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Large attachment organelle mediates interaction between Nanobdellota archaeon YN1 and its host. 大型附着细胞器介导 Nanobdellota 古菌 YN1 与宿主之间的相互作用。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae154
Matthew D Johnson, Hiroyuki D Sakai, Bindusmita Paul, Takuro Nunoura, Somavally Dalvi, Manasi Mudaliyar, Doulin C Shepherd, Michiru Shimizu, Shubha Udupa, Moriya Ohkuma, Norio Kurosawa, Debnath Ghosal
{"title":"Large attachment organelle mediates interaction between Nanobdellota archaeon YN1 and its host.","authors":"Matthew D Johnson, Hiroyuki D Sakai, Bindusmita Paul, Takuro Nunoura, Somavally Dalvi, Manasi Mudaliyar, Doulin C Shepherd, Michiru Shimizu, Shubha Udupa, Moriya Ohkuma, Norio Kurosawa, Debnath Ghosal","doi":"10.1093/ismejo/wrae154","DOIUrl":"10.1093/ismejo/wrae154","url":null,"abstract":"<p><p>DPANN archaea are an enigmatic superphylum that are difficult to isolate and culture in the laboratory due to their specific culture conditions and apparent ectosymbiotic lifestyle. Here, we successfully isolated and cultivated a coculture system of a novel Nanobdellota archaeon YN1 and its host Sulfurisphaera ohwakuensis YN1HA. We characterized the coculture system by complementary methods, including metagenomics and metabolic pathway analysis, fluorescence microscopy, and high-resolution electron cryo-tomography (cryoET). We show that YN1 is deficient in essential metabolic processes and requires host resources to proliferate. CryoET imaging revealed an enormous attachment organelle present in the YN1 envelope that forms a direct interaction with the host cytoplasm, bridging the two cells. Together, our results unravel the molecular and structural basis of ectosymbiotic relationship between YN1 and YN1HA. This research broadens our understanding of DPANN biology and the versatile nature of their ectosymbiotic relationships.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11420986/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141903447","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Gut microbiota contribute to variations in honey bee foraging intensity. 肠道微生物群导致蜜蜂觅食强度的变化。
IF 11 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae030
Cassondra L Vernier, Lan Anh Nguyen, Tim Gernat, Amy Cash Ahmed, Zhenqing Chen, Gene E Robinson
{"title":"Gut microbiota contribute to variations in honey bee foraging intensity.","authors":"Cassondra L Vernier, Lan Anh Nguyen, Tim Gernat, Amy Cash Ahmed, Zhenqing Chen, Gene E Robinson","doi":"10.1093/ismejo/wrae030","DOIUrl":"10.1093/ismejo/wrae030","url":null,"abstract":"<p><p>Gut microbiomes are increasingly recognized for mediating diverse biological aspects of their hosts, including complex behavioral phenotypes. Although many studies have reported that experimental disruptions to the gut microbial community result in atypical host behavior, studies that address how gut microbes contribute to adaptive behavioral trait variation are rare. Eusocial insects represent a powerful model to test this, because of their simple gut microbiota and complex division of labor characterized by colony-level variation in behavioral phenotypes. Although previous studies report correlational differences in gut microbial community associated with division of labor, here, we provide evidence that gut microbes play a causal role in defining differences in foraging behavior between European honey bees (Apis mellifera). We found that gut microbial community structure differed between hive-based nurse bees and bees that leave the hive to forage for floral resources. These differences were associated with variation in the abundance of individual microbes, including Bifidobacterium asteroides, Bombilactobacillus mellis, and Lactobacillus melliventris. Manipulations of colony demography and individual foraging experience suggested that differences in gut microbial community composition were associated with task experience. Moreover, single-microbe inoculations with B. asteroides, B. mellis, and L. melliventris caused effects on foraging intensity. These results demonstrate that gut microbes contribute to division of labor in a social insect, and support a role of gut microbes in modulating host behavioral trait variation.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":11.0,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11008687/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139984419","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Active prophages in coral-associated Halomonas capable of lateral transduction. 珊瑚相关卤单胞菌中能进行横向转导的活性噬菌体。
IF 11 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae085
Ziyao Liu, Kaihao Tang, Yiqing Zhou, Tianlang Liu, Yunxue Guo, Duoting Wu, Xiaoxue Wang
