIUrl":"10.1111/1758-2229.70209","url":null,"abstract":"In freshwater lakes, protistan and fungal communities play crucial roles in the microbial loop as bacterivorous consumers, facilitating nutrient cycling and maintaining microbial balance by controlling bacterial populations. However, understanding of their functional roles and community assembly across varying environmental gradients in different lake ecosystems remains limited. In this study, we used 18S rRNA gene amplicon sequencing and multivariate statistical analyses to investigate the spatiotemporal and biogeographical patterns of protistan and fungal communities in the water column of two different lake systems in Croatia. Our results revealed that these complex communities were dominated by Chlorophyta, Ciliophora and Cryptophyta as well as Ascomycota, Basidiomycota and Chytridiomycota. Null model analysis showed that stochastic processes dominated most of the prokaryotic and fungal communities across sampled lakes and fractions, with seasonally salty Lake Crniševo having more prominent variable selection due to the presence of a salinity gradient. Also, it was discovered that salinity had a negative influence on the stability of both protistan and fungal communities in Lake Crniševo, acting as a major selective pressure. These results provide valuable insights into the community stability and assembly mechanisms of protistan and fungal communities in lake ecosystems and their responses to environmental changes.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":"e70209"},"PeriodicalIF":2.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12497889/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145231208","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

Molecular Characterisation of Escherichia coli Collected From an Urban River in Johannesburg, South Africa 南非约翰内斯堡城市河流中大肠杆菌的分子特征分析。

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-10-01 DOI: 10.1111/1758-2229.70203

Luyanda Mkhize, Musa Marimani, Sanelisiwe Thinasonke Duze

{"title":"Molecular Characterisation of Escherichia coli Collected From an Urban River in Johannesburg, South Africa","authors":"Luyanda Mkhize, Musa Marimani, Sanelisiwe Thinasonke Duze","doi":"10.1111/1758-2229.70203","DOIUrl":"10.1111/1758-2229.70203","url":null,"abstract":"Diarrheal diseases remain a significant public health concern worldwide, particularly among children under five. Surveillance is primarily focused on clinical samples. However, environmental reservoirs, particularly rivers, are increasingly recognised as critical sources of enteric pathogens. This study used whole-genome sequencing (WGS) to characterise Escherichia coli isolates from the Jukskei River in Johannesburg, South Africa. Twenty-seven E. coli isolates were subjected to pathotype-specific PCR and WGS for characterisation. Diarrheagenic E. coli accounted for 44% (12/27) of the isolates, including enterotoxigenic, atypical enteropathogenic and a hybrid enterotoxigenic-enteroinvasive E. coli. Most isolates (63%, 17/27) were O16:H48, and fimbrial typing revealed nine Fimtypes, with fimH27 being the most prevalent at 56% (15/27). Resistance to ciprofloxacin, sulfamethoxazole and azithromycin was noted in 11% (3/27) of the isolates. The most prevalent virulence-associated genes were fimH, csgA, gad, terC, ompT, iss and yehA-D, associated with adhesion, invasion and stress response. Phylogroup A dominated the collection (70%, 19/27), and phylogenetic analysis revealed diversity among the river isolates. Some genetic links between human and livestock strains were noted, suggesting cross-environmental transmission. These findings highlight the Jukskei River as a potential vehicle for E. coli transmission and underscore the importance of integrated surveillance across the environmental, human and animal sectors.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70203","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145204977","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

Soil Allies: Exploring the Combined Potential of Folsomia candida and Trichoderma spp. Against Fusarium oxysporum 土壤盟友：探讨假丝酵母菌和木霉对尖孢镰刀菌的联合拮抗潜力。

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-29 DOI: 10.1111/1758-2229.70202

Juan Carlos Santos-Barbosa, Jorge Molina, María X. Rodríguez-Bocanegra

{"title":"Soil Allies: Exploring the Combined Potential of Folsomia candida and Trichoderma spp. Against Fusarium oxysporum","authors":"Juan Carlos Santos-Barbosa, Jorge Molina, María X. Rodríguez-Bocanegra","doi":"10.1111/1758-2229.70202","DOIUrl":"10.1111/1758-2229.70202","url":null,"abstract":"Fusarium oxysporum is a widespread phytopathogenic fungus that affects a variety of crops worldwide. This study evaluated the independent effects of three species of Trichoderma (T. harzianum, T. viride, and T. longibrachiatum) and the springtail Folsomia candida on the suppression of F. oxysporum under laboratory conditions. We conducted separate in vitro assays to assess fungal antagonism and feeding preferences of the springtail. The results demonstrated that all Trichoderma species significantly inhibited F. oxysporum growth, whilst F. candida showed a marked preference for consuming F. oxysporum mycelium over that of the tested Trichoderma species. These findings suggest that both organisms may contribute to the reduction of F. oxysporum independently. This preliminary work lays the foundation for future studies investigating potential interactions and combined biocontrol applications under more complex and ecological settings.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12480435/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145190578","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

