FEMS microbiology ecology最新文献_第3页

Microbial Ecology of Nitrate-, Selenate-, Selenite-, and Sulfate-Reducing Bacteria in a H2-Driven Bioprocess H2 驱动的生物过程中硝酸盐、硒、亚硒和硫酸盐还原菌的微生物生态学研究

IF 4.2 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-15 DOI: 10.1093/femsec/fiae125

Joshua P Boltz, Bruce E Rittmann

{"title":"Microbial Ecology of Nitrate-, Selenate-, Selenite-, and Sulfate-Reducing Bacteria in a H2-Driven Bioprocess","authors":"Joshua P Boltz, Bruce E Rittmann","doi":"10.1093/femsec/fiae125","DOIUrl":"https://doi.org/10.1093/femsec/fiae125","url":null,"abstract":"A hydrogen (H2)-based membrane biofilm reactor (H2-MBfR) can reduce electron acceptors nitrate (NO3−), selenate (SeO42−), selenite (HSeO3−), and sulfate (SO42−), which are in wastewaters from coal mining and combustion. This work presents a model to describe a H2-driven microbial community comprised of hydrogenotrophic and heterotrophic bacteria that respire NO3−, SeO42−, HSeO3−, and SO42−. The model provides mechanistic insights into the interactions between autotrophic and heterotrophic bacteria in a microbial community that is founded on H2-based autotrophy. Simulations were carried out for a range of relevant solids retention times (0.1 to 20 days) and with adequate H2-delivery capacity to reduce all electron acceptors. Bacterial activity began at an ∼0.6-day SRT, when hydrogenotrophic denitrifiers began to accumulate. Selenate-reducing and selenite-reducing hydrogenotrophs became established next, at SRTs of ∼1.2 and 2 days, respectively. Full nitrate, selenate, and selenite reductions were complete by an SRT of ∼5 days. Sulfate reduction began at an SRT of ∼10 days and was complete by ∼15 days. The desired goal of reducing nitrate, selenate, and selenite, but not sulfate, was achievable within an SRT window of 5 to 10 days. Autotrophic hydrogenotrophs dominated the active biomass, but non-active solids were a major portion of the solids, especially for an SRT ≥ 5 days.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2024-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142254440","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Phylogenetic diversity of Rhizobium species recovered from nodules of common beans (Phaseolus vulgaris L.) in fields in Uganda: R. phaseoli, R. etli, and R. hidalgonense 从乌干达田间普通豆（Phaseolus vulgaris L.）结核中发现的根瘤菌物种的系统发育多样性：R.phaseoli、R.etli 和 R. hidalgonense

IF 4.2 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae120

Aregu Amsalu Aserse, Jean Nimusiima, John Baptist Tumuhairwe, Markku Yli-Halla, Kristina Lindström

{"title":"Phylogenetic diversity of Rhizobium species recovered from nodules of common beans (Phaseolus vulgaris L.) in fields in Uganda: R. phaseoli, R. etli, and R. hidalgonense","authors":"Aregu Amsalu Aserse, Jean Nimusiima, John Baptist Tumuhairwe, Markku Yli-Halla, Kristina Lindström","doi":"10.1093/femsec/fiae120","DOIUrl":"https://doi.org/10.1093/femsec/fiae120","url":null,"abstract":"A total of 75 bacterial isolates were obtained from nodules of beans cultivated across 10 sites in six agro-ecological zones in Uganda. Using recA gene sequence analysis, 66 isolates were identified as members of the genus Rhizobium, while nine were related to Agrobacterium species. In the recA gene tree, most Rhizobium strains were classified into five recognized species. Phylogenetic analysis based on six concatenated sequences (recA-rpoB-dnaK-glnII-gyrB-atpD) placed 32 representative strains into five distinct Rhizobium species, consistent with the species groups observed in the recA gene tree: R. phaseoli, R. etli, R. hidalgonense, R. ecuadorense, and R. sophoriradicis, with the first three being the predominant. The rhizobial strains grouped into three nodC subclades within the symbiovar phaseoli clade, encompassing strains from distinct phylogenetic groups. This pattern reflects the conservation of symbiotic genes, likely acquired through horizontal gene transfer among diverse rhizobial species. The 32 representative strains formed symbiotic relationships with host beans, while the Agrobacterium strains did not form nodules and lacked symbiotic genes. Multivariate analysis revealed that species distribution was influenced by the environmental factors of the sampling sites, emphasizing the need to consider these factors in future effectiveness studies to identify effective nitrogen-fixing strains for specific locations.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142254441","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Dissecting negative effects of two root-associated bacteria on the growth of an invasive weed. 剖析两种根相关细菌对入侵杂草生长的负面影响。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae116

