Environmental Microbiology Reports最新文献

{"title":"Embracing complexity in plant–microbiome systems","authors":"María Josefina Poupin,&nbsp;Bernardo González","doi":"10.1111/1758-2229.70000","DOIUrl":"10.1111/1758-2229.70000","url":null,"abstract":"<p>Despite recent advances in understanding the role of microorganisms in plant holobiont metabolism, physiology, and fitness, several relevant questions are yet to be answered, with implications for ecology, evolution, and sustainable agriculture. This article explores some of these questions and discusses emerging research areas in plant microbiomes. Firstly, it emphasizes the need to move beyond taxonomic characterization towards understanding microbial functions within plant ecosystems. Secondly, controlling methodological biases and enhancing OMICS technologies' standardization is imperative for a deeper comprehension of plant–microbiota interactions. Furthermore, while plant microbiota research has primarily centred on bacteria and fungi, other microbial players such as archaea, viruses, and microeukaryotes have been largely overlooked. Emerging evidence highlights their presence and potential roles, underscoring the need for thorough assessments. Future research should aim to elucidate the ecological microbial interactions, their impact on plant performance, and how the plant context shapes microbial community dynamics. Finally, a discussion is provided on how the multiple layers of abiotic and biotic factors influencing the spatiotemporal dynamics of plant–microbiome systems require in-depth attention. Examples illustrate how synthetic communities and computational methods such as machine learning and artificial intelligence provide alternatives to tackle these challenges and analyse the plant holobiont as a complex system.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.70000","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142071553","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}

{"title":"New bacterial strains for ibuprofen biodegradation: Drug removal, transformation, and potential catabolic genes","authors":"Alba Lara-Moreno,&nbsp;Maria Clara Costa,&nbsp;Ayleen Vargas-Villagomez,&nbsp;Jorge Dias Carlier","doi":"10.1111/1758-2229.13320","DOIUrl":"10.1111/1758-2229.13320","url":null,"abstract":"<p>Ibuprofen (IBU) is a significant contaminant frequently found in wastewater treatment plants due to its widespread use and limited removal during treatment processes. This leads to its discharge into the environment, causing considerable environmental concerns. The use of microorganisms has recently been recognized as a sustainable method for mitigating IBU contamination in wastewater. In this study, new bacteria capable of growing in a solid medium with IBU as the only carbon source and removing IBU from a liquid medium were isolated from environmental samples, including soil, marine, mine, and olive mill wastewater. Four bacterial strains, namely <i>Klebsiella pneumoniae</i> TIBU2.1, <i>Klebsiella variicola</i> LOIBU1.1, <i>Pseudomonas aeruginosa</i> LOIBU1.2, and <i>Mycolicibacterium aubagnense</i> HPB1.1, were identified through 16S rRNA gene sequencing. These strains demonstrated significant IBU removal efficiencies, ranging from 60 to 100% within 14 days, starting from an initial IBU concentration of 5 mg per litre. These bacteria have not been previously reported in the literature as IBU degraders, making this work a valuable contribution to further studies in the field of bioremediation in environments contaminated by IBU. Based on the IBU removal results, the most promising bacteria, <i>K. pneumoniae</i> TIBU2.1 and <i>M. aubagnense</i> HPB1.1, were selected for an in silico analysis to identify genes potentially involved in IBU biodegradation. Interestingly, in the tests with TIBU2.1, a peak of IBU transformation product(s) was detected by high-performance liquid chromatography, while in the tests with HPB1.1, it was not detected. The emerging peak was analysed by liquid chromatography–mass spectrometry, indicating the presence of possible conjugates between intermediates of IBU biodegradation. The proteins encoded on their whole-genome sequences were aligned with proteins involved in an IBU-degrading pathway reported in bacteria with respective catabolic genes. The analysis indicated that strain HPB1.1 possesses genes encoding proteins similar to most enzymes reported associated with the IBU metabolic pathways used as reference bacteria, while strain TIBU2.1 has genes encoding proteins similar to enzymes involved in both the upper and the lower part of that pathway. Notably, in the tests with the strain having more candidate genes encoding IBU-catabolic enzymes, no IBU transformation products were detected, while in the tests with the strain having fewer of these genes, detection occurred.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13320","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142071554","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}

