Environmental Microbiology Reports最新文献_第6页

Phylogenomic and Pangenomic Assessment of a Mediterranean Strain of Raphidiopsis raciborskii Extends Knowledge of the Global Distribution and Characteristics of a Potentially Toxigenic Cyanobacterium 地中海Raphidiopsis raciborskii菌株的系统基因组学和泛基因组学评估扩展了对潜在产毒蓝藻的全球分布和特征的了解

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-19 DOI: 10.1111/1758-2229.70098

Nico Salmaso, Leonardo Cerasino, Margherita Di Brizio, Massimo Pindo, Adriano Boscaini

{"title":"Phylogenomic and Pangenomic Assessment of a Mediterranean Strain of Raphidiopsis raciborskii Extends Knowledge of the Global Distribution and Characteristics of a Potentially Toxigenic Cyanobacterium","authors":"Nico Salmaso, Leonardo Cerasino, Margherita Di Brizio, Massimo Pindo, Adriano Boscaini","doi":"10.1111/1758-2229.70098","DOIUrl":"https://doi.org/10.1111/1758-2229.70098","url":null,"abstract":"Among potentially toxigenic cyanobacteria, Raphidiopsis raciborskii has attracted considerable attention due to its ability to produce massive blooms and its recent spread to temperate regions. In this work, we reported for the first time a taxonomic and functional assessment of a R. raciborskii strain isolated from the Mediterranean region, contributing to filling a gap in the global distribution and characteristics of this species. The strain LT_0923 was isolated from Lake Trasimeno, a large and shallow lake in central Italy. The phylogenomic analyses based on selected marker genes and the core genome obtained from a pangenomic analysis based on a selection of available high-quality genomes showed a strong correspondence of the Lake Trasimeno strain with the North American and, at a lower average nucleotide identity, with the South American genomes. The LT_0923 genome did not show the presence of gene clusters encoding legacy cyanotoxins or emerging toxigenic compounds. The open pangenome and the large fraction of distinct gene families identified in the cloud and partly shell genome, enriched with genes specialised in environmental-specific functions and defence mechanisms, are consistent with the development of Raphidiopsis in geographically distinct regions.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70098","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144091693","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

Phylogenomic and Pangenomic Assessment of a Mediterranean Strain of Raphidiopsis raciborskii Extends Knowledge of the Global Distribution and Characteristics of a Potentially Toxigenic Cyanobacterium 地中海Raphidiopsis raciborskii菌株的系统基因组学和泛基因组学评估扩展了对潜在产毒蓝藻的全球分布和特征的了解

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-19 DOI: 10.1111/1758-2229.70098

Nico Salmaso, Leonardo Cerasino, Margherita Di Brizio, Massimo Pindo, Adriano Boscaini

{"title":"Phylogenomic and Pangenomic Assessment of a Mediterranean Strain of Raphidiopsis raciborskii Extends Knowledge of the Global Distribution and Characteristics of a Potentially Toxigenic Cyanobacterium","authors":"Nico Salmaso, Leonardo Cerasino, Margherita Di Brizio, Massimo Pindo, Adriano Boscaini","doi":"10.1111/1758-2229.70098","DOIUrl":"https://doi.org/10.1111/1758-2229.70098","url":null,"abstract":"Among potentially toxigenic cyanobacteria, Raphidiopsis raciborskii has attracted considerable attention due to its ability to produce massive blooms and its recent spread to temperate regions. In this work, we reported for the first time a taxonomic and functional assessment of a R. raciborskii strain isolated from the Mediterranean region, contributing to filling a gap in the global distribution and characteristics of this species. The strain LT_0923 was isolated from Lake Trasimeno, a large and shallow lake in central Italy. The phylogenomic analyses based on selected marker genes and the core genome obtained from a pangenomic analysis based on a selection of available high-quality genomes showed a strong correspondence of the Lake Trasimeno strain with the North American and, at a lower average nucleotide identity, with the South American genomes. The LT_0923 genome did not show the presence of gene clusters encoding legacy cyanotoxins or emerging toxigenic compounds. The open pangenome and the large fraction of distinct gene families identified in the cloud and partly shell genome, enriched with genes specialised in environmental-specific functions and defence mechanisms, are consistent with the development of Raphidiopsis in geographically distinct regions.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70098","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144091272","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

Urbanisation and Lockdown Impact on Airborne Fungal Communities in Tropical Landscapes: A Comparative Study of Urban and Peri-Urban Environments

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-13 DOI: 10.1111/1758-2229.70078

