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Dynamics of diazotroph particle colonization in the Arctic Ocean. 重氮营养体微粒在北冰洋的定植动力学。
The ISME Journal Pub Date : 2025-05-20 DOI: 10.1093/ismejo/wraf098
Arthur Coët,Cécile Carpaneto Bastos,Mathias Lechelon,Ruth Hawley,Oliver Flanagan,Maeve C Lohan,Pierre Ronceray,Joanne E Hopkins,Claire Mahaffey,Mar Benavides
{"title":"Dynamics of diazotroph particle colonization in the Arctic Ocean.","authors":"Arthur Coët,Cécile Carpaneto Bastos,Mathias Lechelon,Ruth Hawley,Oliver Flanagan,Maeve C Lohan,Pierre Ronceray,Joanne E Hopkins,Claire Mahaffey,Mar Benavides","doi":"10.1093/ismejo/wraf098","DOIUrl":"https://doi.org/10.1093/ismejo/wraf098","url":null,"abstract":"Global warming is causing sea ice retreat and intensifying algal blooms in the Arctic Ocean, in turn increasing nitrogen limitation in surface waters. Dinitrogen fixation by diazotrophic microorganisms, usually favored in low reactive nitrogen systems, may become an increasingly important source of nitrogen in the Arctic. Previous studies have shown that non-cyanobacterial diazotrophs are dominant in the Arctic Ocean. Lacking a photosynthetic apparatus, non-cyanobacterial diazotrophs may utilize organic particles as carbon- and energy-rich niches. However, cyanobacterial diazotrophs may also form particles by aggregation. To further understand diazotroph-particle associations, here we study the chemotactic behavior and colonization dynamics of diazotrophs on model organic particles using a modified chemotaxis assay. Artificial organic particles (agarose, alginate) were incubated with surface seawater communities from four contrasted stations in the Barents Sea, and their DNA was sequenced targeting nifHand 16S rRNA genes after 2, 36, and 72 h of incubation. Our results show that diazotroph groups have selective colonization behaviors, with Gammaproteobacteriamembers preferentially colonizing alginate particles derived from brown algae, a form of organic matter becoming more common in the Arctic as it warms up. We also observe niche partitioning among microbial groups, with diazotrophs colonizing nitrogen-poor, carbon-rich particles earlier than non-diazotrophic prokaryotes. As Arctic warming proceeds, increased algal blooms may expand the niches for particle-associated diazotrophs, whose dinitrogen fixation supports phytoplankton growth and primary productivity.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"33 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144103527","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Independently evolved extracellular electron transfer pathways in ecologically diverse Desulfobacterota 在生态多样化的Desulfobacterota中独立进化的细胞外电子转移途径
The ISME Journal Pub Date : 2025-05-17 DOI: 10.1093/ismejo/wraf097
Dario R Shaw, Krishna P Katuri, Veerraghavulu Sapireddy, Olga Douvropoulou, Jeffrey A Gralnick, Pascal E Saikaly
{"title":"Independently evolved extracellular electron transfer pathways in ecologically diverse Desulfobacterota","authors":"Dario R Shaw, Krishna P Katuri, Veerraghavulu Sapireddy, Olga Douvropoulou, Jeffrey A Gralnick, Pascal E Saikaly","doi":"10.1093/ismejo/wraf097","DOIUrl":"https://doi.org/10.1093/ismejo/wraf097","url":null,"abstract":"Extracellular electron transfer plays a role in the biogeochemical cycling of carbon, metals, sulfur, and nitrogen, and has wide-ranging biotechnological applications. The metal-reducing (Mtr), outer-membrane cytochrome (Omc), and porin-cytochrome (Pcc) pathways facilitate electron transfer to insoluble electron acceptors via trans-outer membrane cytochrome complexes. Although these pathways perform a similar function, they are phylogenetically unrelated, indicating independent evolutionary origins. Here, we report an extracellular electron transfer mechanism in which the high-current producing bacterium Desulfuromonas acetexigens differentially co-expresses, at transcript and protein levels, the porin-cytochrome, outer-membrane cytochrome, and metal-reducing pathways, along with high-molecular-weight cytochromes containing a large number of hemes (up to 86 heme-binding motifs), under extracellular electron transfer growth conditions (i.e., electrode under set potential or naturally occurring iron oxide minerals as the electron acceptor). Additionally, we identified over 40 Desulfobacterota species from diverse ecological