{"title":"Surveillance of influenza A and B viruses from community and hospital wastewater treatment plants","authors":"Sneka Panneerselvam,&nbsp;Athira Manayan Parambil,&nbsp;Anup Jayaram,&nbsp;Prasad Varamballi,&nbsp;Chiranjay Mukhopadhyay,&nbsp;Anitha Jagadesh","doi":"10.1111/1758-2229.13317","DOIUrl":"10.1111/1758-2229.13317","url":null,"abstract":"<p>Influenza virus is a well-known pathogen that can cause epidemics and pandemics. Several surveillance methods are being followed to monitor the transmission patterns and spread of influenza in the community. Wastewater-based Epidemiology (WBE) can serve as an additional tool to detect the presence of influenza viruses. The current study primarily focuses on surveillance of Influenza A and Influenza B in wastewater treatment plant (WWTP) samples. A total of 100 wastewater samples were collected in July (<i>n</i> = 50) and August (<i>n</i> = 50) 2023 from four different WWTPs in Manipal and Udupi, district of Karnataka, India. The WWTP samples were processed and tested by Real-Time reverse transcriptase PCR (RT-PCR). The data generated was analysed in comparison with the clinical Influenza cases. Of the 100 samples, 18 (18%) tested positive for Influenza A virus and 2 (2%) tested positive for Influenza B virus, with a viral load ranging 1.4 x 10²–2.2 x 10³ gc/L for influenza A virus and 5.2 x 10³–7.7 x 10³gc/L for influenza B virus. On correlating the WWTP positivity with clinical case, it was found that influenza clinical cases and virus positivity in wastewater increased simultaneously, emphasizing WBE as a concurrent method for monitoring influenza virus activity.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13317","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142015797","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}

{"title":"The rootstock modifies the arbuscular mycorrhizal community of the root system, while the influence of the scion is limited in grapevines","authors":"Vincent Lailheugue,&nbsp;Romain Darriaut,&nbsp;Joseph Tran,&nbsp;Marine Morel,&nbsp;Elisa Marguerit,&nbsp;Virginie Lauvergeat","doi":"10.1111/1758-2229.13318","DOIUrl":"10.1111/1758-2229.13318","url":null,"abstract":"<p>Understanding the effects of grapevine rootstock and scion genotypes on arbuscular mycorrhizal fungi (AMF), as well as the roles of these fungi in plant development, could provide new avenues for adapting viticulture to climate change and reducing agrochemical inputs. The root colonization of 10 rootstock/scion combinations was studied using microscopy and metabarcoding approaches and linked to plant development phenotypes. The AMF communities were analysed using 18S rRNA gene sequencing. The 28S rRNA gene was also sequenced for some combinations to evaluate whether the method changed the results. Root colonization indexes measured by microscopy were not significantly different between genotypes. Metabarcoding analyses showed an effect of the rootstock genotype on the β-diversity and the enrichment of several taxa with both target genes, as well as an effect on the Chao1 index with the 18S rRNA gene. We confirm that rootstocks recruit different AMF communities when subjected to the same pedoclimatic conditions, while the scion has little or no effect. Significant correlations were observed between AMF community composition and grapevine development, suggesting that AMF have a positive effect on plant growth. Given these results, it will be important to define consensus methods for studying the role of these beneficial micro-organisms in vineyards.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13318","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142015798","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}

{"title":"Influence of growth medium on the species-specific interactions between algae and bacteria","authors":"Kamile Jonynaite,&nbsp;Arunas Stirke,&nbsp;Henri Gerken,&nbsp;Wolfgang Frey,&nbsp;Christian Gusbeth","doi":"10.1111/1758-2229.13321","DOIUrl":"10.1111/1758-2229.13321","url":null,"abstract":"<p>In this study, we investigated a species-specific algal–bacterial co-culture that has recently attracted worldwide scientific attention as a novel approach to enhancing algal growth rate. We report that the type of interaction between <i>Chlorella vulgaris</i> and bacteria of the genus <i>Delftia</i> is not solely determined by species specificity. Rather, it is a dynamic process of adaptation to the surrounding conditions, where one or the other microorganism dominates (temporally) depending on the growth conditions, in particular the medium. Under laboratory conditions, we found that <i>Delftia</i> sp. had a negative effect on <i>C. vulgaris</i> growth when co-cultured in a TAP medium. However, the co-culture of algae and bacteria under BG-11 and BG-11 + acetic acid resulted in an increase in algal concentration compared to algal cultures without bacteria under the same conditions. Additional chemical analysis revealed that the presence of different carbon (the main organic carbon source—acetic acid in TAP or BG-11 + acetic acid medium and inorganic carbon source—Na₂CO₃ in BG-11 or BG-11 + acetic acid medium) and nitrogen (NH₄Cl in TAP medium and NaNO₃ in BG-11 or BG-11 + acetic acid medium) species in the growth medium was one of the main factors driving the shift in interaction type.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13321","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142015796","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}