Euler Gallego-Cartagena, Wendy Morgado-Gamero, Iuleder de Moya-Hernández, Carlos Díaz-Uribe, Alexander Parody, Héctor Morillas, Brayan Bayona-Pacheco, Gabrielle Pellegrin, Dayana Agudelo-Castañeda

{"title":"Urbanisation and Lockdown Impact on Airborne Fungal Communities in Tropical Landscapes: A Comparative Study of Urban and Peri-Urban Environments","authors":"Euler Gallego-Cartagena, Wendy Morgado-Gamero, Iuleder de Moya-Hernández, Carlos Díaz-Uribe, Alexander Parody, Héctor Morillas, Brayan Bayona-Pacheco, Gabrielle Pellegrin, Dayana Agudelo-Castañeda","doi":"10.1111/1758-2229.70078","DOIUrl":"https://doi.org/10.1111/1758-2229.70078","url":null,"abstract":"This study assessed the concentration, composition, and spatiotemporal distribution of airborne fungi in a metropolitan area, comparing urban and peri-urban sites across rainy and dry seasons. An 8-month fungal bioaerosol monitoring was conducted using a six-stage Andersen cascade impactor. Data analysis involved generalised linear regression models and multifactorial ANOVA to assess the relationships between meteorological conditions, sampling sites, campaigns, fungal concentrations, and impactor stages. Additionally, a Bayesian neural network was developed to predict bioaerosol dynamics based on the analysed variables. We identified 10 viable fungal species, including Aspergillus niger, Aspergillus nidulans, Aspergillus. fumigatus, Aspergillus terreus, Aspergillus flavus, Aspergillus versicolor, Penicillium spp. and Fusarium oxysporum. Notable differences in the aerodynamic sizes of fungal particles influenced their distribution and potential impact on the respiratory system. The Bayesian neural network successfully predicted fungal bioaerosol concentrations with an accuracy of 76.87%. Our findings reveal the significant role of environmental and human-related factors in shaping bioaerosol distribution in tropical urban contexts. This research provides essential insights into the behaviour of fungal bioaerosols, highlighting their relevance for public health, especially for immunocompromised populations, and their impact on local agriculture. Furthermore, it demonstrates the potential of fungal bioaerosols as bioindicators for environmental monitoring and predictive modelling.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70078","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143944471","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

Urbanisation and Lockdown Impact on Airborne Fungal Communities in Tropical Landscapes: A Comparative Study of Urban and Peri-Urban Environments

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-13 DOI: 10.1111/1758-2229.70078

Euler Gallego-Cartagena, Wendy Morgado-Gamero, Iuleder de Moya-Hernández, Carlos Díaz-Uribe, Alexander Parody, Héctor Morillas, Brayan Bayona-Pacheco, Gabrielle Pellegrin, Dayana Agudelo-Castañeda

{"title":"Urbanisation and Lockdown Impact on Airborne Fungal Communities in Tropical Landscapes: A Comparative Study of Urban and Peri-Urban Environments","authors":"Euler Gallego-Cartagena, Wendy Morgado-Gamero, Iuleder de Moya-Hernández, Carlos Díaz-Uribe, Alexander Parody, Héctor Morillas, Brayan Bayona-Pacheco, Gabrielle Pellegrin, Dayana Agudelo-Castañeda","doi":"10.1111/1758-2229.70078","DOIUrl":"https://doi.org/10.1111/1758-2229.70078","url":null,"abstract":"This study assessed the concentration, composition, and spatiotemporal distribution of airborne fungi in a metropolitan area, comparing urban and peri-urban sites across rainy and dry seasons. An 8-month fungal bioaerosol monitoring was conducted using a six-stage Andersen cascade impactor. Data analysis involved generalised linear regression models and multifactorial ANOVA to assess the relationships between meteorological conditions, sampling sites, campaigns, fungal concentrations, and impactor stages. Additionally, a Bayesian neural network was developed to predict bioaerosol dynamics based on the analysed variables. We identified 10 viable fungal species, including Aspergillus niger, Aspergillus nidulans, Aspergillus. fumigatus, Aspergillus terreus, Aspergillus flavus, Aspergillus versicolor, Penicillium spp. and Fusarium oxysporum. Notable differences in the aerodynamic sizes of fungal particles influenced their distribution and potential impact on the respiratory system. The Bayesian neural network successfully predicted fungal bioaerosol concentrations with an accuracy of 76.87%. Our findings reveal the significant role of environmental and human-related factors in shaping bioaerosol distribution in tropical urban contexts. This research provides essential insights into the behaviour of fungal bioaerosols, highlighting their relevance for public health, especially for immunocompromised populations, and their impact on local agriculture. Furthermore, it demonstrates the potential of fungal bioaerosols as bioindicators for environmental monitoring and predictive modelling.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70078","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143944404","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