{"title":"Active prophages in coral-associated Halomonas capable of lateral transduction.","authors":"Ziyao Liu, Kaihao Tang, Yiqing Zhou, Tianlang Liu, Yunxue Guo, Duoting Wu, Xiaoxue Wang","doi":"10.1093/ismejo/wrae085","DOIUrl":"10.1093/ismejo/wrae085","url":null,"abstract":"<p><p>Temperate phages can interact with bacterial hosts through lytic and lysogenic cycles via different mechanisms. Lysogeny has been identified as the major form of bacteria-phage interaction in the coral-associated microbiome. However, the lysogenic-to-lytic switch of temperate phages in ecologically important coral-associated bacteria and its ecological impact have not been extensively investigated. By studying the prophages in coral-associated Halomonas meridiana, we found that two prophages, Phm1 and Phm3, are inducible by the DNA-damaging agent mitomycin C and that Phm3 is spontaneously activated under normal cultivation conditions. Furthermore, Phm3 undergoes an atypical lytic pathway that can amplify and package adjacent host DNA, potentially resulting in lateral transduction. The induction of Phm3 triggered a process of cell lysis accompanied by the formation of outer membrane vesicles (OMVs) and Phm3 attached to OMVs. This unique cell-lysis process was controlled by a four-gene lytic module within Phm3. Further analysis of the Tara Ocean dataset revealed that Phm3 represents a new group of temperate phages that are widely distributed and transcriptionally active in the ocean. Therefore, the combination of lateral transduction mediated by temperate phages and OMV transmission offers a versatile strategy for host-phage coevolution in marine ecosystems.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":11.0,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11131426/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140917344","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Metabolic potential of Nitrososphaera-associated clades. 亚硝基磷藻相关支系的代谢潜力。
IF 11 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae086
Qicheng Bei, Thomas Reitz, Martin Schädler, Logan H Hodgskiss, Jingjing Peng, Beatrix Schnabel, François Buscot, Nico Eisenhauer, Christa Schleper, Anna Heintz-Buschart
{"title":"Metabolic potential of Nitrososphaera-associated clades.","authors":"Qicheng Bei, Thomas Reitz, Martin Schädler, Logan H Hodgskiss, Jingjing Peng, Beatrix Schnabel, François Buscot, Nico Eisenhauer, Christa Schleper, Anna Heintz-Buschart","doi":"10.1093/ismejo/wrae086","DOIUrl":"10.1093/ismejo/wrae086","url":null,"abstract":"<p><p>Soil ammonia-oxidizing archaea (AOA) play a crucial role in converting ammonia to nitrite, thereby mobilizing reactive nitrogen species into their soluble form, with a significant impact on nitrogen losses from terrestrial soils. Yet, our knowledge regarding their diversity and functions remains limited. In this study, we reconstructed 97 high-quality AOA metagenome-assembled genomes (MAGs) from 180 soil samples collected in Central Germany during 2014-2019 summers. These MAGs were affiliated with the order Nitrososphaerales and clustered into four family-level clades (NS-α/γ/δ/ε). Among these MAGs, 75 belonged to the most abundant but least understood δ-clade. Within the δ-clade, the amoA genes in three MAGs from neutral soils showed a 99.5% similarity to the fosmid clone 54d9, which has served as representative of the δ-clade for the past two decades since even today no cultivated representatives are available. Seventy-two MAGs constituted a distinct δ sub-clade, and their abundance and expression activity were more than twice that of other MAGs in slightly acidic soils. Unlike the less abundant clades (α, γ, and ε), the δ-MAGs possessed multiple highly expressed intracellular and extracellular carbohydrate-active enzymes responsible for carbohydrate binding (CBM32) and degradation (GH5), along with highly expressed genes involved in ammonia oxidation. Together, these results suggest metabolic versatility of uncultured soil AOA and a potential mixotrophic or chemolithoheterotrophic lifestyle among 54d9-like AOA.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":11.0,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11131427/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140923826","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Antibiotic-altered gut microbiota explain host memory plasticity and disrupt pace-of-life covariation for an aquatic snail. 抗生素改变的肠道微生物群解释了宿主记忆的可塑性,并破坏了一种水生蜗牛的生活步调共变性。
IF 11 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae078
Gabrielle L Davidson, Ignacio A Cienfuegos, Sarah Dalesman