Combined DNA/RNA Amplicon Sequencing and Metatranscriptomics Reveals Microbial-Driven Nutrient Transformations and Core Taxa in Agriculturally Impacted Sediments 结合DNA/RNA扩增子测序和超转录组学揭示微生物驱动的营养转化和农业影响沉积物的核心分类群

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-27 DOI: 10.1111/1758-2229.70205

Nicholas W. Falk, Ian G. Droppo, Ken G. Drouillard, Christopher G. Weisener

{"title":"Combined DNA/RNA Amplicon Sequencing and Metatranscriptomics Reveals Microbial-Driven Nutrient Transformations and Core Taxa in Agriculturally Impacted Sediments","authors":"Nicholas W. Falk, Ian G. Droppo, Ken G. Drouillard, Christopher G. Weisener","doi":"10.1111/1758-2229.70205","DOIUrl":"https://doi.org/10.1111/1758-2229.70205","url":null,"abstract":"Chronic non-point nitrogen (N) and phosphorus (P) loads reshape sediment microbial biogeochemical cycling in headwater systems, altering ecosystem function. This study integrates DNA and RNA amplicon sequencing with metatranscriptomics to examine microbial taxonomic and functional responses to nutrient inputs in lower Great Lakes watersheds, focusing on N, P, and sulphur (S) metabolism. RNA-based taxa showed a stronger correlation with metabolic functions than DNA-based taxa, highlighting RNA-based approaches as valuable tools for assessing active microbial responses to nutrients. Site-specific analyses revealed distinct microbial metabolic profiles linked to watershed fertiliser sources and seasonal variation. Inorganic fertiliser inputs were associated with tightly coupled N reduction and sulphur oxidation, driven by differential expression of dissimilatory nitrate reduction to ammonia (DNRA) and sox genes. In contrast, a manure-amended site exhibited elevated nitrosative stress and sulphur assimilation pathways, consistent with detection of ammonia-oxidising genera. The low-impact reference site demonstrated intermediate functional turnover, enhanced nitrogen fixation, and the highest microbial diversity, suggesting greater ecosystem resilience. Seasonally, functional turnover increased in fall, with fewer shared core taxa across sites compared to summer. These findings highlight the impact of chronic nutrient enrichment on site-specific microbial adaptations and underscore the importance of temporal dynamics in assessing freshwater sediment microbial communities.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70205","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146997","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

Combined DNA/RNA Amplicon Sequencing and Metatranscriptomics Reveals Microbial-Driven Nutrient Transformations and Core Taxa in Agriculturally Impacted Sediments 结合DNA/RNA扩增子测序和超转录组学揭示微生物驱动的营养转化和农业影响沉积物的核心分类群

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-27 DOI: 10.1111/1758-2229.70205