Honey Bee Viromes From Varroa destructor-Resistant and Susceptible Colonies 抗瓦螨和易感蜂群的蜜蜂病毒

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-10 DOI: 10.1111/1758-2229.70097

Daniela Arredondo, Sofia Grecco, Yanina Panzera, Pablo Zunino, Karina Antúnez

{"title":"Honey Bee Viromes From Varroa destructor-Resistant and Susceptible Colonies","authors":"Daniela Arredondo, Sofia Grecco, Yanina Panzera, Pablo Zunino, Karina Antúnez","doi":"10.1111/1758-2229.70097","DOIUrl":"https://doi.org/10.1111/1758-2229.70097","url":null,"abstract":"Honey bees (Apis mellifera) play a crucial role in global food production through pollination services. However, their populations are threatened by various stressors, like the ectoparasitic mite Varroa destructor and associated viral pathogens. In this study, we aimed to characterise and compare the viral communities (viromes) in V. destructor-resistant and susceptible colonies using high-throughput sequencing. Our findings revealed differences in virome composition associated with the season and not with the resistance or susceptibility to V. destructor. Furthermore, we detected Apis mellifera filamentous virus (AmFV) and Lake Sinai virus (LSV) for the first time in Uruguay, and obtained the complete or partial genomes of both viruses, along with those of other previously described viruses, such as Acute bee paralysis virus (ABPV), Black queen cell virus (BQCV), Deformed wing virus (DWV), and Sacbrood virus (SBV). This study contributes to a deeper understanding of the virome dynamics in honey bees. It highlights the importance of this type of study for the early detection of new viral pathogens, which could help to understand the tripartite network involving V. destructor, honey bees, and viruses.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70097","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143930222","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

Honey Bee Viromes From Varroa destructor-Resistant and Susceptible Colonies 抗瓦螨和易感蜂群的蜜蜂病毒

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-10 DOI: 10.1111/1758-2229.70097

Daniela Arredondo, Sofia Grecco, Yanina Panzera, Pablo Zunino, Karina Antúnez

{"title":"Honey Bee Viromes From Varroa destructor-Resistant and Susceptible Colonies","authors":"Daniela Arredondo, Sofia Grecco, Yanina Panzera, Pablo Zunino, Karina Antúnez","doi":"10.1111/1758-2229.70097","DOIUrl":"https://doi.org/10.1111/1758-2229.70097","url":null,"abstract":"Honey bees (Apis mellifera) play a crucial role in global food production through pollination services. However, their populations are threatened by various stressors, like the ectoparasitic mite Varroa destructor and associated viral pathogens. In this study, we aimed to characterise and compare the viral communities (viromes) in V. destructor-resistant and susceptible colonies using high-throughput sequencing. Our findings revealed differences in virome composition associated with the season and not with the resistance or susceptibility to V. destructor. Furthermore, we detected Apis mellifera filamentous virus (AmFV) and Lake Sinai virus (LSV) for the first time in Uruguay, and obtained the complete or partial genomes of both viruses, along with those of other previously described viruses, such as Acute bee paralysis virus (ABPV), Black queen cell virus (BQCV), Deformed wing virus (DWV), and Sacbrood virus (SBV). This study contributes to a deeper understanding of the virome dynamics in honey bees. It highlights the importance of this type of study for the early detection of new viral pathogens, which could help to understand the tripartite network involving V. destructor, honey bees, and viruses.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70097","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143930221","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

Diel Bacterioplankton Community Dynamics Under Contrasting Light Regimes 不同光照条件下浮游细菌群落动态

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-08 DOI: 10.1111/1758-2229.70099

Sofia Papadopoulou, Annika Linkhorst, John Paul Balmonte, Bianka Csitári, Tamás Felföldi, Zsuzsanna Márton, Maliheh Mershad, Attila Szabó, Anders Torstensson, Stefan Bertilsson, Anna J. Székely