{"title":"Antibiotic-altered gut microbiota explain host memory plasticity and disrupt pace-of-life covariation for an aquatic snail.","authors":"Gabrielle L Davidson, Ignacio A Cienfuegos, Sarah Dalesman","doi":"10.1093/ismejo/wrae078","DOIUrl":"10.1093/ismejo/wrae078","url":null,"abstract":"<p><p>There is mounting evidence that intestinal microbiota communities and their genes (the gut microbiome) influence how animals behave and interact with their environment, driving individual variation. Individual covariation in behavioural, physiological, and cognitive traits among individuals along a fast-slow continuum is thought to arise because these traits are linked as part of an adaptive pace-of-life strategy. Yet paradoxically, trait intercorrelation is absent or disrupted in some populations but not others. Here, we provide experimental evidence from aquatic pond snails (Lymnaea stagnalis) that environmental stressors and the gut microbiota explain host phenotypic plasticity and disrupted covariation among traits. Antibiotic exposure at varying levels of ecologically relevant concentrations had multiple effects starting with gut microbiota diversity, differential abundance, and inferred function. Memory declined in line with antibiotic concentrations that caused the most profound gut microbiota disruption, and although pace-of-life traits remained rigid, their covariation did not. Moreover, inferred microbial metabolic pathways with biologically relevant host functions explained individual and treatment variation in phenotypes. Together, our results point to the gut microbiome as a proximate mechanism influencing the emergence and maintenance of phenotypic variation within populations and highlights the need to decipher whether the gut microbiome's sensitivity to environmental pollution facilitates adaptive or maladaptive phenotypic plasticity.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":"18 1","pages":""},"PeriodicalIF":11.0,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11136587/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141176632","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Copper stress shapes the dynamic behavior of amoebae and their associated bacteria. 铜应力塑造了变形虫及其相关细菌的动态行为。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae100
Yijing Shi, Lu Ma, Min Zhou, Zhili He, Yuanchen Zhao, Junyue Hong, Xinyue Zou, Lin Zhang, Longfei Shu
{"title":"Copper stress shapes the dynamic behavior of amoebae and their associated bacteria.","authors":"Yijing Shi, Lu Ma, Min Zhou, Zhili He, Yuanchen Zhao, Junyue Hong, Xinyue Zou, Lin Zhang, Longfei Shu","doi":"10.1093/ismejo/wrae100","DOIUrl":"10.1093/ismejo/wrae100","url":null,"abstract":"<p><p>Amoeba-bacteria interactions are prevalent in both natural ecosystems and engineered environments. Amoebae, as essential consumers, hold significant ecological importance within ecosystems. Besides, they can establish stable symbiotic associations with bacteria. Copper plays a critical role in amoeba predation by either killing or restricting the growth of ingested bacteria in phagosomes. However, certain symbiotic bacteria have evolved mechanisms to persist within the phagosomal vacuole, evading antimicrobial defenses. Despite these insights, the impact of copper on the symbiotic relationships between amoebae and bacteria remains poorly understood. In this study, we investigated the effects of copper stress on amoebae and their symbiotic relationships with bacteria. Our findings revealed that elevated copper concentration adversely affected amoeba growth and altered cellular fate. Symbiont type significantly influenced the responses of the symbiotic relationships to copper stress. Beneficial symbionts maintained stability under copper stress, but parasitic symbionts exhibited enhanced colonization of amoebae. Furthermore, copper stress favored the transition of symbiotic relationships between amoebae and beneficial symbionts toward the host's benefit. Conversely, the pathogenic effects of parasitic symbionts on hosts were exacerbated under copper stress. This study sheds light on the intricate response mechanisms of soil amoebae and amoeba-bacteria symbiotic systems to copper stress, providing new insights into symbiotic dynamics under abiotic factors. Additionally, the results underscore the potential risks of copper accumulation in the environment for pathogen transmission and biosafety.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11197307/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141288892","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Evolutionary history of tyrosine-supplementing endosymbionts in pollen-feeding beetles. 食花粉甲虫体内补充酪氨酸的内共生体的进化史。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae080
Jürgen C Wierz, Matthew L Gimmel, Selina Huthmacher, Tobias Engl, Martin Kaltenpoth