Xiangyu Liu, Hocelayne Paulino Fernandes, Adam Ossowicki, Klaas Vrieling, Suzanne T E Lommen, Thiemo Martijn Bezemer

{"title":"Dissecting negative effects of two root-associated bacteria on the growth of an invasive weed.","authors":"Xiangyu Liu, Hocelayne Paulino Fernandes, Adam Ossowicki, Klaas Vrieling, Suzanne T E Lommen, Thiemo Martijn Bezemer","doi":"10.1093/femsec/fiae116","DOIUrl":"10.1093/femsec/fiae116","url":null,"abstract":"Plant-associated microorganisms can negatively influence plant growth, which makes them potential biocontrol agents for weeds. Two Gammaproteobacteria, Serratia plymuthica and Pseudomonas brassicacearum, isolated from roots of Jacobaea vulgaris, an invasive weed, negatively affect its root growth. We examined whether the effects of S. plymuthica and P. brassicacearum on J. vulgaris through root inoculation are concentration-dependent and investigated if these effects were mediated by metabolites in bacterial suspensions. We also tested whether the two bacteria negatively affected seed germination and seedling growth through volatile emissions. Lastly, we investigated the host specificity of these two bacteria on nine other plant species. Both bacteria significantly reduced J. vulgaris root growth after root inoculation, with S. plymuthica showing a concentration-dependent pattern in vitro. The cell-free supernatants of both bacteria did not affect J. vulgaris root growth. Both bacteria inhibited J. vulgaris seed germination and seedling growth via volatiles, displaying distinct volatile profiles. However, these negative effects were not specific to J. vulgaris. Both bacteria negatively affect J. vulgaris through root inoculation via the activity of bacterial cells, while also producing volatiles that hinder J. vulgaris germination and seedling growth. However, their negative effects extend to other plant species, limiting their potential for weed control.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142035611","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microbiota and the volatile profile of avian nests are associated with each other and with the intensity of parasitism. 鸟巢的微生物群和挥发性特征与寄生虫寄生强度相互关联。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae106

Mónica Mazorra-Alonso, Juan Manuel Peralta-Sánchez, Philipp Heeb, Staffan Jacob, Manuel Martin-Vivaldi, Manuel Martínez-Bueno, Rafael Núñez-Gómez, Oriol Sacristán-Soriano, Juan José Soler

{"title":"Microbiota and the volatile profile of avian nests are associated with each other and with the intensity of parasitism.","authors":"Mónica Mazorra-Alonso, Juan Manuel Peralta-Sánchez, Philipp Heeb, Staffan Jacob, Manuel Martin-Vivaldi, Manuel Martínez-Bueno, Rafael Núñez-Gómez, Oriol Sacristán-Soriano, Juan José Soler","doi":"10.1093/femsec/fiae106","DOIUrl":"10.1093/femsec/fiae106","url":null,"abstract":"Bacteria have been suggested as being partially responsible for avian nest odours and, thus, volatiles from their metabolism could influence the intensity of selection pressures due to parasites detecting olfactory cues of their hosts. Here, we tested this hypothesis by exploring intraspecific and interspecific variability in microbial environments, volatile profiles and intensity of ectoparasitism by Carnus hemapterus in the nests of 10 avian species. As expected, we found that (i) alpha and beta diversity of microbial and volatile profiles were associated with each other. Moreover, (ii) alpha diversity of bacteria and volatiles of the nest environment, as well as some particular bacteria and volatiles, was associated with the intensity of parasitism at early and late stages of the nestling period. Finally, (iii) alpha diversity of the nest microbiota, as well as some particular bacteria and volatiles, was correlated with fledging success. When considering them together, the results support the expected links between the microbial environment and nest odours in different bird species, and between the microbial environment and both ectoparasitism intensity and fledging success. Relative abundances of particular volatiles and bacteria predicted ectoparasitism and/or fledging success. Future research should prioritise experimental approaches directed to determine the role of bacteria and volatiles in the outcomes of host-ectoparasite interactions.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11407443/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141758031","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Caterpillar-parasitoid interactions: species-specific influences on host microbiome composition. 毛虫与寄生虫的相互作用：物种对宿主微生物组组成的特定影响。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae115