{"title":"Diel Bacterioplankton Community Dynamics Under Contrasting Light Regimes","authors":"Sofia Papadopoulou, Annika Linkhorst, John Paul Balmonte, Bianka Csitári, Tamás Felföldi, Zsuzsanna Márton, Maliheh Mershad, Attila Szabó, Anders Torstensson, Stefan Bertilsson, Anna J. Székely","doi":"10.1111/1758-2229.70099","DOIUrl":"https://doi.org/10.1111/1758-2229.70099","url":null,"abstract":"In the Boreal region, extreme seasonal variations in day–night length expose communities to dynamic light and temperature fluctuations. Freshwater bacterioplankton, representing key ecosystem components, faces climate-driven shifts; yet the fixed day-length patterns determined by latitude underscore the importance of studying light's role in predicting ecosystem responses. We investigated bacterial community composition in a brown peat bog and a clear oligotrophic lake across seasons with contrasting light regimes: the summer solstice (> 20 h of daylight) and the autumn equinox (equal day-night length). Using amplicon sequencing of 16S rRNA transcripts, alongside measurements of physicochemical parameters, organic matter characterisation and dissolved carbon dioxide and methane gas measurements, we found no diel cycling in the lake during either period or in the peat bog near the summer solstice. However, the structure of bacterial peat bog communities exhibited cyclic changes over diel cycles at the autumn equinox. Twelve amplicon sequence variants, including both phototrophic and heterotrophic taxa, increased in abundance at all measured morning sampling times. These findings provide valuable insights into the diel patterns of boreal lentic habitats and their bacterioplankton communities, highlighting the absence of diel fluctuations in some systems and seasons, while revealing cyclic dynamics in others, driven by conditionally rare taxa.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70099","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143926014","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

Diel Bacterioplankton Community Dynamics Under Contrasting Light Regimes 不同光照条件下浮游细菌群落动态

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-08 DOI: 10.1111/1758-2229.70099

Sofia Papadopoulou, Annika Linkhorst, John Paul Balmonte, Bianka Csitári, Tamás Felföldi, Zsuzsanna Márton, Maliheh Mershad, Attila Szabó, Anders Torstensson, Stefan Bertilsson, Anna J. Székely

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引用次数: 0

The Host Adaptation of Staphylococcus aureus to Farmed Ruminants in New Zealand, With Special Reference to Clonal Complex 1 新西兰养殖反刍动物对金黄色葡萄球菌宿主的适应性，特别参考克隆复合体1

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-06 DOI: 10.1111/1758-2229.70087

Jabin Nesaraj, Alex Grinberg, Richard Laven, Ryan Chanyi, Eric Altermann, Claudio Bandi, Patrick J. Biggs

{"title":"The Host Adaptation of Staphylococcus aureus to Farmed Ruminants in New Zealand, With Special Reference to Clonal Complex 1","authors":"Jabin Nesaraj, Alex Grinberg, Richard Laven, Ryan Chanyi, Eric Altermann, Claudio Bandi, Patrick J. Biggs","doi":"10.1111/1758-2229.70087","DOIUrl":"https://doi.org/10.1111/1758-2229.70087","url":null,"abstract":"Genetic features of host adaptation of S. aureus to ruminants have been extensively studied, but the extent to which this adaptation occurs in nature remains unknown. In New Zealand, clonal complex 1 (CC1) is among the most common lineages in humans and the dominant lineage in cattle, enabling between-, and within-CC genomic comparisons of epidemiologically cohesive samples of isolates. We assessed the following genomic benchmarks of host adaptation to ruminants in 277 S. aureus from cattle, small ruminants, humans, and pets: 1, phylogenetic clustering of ruminant strains; 2, abundance of homo-specific ruminant-adaptive factors, and 3, scarcity of heterospecific factors. The genomic comparisons were complemented by comparative analyses of the metabolism of carbon sources that abound in ruminant milk. We identified features fulfilling the three benchmarks in virtually all ruminant isolates, including CC1. Data suggest the virulomes adapt to the ruminant niche sensu lato accross CCs. CC1 forms a ruminant-adapted clade that appears better equipped to utilise milk carbon sources than human CC1. Strain flow across the human–ruminant interface appears to only occur occasionally. Taken together, the results suggest a specialisation, rather than mere adaptation, clarifying why zoonotic and zoo-anthroponotic S. aureus transmission between ruminants and humans has hardly ever been reported.","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":"17 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-05-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70087","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143914061","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 Host Adaptation of Staphylococcus aureus to Farmed Ruminants in New Zealand, With Special Reference to Clonal Complex 1 新西兰养殖反刍动物对金黄色葡萄球菌宿主的适应性，特别参考克隆复合体1

IF 3.6 4区生物学

Environmental Microbiology Reports Pub Date : 2025-05-06 DOI: 10.1111/1758-2229.70087

Jabin Nesaraj, Alex Grinberg, Richard Laven, Ryan Chanyi, Eric Altermann, Claudio Bandi, Patrick J. Biggs

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引用次数: 0