{"title":"Evolutionary history of tyrosine-supplementing endosymbionts in pollen-feeding beetles.","authors":"Jürgen C Wierz, Matthew L Gimmel, Selina Huthmacher, Tobias Engl, Martin Kaltenpoth","doi":"10.1093/ismejo/wrae080","DOIUrl":"10.1093/ismejo/wrae080","url":null,"abstract":"<p><p>Many insects feeding on nutritionally challenging diets like plant sap, leaves, or wood engage in ancient associations with bacterial symbionts that supplement limiting nutrients or produce digestive or detoxifying enzymes. However, the distribution, function, and evolutionary dynamics of microbial symbionts in insects exploiting other plant tissues or relying on a predacious diet remain poorly understood. Here, we investigated the evolutionary history and function of the intracellular gamma-proteobacterial symbiont \"Candidatus Dasytiphilus stammeri\" in soft-winged flower beetles (Coleoptera, Melyridae, Dasytinae) that transition from saprophagy or carnivory to palynivory (pollen-feeding) between larval and adult stage. Reconstructing the distribution of the symbiont within the Dasytinae phylogeny unraveled not only a long-term coevolution, originating from a single acquisition event with subsequent host-symbiont codiversification, but also several independent symbiont losses. The analysis of 20 different symbiont genomes revealed that their genomes are severely eroded. However, the universally retained shikimate pathway indicates that the core metabolic contribution to their hosts is the provisioning of tyrosine for cuticle sclerotization and melanization. Despite the high degree of similarity in gene content and order across symbiont strains, the capacity to synthesize additional essential amino acids and vitamins and to recycle urea is retained in some but not all symbionts, suggesting ecological differences among host lineages. This report of tyrosine-provisioning symbionts in insects with saprophagous or carnivorous larvae and pollen-feeding adults expands our understanding of tyrosine supplementation as an important symbiont-provided benefit across a broad range of insects with diverse feeding ecologies.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11191362/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141307251","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Four years of climate warming reduced dark carbon fixation in coastal wetlands. 四年的气候变暖减少了沿海湿地的暗碳固定。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae138
Bolin Liu, Lin Qi, Yanling Zheng, Chao Zhang, Jie Zhou, Zhirui An, Bin Wang, Zhuke Lin, Cheng Yao, Yixuan Wang, Guoyu Yin, Hongpo Dong, Xiaofei Li, Xia Liang, Ping Han, Min Liu, Guosen Zhang, Ying Cui, Lijun Hou
{"title":"Four years of climate warming reduced dark carbon fixation in coastal wetlands.","authors":"Bolin Liu, Lin Qi, Yanling Zheng, Chao Zhang, Jie Zhou, Zhirui An, Bin Wang, Zhuke Lin, Cheng Yao, Yixuan Wang, Guoyu Yin, Hongpo Dong, Xiaofei Li, Xia Liang, Ping Han, Min Liu, Guosen Zhang, Ying Cui, Lijun Hou","doi":"10.1093/ismejo/wrae138","DOIUrl":"10.1093/ismejo/wrae138","url":null,"abstract":"<p><p>Dark carbon fixation (DCF), conducted mainly by chemoautotrophs, contributes greatly to primary production and the global carbon budget. Understanding the response of DCF process to climate warming in coastal wetlands is of great significance for model optimization and climate change prediction. Here, based on a 4-yr field warming experiment (average annual temperature increase of 1.5°C), DCF rates were observed to be significantly inhibited by warming in coastal wetlands (average annual DCF decline of 21.6%, and estimated annual loss of 0.08-1.5 Tg C yr-1 in global coastal marshes), thus causing a positive climate feedback. Under climate warming, chemoautotrophic microbial abundance and biodiversity, which were jointly affected by environmental changes such as soil organic carbon and water content, were recognized as significant drivers directly affecting DCF rates. Metagenomic analysis further revealed that climate warming may alter the pattern of DCF carbon sequestration pathways in coastal wetlands, increasing the relative importance of the 3-hydroxypropionate/4-hydroxybutyrate cycle, whereas the relative importance of the dominant chemoautotrophic carbon fixation pathways (Calvin-Benson-Bassham cycle and W-L pathway) may decrease due to warming stress. Collectively, our work uncovers the feedback mechanism of microbially mediated DCF to climate warming in coastal wetlands, and emphasizes a decrease in carbon sequestration through DCF activities in this globally important ecosystem under a warming climate.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11308615/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141762320","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Cell motility empowers bacterial contact weapons. 细胞运动增强了细菌接触武器的能力。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae141
Sean C Booth, Oliver J Meacock, Kevin R Foster