Nicholas W. Falk, Ian G. Droppo, Ken G. Drouillard, Christopher G. Weisener

{"title":"Combined DNA/RNA Amplicon Sequencing and Metatranscriptomics Reveals Microbial-Driven Nutrient Transformations and Core Taxa in Agriculturally Impacted Sediments","authors":"Nicholas W. Falk, Ian G. Droppo, Ken G. Drouillard, Christopher G. Weisener","doi":"10.1111/1758-2229.70205","DOIUrl":"https://doi.org/10.1111/1758-2229.70205","url":null,"abstract":"Chronic non-point nitrogen (N) and phosphorus (P) loads reshape sediment microbial biogeochemical cycling in headwater systems, altering ecosystem function. This study integrates DNA and RNA amplicon sequencing with metatranscriptomics to examine microbial taxonomic and functional responses to nutrient inputs in lower Great Lakes watersheds, focusing on N, P, and sulphur (S) metabolism. RNA-based taxa showed a stronger correlation with metabolic functions than DNA-based taxa, highlighting RNA-based approaches as valuable tools for assessing active microbial responses to nutrients. Site-specific analyses revealed distinct microbial metabolic profiles linked to watershed fertiliser sources and seasonal variation. Inorganic fertiliser inputs were associated with tightly coupled N reduction and sulphur oxidation, driven by differential expression of dissimilatory nitrate reduction to ammonia (DNRA) and sox genes. In contrast, a manure-amended site exhibited elevated nitrosative stress and sulphur assimilation pathways, consistent with detection of ammonia-oxidising genera. The low-impact reference site demonstrated intermediate functional turnover, enhanced nitrogen fixation, and the highest microbial diversity, suggesting greater ecosystem resilience. Seasonally, functional turnover increased in fall, with fewer shared core taxa across sites compared to summer. These findings highlight the impact of chronic nutrient enrichment on site-specific microbial adaptations and underscore the importance of temporal dynamics in assessing freshwater sediment microbial communities.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70205","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146633","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

Insights Into the Mondia Whitei Microbiome Across Geographic Regions in Eastern Africa 东非不同地理区域的白月牙菌群研究

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-27 DOI: 10.1111/1758-2229.70200

Expedito Olimi, Regina Wuggenig, Carolina Lobato, Samuel Bickel, Peter Kusstatscher, Wisnu Adi Wicaksono, Angelika Battisti, Danny Coyne, John Adriko, Tomislav Cernava, Gabriele Berg

{"title":"Insights Into the Mondia Whitei Microbiome Across Geographic Regions in Eastern Africa","authors":"Expedito Olimi, Regina Wuggenig, Carolina Lobato, Samuel Bickel, Peter Kusstatscher, Wisnu Adi Wicaksono, Angelika Battisti, Danny Coyne, John Adriko, Tomislav Cernava, Gabriele Berg","doi":"10.1111/1758-2229.70200","DOIUrl":"https://doi.org/10.1111/1758-2229.70200","url":null,"abstract":"Mondia whitei (Hook.f.) Skeels is an essential medicinal plant in African societies. However, little is known about the plant's metabolome and its microbiota. Here, we examine the root endosphere and rhizosphere from five locations in Uganda using high-throughput amplicon sequencing, qPCR and multifactorial modelling. Root metabolite profiles obtained with GC/LC–MS were comprehensively catalogued through a deep literature survey using 516 sources. Plant roots were inhabited by microbiota ranging between 50 and 500 ASVs, also with an average microbial abundance of 1011 gene (16SrRNA or ITS) copies per gram. The microbiota was dominated by Gammaproteobacteria, Alphaproteobacteria and Actinobacteria, as well as Sordariomycetes, Dothideomycota, Eurotiomycetes and Agaricomycetes. We identified that a major portion of the microbiome (i.e., 45%–70%) was potentially transferred from the rhizosphere into the roots. Therefore, the root microbiota showed a strong location-specific microbial and metabolite fingerprint. Fraxin, 4-methoxy-benzaldehyde, monobutyl phthalate, 2-hydroxy-4-methoxybenzaldehyde, and scopoletin were among the 86 compounds found in plant roots that were strongly correlated with the root microbiota. Moreover, the identified plant compounds have been shown to mediate microbe, plant, and animal interactions. Our research advances the research frontiers of endangered African herbal plants, through providing insights into the microbiome and potential compounds of M. whitei, a medicinal plant used in sub-Saharan Africa.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70200","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146609","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

Insights Into the Mondia Whitei Microbiome Across Geographic Regions in Eastern Africa 东非不同地理区域的白月牙菌群研究

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-27 DOI: 10.1111/1758-2229.70200

Expedito Olimi, Regina Wuggenig, Carolina Lobato, Samuel Bickel, Peter Kusstatscher, Wisnu Adi Wicaksono, Angelika Battisti, Danny Coyne, John Adriko, Tomislav Cernava, Gabriele Berg