{"title":"Three-domain microbial communities in the gut of Pachnoda marginata larvae: A comparative study revealing opposing trends in gut compartments","authors":"Emine Gozde Ozbayram,&nbsp;Sabine Kleinsteuber,&nbsp;Heike Sträuber,&nbsp;Bruna Grosch Schroeder,&nbsp;Ulisses Nunes da Rocha,&nbsp;Felipe Borim Corrêa,&nbsp;Hauke Harms,&nbsp;Marcell Nikolausz","doi":"10.1111/1758-2229.13324","DOIUrl":"10.1111/1758-2229.13324","url":null,"abstract":"<p>This study aimed to examine the bacterial, methanogenic archaeal, and eukaryotic community structure in both the midgut and hindgut of <i>Pachnoda marginata</i> larvae using an amplicon sequencing approach. The goal was to investigate how various diets and the soil affect the composition of these three-domain microbial communities within the gut of insect larvae. The results indicated a notable variation in the microbial community composition among the gut compartments. The majority of the bacterial community in the hindgut was composed of Ruminococcaceae and Christensenellaceae. Nocardiaceae, Microbacteriaceae, and Lachnospiraceae were detected in midgut samples from larvae feeding on the leaf diet, whereas Sphingomonadaceae, Rhodobacteraceae, and Promicromonasporaceae dominated the bacterial community of midgut of larvae feeding on the straw diet. The diet was a significant factor that influenced the methanogenic archaeal and eukaryotic community patterns. The methanogenic communities in the two gut compartments significantly differed from each other, with the midgut communities being more similar to those in the soil. A higher diversity of methanogens was observed in the midgut samples of both diets compared to the hindgut. Overall, the microbiota of the hindgut was more host-specific, while the assembly of the midgut was more influenced by the environmental microorganisms.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13324","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141981332","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}

{"title":"Discovery of a new bacterium, Microbacterium betulae sp. nov., in birch wood associated with hypersensitivity pneumonitis in woodworkers","authors":"Mariola Paściak,&nbsp;Krzysztof J. Pawlik,&nbsp;Dariusz Martynowski,&nbsp;Łukasz Łaczmański,&nbsp;Jarosław Ciekot,&nbsp;Bogumiła Szponar,&nbsp;Angelina Wójcik-Fatla,&nbsp;Barbara Mackiewicz,&nbsp;Ewelina Farian,&nbsp;Grażyna Cholewa,&nbsp;Alicja Cholewa,&nbsp;Jacek Dutkiewicz","doi":"10.1111/1758-2229.13311","DOIUrl":"10.1111/1758-2229.13311","url":null,"abstract":"<p>A Gram-positive, aerobic, rod-shaped mesophilic bacterium was isolated from birch wood, referred to as the AB strain. Allergological tests suggest that this strain may cause allergic alveolitis in sawmill workers. Employing a polyphasic taxonomic approach, the AB strain's 16S rRNA gene sequence showed high similarity to <i>Microbacterium barkeri</i> and <i>M. oryzae</i>, with 97.25% and 96.91%, respectively, a finding supported by <i>rpoB</i> and <i>gyrB</i> sequence analysis. Further genome sequence comparison with the closely related <i>M. barkeri</i> type strain indicated a digital DNA–DNA hybridization value of 25.5% and an average nucleotide identity of 82.52%. The AB strain's cell wall peptidoglycan contains ornithine, and its polar lipids comprise diphosphatidylglycerol, phosphatidylglycerol, and unidentified glycolipids. Its major fatty acids include anteiso C15:0, anteiso C17:0, and iso C16:0, while MK-10 is its predominant respiratory quinone. Comprehensive analysis through 16S rRNA, whole-genome sequencing, phenotyping, chemotaxonomy, and MALDI-TOF MS profiling indicates that the AB strain represents a new species within the <i>Microbacterium</i> genus. It has been proposed to name this species <i>Microbacterium betulae</i> sp. nov., with AB^T (PCM 3040^T = CEST 30706^T) designated as the type strain.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13311","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141970166","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}

{"title":"In search of the pH limit of growth in halo-alkaliphilic cyanobacteria","authors":"Lianchun Yi,&nbsp;Ruchita Solanki,&nbsp;Marc Strous","doi":"10.1111/1758-2229.13323","DOIUrl":"10.1111/1758-2229.13323","url":null,"abstract":"<p>Cyanobacteria have many biotechnological applications. Increasing their cultivation pH can assist in capturing carbon dioxide and avoiding invasion by other organisms. However, alkaline media may have adverse effects on cyanobacteria, such as reducing the Carbon-Concentrating Mechanism's efficiency. Here, we cultivated two halo-alkaliphilic cyanobacteria consortia in chemostats at pH 10.2–11.4. One consortium was dominated by Ca. <i>Sodalinema alkaliphilum,</i> the other by a species of <i>Nodosilinea.</i> These two cyanobacteria dominate natural communities in Canadian and Asian alkaline soda lakes. We show that increasing the pH decreased biomass yield. This decrease was caused, in part, by a dramatic increase in carbon transfer to heterotrophs. At pH 11.4, cyanobacterial growth became limited by bicarbonate uptake, which was mainly ATP dependent. In parallel, the higher the pH, the more sensitive cyanobacteria became to light, resulting in photoinhibition and upregulation of DNA repair systems.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1758-2229.13323","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141915598","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}