{"title":"Cell motility empowers bacterial contact weapons.","authors":"Sean C Booth, Oliver J Meacock, Kevin R Foster","doi":"10.1093/ismejo/wrae141","DOIUrl":"10.1093/ismejo/wrae141","url":null,"abstract":"<p><p>Many bacteria kill competitors using short-range weapons, such as the Type VI secretion system and contact dependent inhibition (CDI). Although these weapons can deliver powerful toxins, they rely on direct contact between attacker and target cells. We hypothesized that movement enables attackers to contact more targets and thus greatly empower their weapons. To explore this, we developed individual-based and continuum models of contact-dependent combat which show that motility greatly improves toxin delivery through two underlying processes. First, genotypic mixing increases the inter-strain contact probability of attacker and sensitive cells. Second, target switching ensures attackers constantly attack new cells, instead of repeatedly hitting the same cell. We test our predictions with the pathogen Pseudomonas aeruginosa, using genetically engineered strains to study the interaction between CDI and twitching motility. As predicted, we find that motility works synergistically with CDI, in some cases increasing weapon efficacy up to 10,000-fold compared with non-motile scenarios. Moreover, we demonstrate that both mixing processes occur using timelapse single-cell microscopy and quantify their relative importance by combining experimental data with our model. Our work shows how bacteria can combine cell movement with contact-based weapons to launch powerful attacks on their competitors.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11482024/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141793964","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Core microbiome-associated proteins associated with ulcerative colitis interact with cytokines for synergistic or antagonistic effects on gut bacteria. 与溃疡性结肠炎有关的核心微生物相关蛋白与细胞因子相互作用,对肠道细菌产生协同或拮抗作用。
IF 10.8 1区 环境科学与生态学
ISME Journal Pub Date : 2024-01-08 DOI: 10.1093/ismejo/wrae146
Ting Zhang, Hang Zhong, Lu Lin, Zhiyan Zhang, Kewen Xue, Feixiang He, Yingshu Luo, Panpan Wang, Zhi Zhao, Li Cong, Pengfei Pang, Xiaofeng Li, Hong Shan, Zhixiang Yan
{"title":"Core microbiome-associated proteins associated with ulcerative colitis interact with cytokines for synergistic or antagonistic effects on gut bacteria.","authors":"Ting Zhang, Hang Zhong, Lu Lin, Zhiyan Zhang, Kewen Xue, Feixiang He, Yingshu Luo, Panpan Wang, Zhi Zhao, Li Cong, Pengfei Pang, Xiaofeng Li, Hong Shan, Zhixiang Yan","doi":"10.1093/ismejo/wrae146","DOIUrl":"10.1093/ismejo/wrae146","url":null,"abstract":"<p><p>Inflammatory bowel disease (IBD), including Crohn's disease (CD) and ulcerative colitis (UC), is associated with a loss or an imbalance of host-microorganism interactions. However, such interactions at protein levels remain largely unknown. Here, we applied a depletion-assisted metaproteomics approach to obtain in-depth host-microbiome association networks of IBD, where the core host proteins shifted from those maintaining mucosal homeostasis in controls to those involved in inflammation, proteolysis, and intestinal barrier in IBD. Microbial nodes such as short-chain fatty-acid producer-related host-microbial crosstalk were lost or suppressed by inflammatory proteins in IBD. Guided by protein-protein association networks, we employed proteomics and lipidomics to investigate the effects of UC-related core proteins S100A8, S100A9, and cytokines (IL-1β, IL-6, and TNF-α) on gut bacteria. These proteins suppressed purine nucleotide biosynthesis in stool-derived in vitro communities, which was also reduced in IBD stool samples. Single species study revealed that S100A8, S100A9, and cytokines can synergistically or antagonistically alter gut bacteria intracellular and secreted proteome, with combined S100A8 and S100A9 potently inhibiting beneficial Bifidobacterium adolescentis. Furthermore, these inflammatory proteins only altered the extracellular but not intracellular proteins of Ruminococcus gnavus. Generally, S100A8 induced more significant bacterial proteome changes than S100A9, IL-1β, IL-6, and TNF-α but gut bacteria degrade significantly more S100A8 than S100A9 in the presence of both proteins. Among the investigated species, distinct lipid alterations were only observed in Bacteroides vulgatus treated with combined S100A8, S100A9, and cytokines. These results provided a valuable resource of inflammatory protein-centric host-microbial molecular interactions.</p>","PeriodicalId":50271,"journal":{"name":"ISME Journal","volume":" ","pages":""},"PeriodicalIF":10.8,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11360980/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141793966","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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