Gabriele Gloder, Mitchel E Bourne, Maximilien A C Cuny, Christel Verreth, Sam Crauwels, Marcel Dicke, Erik H Poelman, Hans Jacquemyn, Bart Lievens

{"title":"Caterpillar-parasitoid interactions: species-specific influences on host microbiome composition.","authors":"Gabriele Gloder, Mitchel E Bourne, Maximilien A C Cuny, Christel Verreth, Sam Crauwels, Marcel Dicke, Erik H Poelman, Hans Jacquemyn, Bart Lievens","doi":"10.1093/femsec/fiae115","DOIUrl":"10.1093/femsec/fiae115","url":null,"abstract":"There is increasing evidence that host-parasitoid interactions can have a pronounced impact on the microbiome of host insects, but it is unclear to what extent this is caused by the host and/or parasitoid. Here, we compared the internal and external microbiome of caterpillars of Pieris brassicae and Pieris rapae parasitized by Cotesia glomerata or Cotesia rubecula with nonparasitized caterpillars. Additionally, we investigated the internal and external microbiome of the parasitoid larvae. Both internal and external bacterial densities were significantly higher for P. brassicae than P. rapae, while no differences were found between parasitized and nonparasitized caterpillars. In contrast, parasitism significantly affected the composition of the internal and external microbiome of the caterpillars and the parasitoid larvae, but the effects were dependent on the host and parasitoid species. Irrespective of host species, a Wolbachia species was exclusively found inside caterpillars parasitized by C. glomerata, as well as in the corresponding developing parasitoid larvae. Similarly, a Nosema species was abundantly present inside parasitized caterpillars and the parasitoid larvae, but this was independent of the host and the parasitoid species. We conclude that parasitism has pronounced effects on host microbiomes, but the effects depend on both the host and parasitoid species.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11407444/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142008550","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Taxonomic and functional metagenomic assessment of a Dolichospermum bloom in a large and deep lake south of the Alps. 对阿尔卑斯山以南一个大型深水湖泊中的藻华进行分类和功能元基因组评估。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae117

Nico Salmaso, Leonardo Cerasino, Massimo Pindo, Adriano Boscaini

{"title":"Taxonomic and functional metagenomic assessment of a Dolichospermum bloom in a large and deep lake south of the Alps.","authors":"Nico Salmaso, Leonardo Cerasino, Massimo Pindo, Adriano Boscaini","doi":"10.1093/femsec/fiae117","DOIUrl":"10.1093/femsec/fiae117","url":null,"abstract":"Untargeted genetic approaches can be used to explore the high metabolic versatility of cyanobacteria. In this context, a comprehensive metagenomic shotgun analysis was performed on a population of Dolichospermum lemmermannii collected during a surface bloom in Lake Garda in the summer of 2020. Using a phylogenomic approach, the almost complete metagenome-assembled genome obtained from the analysis allowed to clarify the taxonomic position of the species within the genus Dolichospermum and contributed to frame the taxonomy of this genus within the ADA group (Anabaena/Dolichospermum/Aphanizomenon). In addition to common functional traits represented in the central metabolism of photosynthetic cyanobacteria, the genome annotation uncovered some distinctive and adaptive traits that helped define the factors that promote and maintain bloom-forming heterocytous nitrogen-fixing Nostocales in oligotrophic lakes. In addition, genetic clusters were identified that potentially encode several secondary metabolites that were previously unknown in the populations evolving in the southern Alpine Lake district. These included geosmin, anabaenopetins, and other bioactive compounds. The results expanded the knowledge of the distinctive competitive traits that drive algal blooms and provided guidance for more targeted analyses of cyanobacterial metabolites with implications for human health and water resource use.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11412076/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142125260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Unde venis? Bacterial resistance from environmental reservoirs to lettuce: tracking microbiome and resistome over a growth period. Unde venis?从环境储库到莴苣的细菌抗药性：跟踪生长期的微生物组和抗药性组。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-14 DOI: 10.1093/femsec/fiae118