{"title":"Insights Into the Mondia Whitei Microbiome Across Geographic Regions in Eastern Africa","authors":"Expedito Olimi, Regina Wuggenig, Carolina Lobato, Samuel Bickel, Peter Kusstatscher, Wisnu Adi Wicaksono, Angelika Battisti, Danny Coyne, John Adriko, Tomislav Cernava, Gabriele Berg","doi":"10.1111/1758-2229.70200","DOIUrl":"https://doi.org/10.1111/1758-2229.70200","url":null,"abstract":"Mondia whitei (Hook.f.) Skeels is an essential medicinal plant in African societies. However, little is known about the plant's metabolome and its microbiota. Here, we examine the root endosphere and rhizosphere from five locations in Uganda using high-throughput amplicon sequencing, qPCR and multifactorial modelling. Root metabolite profiles obtained with GC/LC–MS were comprehensively catalogued through a deep literature survey using 516 sources. Plant roots were inhabited by microbiota ranging between 50 and 500 ASVs, also with an average microbial abundance of 1011 gene (16SrRNA or ITS) copies per gram. The microbiota was dominated by Gammaproteobacteria, Alphaproteobacteria and Actinobacteria, as well as Sordariomycetes, Dothideomycota, Eurotiomycetes and Agaricomycetes. We identified that a major portion of the microbiome (i.e., 45%–70%) was potentially transferred from the rhizosphere into the roots. Therefore, the root microbiota showed a strong location-specific microbial and metabolite fingerprint. Fraxin, 4-methoxy-benzaldehyde, monobutyl phthalate, 2-hydroxy-4-methoxybenzaldehyde, and scopoletin were among the 86 compounds found in plant roots that were strongly correlated with the root microbiota. Moreover, the identified plant compounds have been shown to mediate microbe, plant, and animal interactions. Our research advances the research frontiers of endangered African herbal plants, through providing insights into the microbiome and potential compounds of M. whitei, a medicinal plant used in sub-Saharan Africa.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70200","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146996","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

Genomic Analysis and Virulence Features of Vibrio cholerae Non-O1/Non-O139 Harbouring CARB-Type β-Lactamases From Freshwater Bodies, Argentina 阿根廷淡水水体中携带carb型β-内酰胺酶的霍乱弧菌Non-O1/Non-O139的基因组分析和毒力特征

IF 2.7 4区生物学

Environmental Microbiology Reports Pub Date : 2025-09-25 DOI: 10.1111/1758-2229.70181

Daiana Guevara Núñez, Fabrizzio N. Morandini, Geehan Suleyman, Kyle Crooker, Jagjeet Kaur, Gina Maki, José L. Bocco, Darío Fernández Do Porto, Markus J. Zervos, Claudia Sola, H. Alex Saka

{"title":"Genomic Analysis and Virulence Features of Vibrio cholerae Non-O1/Non-O139 Harbouring CARB-Type β-Lactamases From Freshwater Bodies, Argentina","authors":"Daiana Guevara Núñez, Fabrizzio N. Morandini, Geehan Suleyman, Kyle Crooker, Jagjeet Kaur, Gina Maki, José L. Bocco, Darío Fernández Do Porto, Markus J. Zervos, Claudia Sola, H. Alex Saka","doi":"10.1111/1758-2229.70181","DOIUrl":"https://doi.org/10.1111/1758-2229.70181","url":null,"abstract":"Vibrio cholerae is a globally distributed, free-living bacterium in aquatic ecosystems. While non-O1/non-O139 serogroups typically do not produce cholera toxin, they have the potential to cause diarrhoea. These strains may act as reservoirs of antibiotic resistance in rivers, lakes and oceans. Understanding their genetic resistance and virulence can shed light on their role in spreading antimicrobial resistance and their pathogenicity. In this study, we characterised 60 V. cholerae non-O1/non-O139 strains from 16 freshwater bodies located throughout the Province of Córdoba, Argentina. We found none of the strains carried cholera toxin and identified ampicillin resistance as the most prevalent phenotype. Whole genome sequencing revealed that all ampicillin-resistant strains (n = 10) carried CARB β-lactamases, leading to the identification of new CARB variants (CARB-59 to CARB-62) likely associated with the V. cholerae superintegron. Two strains were notably related and exhibited enhanced virulence due to an unusual genetic arrangement of the VPI-1 pathogenicity island, encoding both the toxin co-regulated pilus and a type VI secretion system cluster subclass i5, commonly found in non-cholera Vibrio species. These findings provide significant insights into the genetic diversity and virulent potential of ampicillin-resistant environmental V. cholerae non-O1/non-O139 and enhance our understanding of the evolution of CARB β-lactamases within the species.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 5","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70181","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145146743","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