{"title":"Wolbachia confers protection against the entomopathogenic fungus Metarhizium pingshaense in African Aedes aegypti","authors":"Etienne Bilgo,&nbsp;Maria Vittoria Mancini,&nbsp;Jacques E. Gnambani,&nbsp;Houeffa Adeline Tatiana Dokpomiwa,&nbsp;Shivan Murdochy,&nbsp;Brian Lovett,&nbsp;Raymond St. Leger,&nbsp;Steven P. Sinkins,&nbsp;Abdoulaye Diabate","doi":"10.1111/1758-2229.13316","DOIUrl":"10.1111/1758-2229.13316","url":null,"abstract":"<p>Symbiotic and pathogenic microorganisms such as bacteria and fungi represent promising alternatives to chemical insecticides to respond to the rapid increase of insecticide resistance and vector-borne disease outbreaks. This study investigated the interaction of two strains of <i>Wolbachia</i>, <i>w</i>AlbB and <i>w</i>Au, with the natural entomopathogenic fungi from Burkina Faso <i>Metarhizium pingshaense</i>, known to be lethal against <i>Anopheles</i> mosquitoes. In addition to showing the potential of <i>Metarhizium</i> against African <i>Aedes aegypti</i> wild-type populations, our study shows that the <i>w</i>AlbB and <i>w</i>Au provide a protective advantage against entomopathogenic fungal infections. Compared to controls, fungal-infected <i>w</i>Au and <i>w</i>AlbB-carrying mosquitoes showed higher longevity, without any significant impact on fecundity and fertility phenotypes. This study provides new insights into the complex multipartite interaction among the mosquito host, the <i>Wolbachia</i> endosymbiont and the entomopathogenic fungus that might be employed to control mosquito populations. Future research should investigate the fitness costs of <i>Wolbachia</i>, as well as its spread and prevalence within mosquito populations. Additionally, evaluating the impact of <i>Wolbachia</i> on interventions involving <i>Metarhizium pingshaense</i> through laboratory and semi-field population studies will provide valuable insights into the effectiveness of this combined approach.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11298244/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141887762","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}

{"title":"Population structure and pathogen interaction of Escherichia coli in freshwater: Implications of land-use for water quality and public health in Aotearoa New Zealand","authors":"Adrian L. Cookson,&nbsp;Meg Devane,&nbsp;Jonathan C. Marshall,&nbsp;Marie Moinet,&nbsp;Amanda Gardner,&nbsp;Rose M. Collis,&nbsp;Lynn Rogers,&nbsp;Patrick J. Biggs,&nbsp;Anthony B. Pita,&nbsp;Angela J. Cornelius,&nbsp;Iain Haysom,&nbsp;David T. S. Hayman,&nbsp;Brent J. Gilpin,&nbsp;Margaret Leonard","doi":"10.1111/1758-2229.13319","DOIUrl":"10.1111/1758-2229.13319","url":null,"abstract":"<p>Freshwater samples (<i>n</i> = 199) were obtained from 41 sites with contrasting land-uses (avian, low impact, dairy, urban, sheep and beef, and mixed sheep, beef and dairy) and the <i>E. coli</i> phylotype of 3980 isolates (20 per water sample enrichment) was determined. Eight phylotypes were identified with B1 (48.04%), B2 (14.87%) and A (14.79%) the most abundant. <i>Escherichia marmotae</i> (<i>n</i> = 22), and <i>Escherichia ruysiae</i> (<i>n</i> = 1), were rare (0.68%) suggesting that these environmental strains are unlikely to confound water quality assessments. Phylotypes A and B1 were overrepresented in dairy and urban sites (<i>p</i> &lt; 0.0001), whilst B2 were overrepresented in low impact sites (<i>p</i> &lt; 0.0001). Pathogens ((<i>Salmonella</i>, <i>Campylobacter</i>, <i>Cryptosporidium</i> or <i>Giardia</i>) and the presence of diarrhoeagenic <i>E. coli</i>-associated genes (<i>stx</i> and <i>eae</i>) were detected in 89.9% (179/199) samples, including 80.5% (33/41) of samples with putative non-recent faecal inputs. Quantitative PCR to detect microbial source tracking targets from human, ruminant and avian contamination were concordant with land-use type and <i>E. coli</i> phylotype abundance. This study demonstrated that a potential recreational health risk remains where pathogens occurred in water samples with low <i>E. coli</i> concentration, potential non-recent faecal sources, low impact sites and where human, ruminant and avian faecal sources were absent.</p>","PeriodicalId":163,"journal":{"name":"Environmental Microbiology Reports","volume":null,"pages":null},"PeriodicalIF":3.6,"publicationDate":"2024-08-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11297283/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141877996","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}