Maria-Theresia Gekenidis, Vera Vollenweider, Aoife Joyce, Sinéad Murphy, Jean-Claude Walser, Feng Ju, Helmut Bürgmann, Jörg Hummerjohann, Fiona Walsh, David Drissner

{"title":"Unde venis? Bacterial resistance from environmental reservoirs to lettuce: tracking microbiome and resistome over a growth period.","authors":"Maria-Theresia Gekenidis, Vera Vollenweider, Aoife Joyce, Sinéad Murphy, Jean-Claude Walser, Feng Ju, Helmut Bürgmann, Jörg Hummerjohann, Fiona Walsh, David Drissner","doi":"10.1093/femsec/fiae118","DOIUrl":"10.1093/femsec/fiae118","url":null,"abstract":"Fresh produce is suggested to contribute highly to shaping the gut resistome. We investigated the impact of pig manure and irrigation water quality on microbiome and resistome of field-grown lettuce over an entire growth period. Lettuce was grown under four regimes, combining soil amendment with manure (with/without) with sprinkler irrigation using river water with an upstream wastewater input, disinfected by UV (with/without). Lettuce leaves, soil, and water samples were collected weekly and analysed by bacterial cultivation, 16S rRNA gene amplicon sequencing, and shotgun metagenomics from total community DNA. Cultivation yielded only few clinically relevant antibiotic-resistant bacteria (ARB), but numbers of ARB on lettuce increased over time, while no treatment-dependent changes were observed. Microbiome analysis confirmed a temporal trend. Antibiotic resistance genes (ARGs) unique to lettuce and water included multidrug and β-lactam ARGs, whereas lettuce and soil uniquely shared mainly glycopeptide and tetracycline ARGs. Surface water carried clinically relevant ARB (e.g. ESBL-producing Escherichia coli or Serratia fonticola) without affecting the overall lettuce resistome significantly. Resistance markers including biocide and metal resistance were increased in lettuce grown with manure, especially young lettuce (increased soil contact). Overall, while all investigated environments had their share as sources of the lettuce resistome, manure was the main source especially on young plants. We therefore suggest minimizing soil-vegetable contact to minimize resistance markers on fresh produce.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11418651/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142105967","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Time of day of infection shapes development of a eukaryotic algal-Nucleocytoviricota virocell 感染时间影响真核藻类-核细胞病毒细胞的发育

IF 4.2 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-13 DOI: 10.1093/femsec/fiae123

Emily E Chase, Alexander R Truchon, Brooke A Creasey, Steven W Wilhelm

{"title":"Time of day of infection shapes development of a eukaryotic algal-Nucleocytoviricota virocell","authors":"Emily E Chase, Alexander R Truchon, Brooke A Creasey, Steven W Wilhelm","doi":"10.1093/femsec/fiae123","DOIUrl":"https://doi.org/10.1093/femsec/fiae123","url":null,"abstract":"Aureococcus anophagefferens forms a model host-virus system with the “giant virus” Kratosvirus quantuckense. Studies to define its ribocell (uninfected) and virocell (virus-infected) forms are needed as these states co-occur during algal blooms. Previously, a link between light-derived energy, virus particle production and virocell formation was noted. We explored how the time of day (morning, midday, or late day) of virus-host contact shaped virocell ontogeny. In parallel, we explored the dependence on light-derived energy in this mixotrophic plankter by inhibiting photosystem II, testing the role of heterotrophic energy in infection dynamics. Using flow cytometry and photochemical assessments, we examined the physiology of infected cells and controls, and estimated virus particle production. We observed differences between ribocell and virocell response to treatments, including reductions in virus particle production during reduced light (i.e., duration) and PSII inhibition (i.e., “forced heterotrophy”) . This work demonstrates the importance of light in shaping the fate of infected cells and provides insight into factors that constrain in situ blooms. Most significantly, we show that time of the solar day when a virus and host come into contact influences viral particle production, and therefore bloom dynamics; a factor that needs to be considered in bloom modeling work.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142254443","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Landscape of the Metaplasmidome of Deep-Sea Hydrothermal Vents located at Arctic Mid-Ocean Ridges in the Norwegian-Greenland Sea - Ecological Insights from Comparative Analysis of Plasmid Identification Tools 挪威-格陵兰海北极洋中脊深海热液喷口的元质粒群景观--从质粒鉴定工具的比较分析中获得生态学启示

IF 4.2 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-12 DOI: 10.1093/femsec/fiae124

Karol Ciuchcinski, Runar Stokke, Ida Helene Steen, Lukasz Dziewit

{"title":"Landscape of the Metaplasmidome of Deep-Sea Hydrothermal Vents located at Arctic Mid-Ocean Ridges in the Norwegian-Greenland Sea - Ecological Insights from Comparative Analysis of Plasmid Identification Tools","authors":"Karol Ciuchcinski, Runar Stokke, Ida Helene Steen, Lukasz Dziewit","doi":"10.1093/femsec/fiae124","DOIUrl":"https://doi.org/10.1093/femsec/fiae124","url":null,"abstract":"Plasmids are one of the key drivers of microbial adaptation and evolution. However, their diversity and role in adaptation, especially in extreme environments, remains largely unexplored. In this study, we aimed to identify, characterize and compare plasmid sequences originating from samples collected from deep-sea hydrothermal vents located in Arctic Mid-Ocean Ridges. To achieve this, we employed, and benchmarked three recently developed plasmid identification tools - PlasX, GeNomad and PLASMe – on metagenomic data from this unique ecosystem. To date, this is the first direct comparison of these computational methods in the context of data from extreme environments. Upon recovery of plasmid contigs, we performed a multi-approach analysis, focusing on identifying taxonomic and functional biases within datasets originating from each tool. Next, we implemented a majority voting system to identify high-confidence plasmid contigs, enhancing the reliability of our findings. By analyzing the consensus plasmid sequences, we gained insights into their diversity, ecological roles, and adaptive significance. Within the high-confidence sequences, we identified a high abundance of Pseudomonadota and Campylobacterota, as well as multiple toxin-antitoxin systems. Our findings ensure a deeper understanding of how plasmids contribute to shaping microbial communities living under extreme conditions of hydrothermal vents, potentially uncovering novel adaptive mechanisms.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142254444","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Deciphering Root-associated Microbial Communities in Asymptomatic Oil Palm Seedlings Exposed to Ganoderma boninense: New Insight into Disease Tolerance of Oil Palms. 解密暴露于灵芝的无症状油棕幼苗的根相关微生物群落：油棕耐病性的新见解。

IF 4.2 3区生物学

FEMS microbiology ecology Pub Date : 2024-09-11 DOI: 10.1093/femsec/fiae122

Lisim Ho,Chengyu Lai,Leona D J Daim,Normahnani M Noh,Yunci Yap,Julia Ibrahim,Cheekeng Teh

{"title":"Deciphering Root-associated Microbial Communities in Asymptomatic Oil Palm Seedlings Exposed to Ganoderma boninense: New Insight into Disease Tolerance of Oil Palms.","authors":"Lisim Ho,Chengyu Lai,Leona D J Daim,Normahnani M Noh,Yunci Yap,Julia Ibrahim,Cheekeng Teh","doi":"10.1093/femsec/fiae122","DOIUrl":"https://doi.org/10.1093/femsec/fiae122","url":null,"abstract":"Understanding the microbial communities in asymptomatic oil palm seedlings is crucial for developing disease-suppressive microbiota against basal stem rot (BSR) in oil palm. In this study, we compared the microbial communities in bulk soil, rhizosphere, and endosphere of control, asymptomatic, and symptomatic seedlings following inoculation with Ganoderma boninense. Our findings revealed significant shifts in microbial structure and interactions, particularly in asymptomatic seedlings. Both Actinobacteriota and Ascomycota were notably enriched in these samples, with Actinobacteriota identified as keystone taxa. Long-read shotgun metagenomics demonstrated that 67.4% of enriched Actinobacteriota taxa were unique to asymptomatic seedlings. Similarly, Ascomycota members showed significant enrichment, suggesting their potential role in BSR suppression. The consistent identification of these phyla across various analyses underscores their importance in disease resistance. This is the first report detailing the shifts in prokaryotic and fungal communities in asymptomatic and symptomatic seedlings, offering insights into potential disease-suppressive taxa across three compartments: bulk soil, rhizosphere, and endosphere of oil palm seedlings.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142212938","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0