environments that encode the outer-membrane cytochrome and metal-reducing pathways, with the majority also expressing the porin-cytochrome pathway. The newly identified metal-reducing proteins in Desulfobacterota form a major lineage, greatly expanding the known diversity of these proteins. To our knowledge, mtrCAB genes have not been reported in the Desulfobacterota phylum (formerly classified as Deltaproteobacteria), nor has any electroactive organism been shown to express these phylogenetically distant pathways simultaneously. These findings have ecological implications, challenging the belief that certain extracellular electron transfer pathways are exclusive to specific taxa, and suggesting that these pathways are more widespread than previously thought. Additionally, this reveals a previously unrecognized versatility in microbial electron transfer mechanisms that can be exploited in biotechnological applications.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"127 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144083199","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Spatially structured bacterial interactions alter algal carbon flow to bacteria 空间结构细菌相互作用改变藻类碳流向细菌
The ISME Journal Pub Date : 2025-05-17 DOI: 10.1093/ismejo/wraf096
Hyungseok Kim, Vanessa L Brisson, John R Casey, Courtney Swink, Kristina A Rolison, Nathaniel McCall, Amber N Golini, Trent R Northen, Dušan Veličković, Peter K Weber, Cullen R Buie, Xavier Mayali, Rhona K Stuart
{"title":"Spatially structured bacterial interactions alter algal carbon flow to bacteria","authors":"Hyungseok Kim, Vanessa L Brisson, John R Casey, Courtney Swink, Kristina A Rolison, Nathaniel McCall, Amber N Golini, Trent R Northen, Dušan Veličković, Peter K Weber, Cullen R Buie, Xavier Mayali, Rhona K Stuart","doi":"10.1093/ismejo/wraf096","DOIUrl":"https://doi.org/10.1093/ismejo/wraf096","url":null,"abstract":"Phytoplankton account for nearly half of global photosynthetic carbon fixation, and the fate of that carbon is regulated in large part by microbial food web processing. We currently lack a mechanistic understanding of how interactions among heterotrophic bacteria impact the fate of photosynthetically fixed carbon. Here, we used a set of bacterial isolates capable of growing on exudates from the diatom Phaeodactylum tricornutum to investigate how bacteria-bacteria interactions affect the balance between exudate remineralization and incorporation into biomass. With exometabolomics and genome-scale metabolic modeling, we estimated the degree of resource competition between bacterial pairs. In a sequential spent media experiment, we found that pairwise interactions were more beneficial than predicted based on resource competition alone, and 30% exhibited facilitative interactions. To link this to carbon fate, we used single-cell isotope tracing in a custom cultivation system to compare the impact of different “primary” bacterial strains in close proximity to live P. tricornutum on a distal “secondary” strain. We found that a primary strain with a high degree of competition decreased secondary strain carbon drawdown by 51% at the single-cell level, providing a quantitative metric for the “cost” of competition on algal carbon fate. Additionally, a primary strain classified as facilitative based on sequential interactions increased total algal-derived carbon assimilation by 7.6 times, integrated over all members, compared to the competitive primary strain. Our findings suggest that the degree of interaction between bacteria along a spectrum from competitive to facilitative is directly linked to algal carbon drawdown.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"21 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144083198","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Holocene and contemporary marine dinoflagellate community patterns predict expansion of generalist dinoflagellate blooms in warming oceans 全新世和当代海洋鞭毛藻群落模式预测在变暖的海洋中一般鞭毛藻华的扩张
The ISME Journal Pub Date : 2025-05-14 DOI: 10.1093/ismejo/wraf095
Lemian Liu, Siqi Zhu, Yifan Gu, Shuqin Tao, Bernd Krock, Changyou Wang, Xinguo Shi, Qi Yan, Xiusong Pan, Jianfeng Chen, Senjie Lin, Zhaohe Luo
{"title":"Holocene and contemporary marine dinoflagellate community patterns predict expansion of generalist dinoflagellate blooms in warming oceans","authors":"Lemian Liu, Siqi Zhu, Yifan Gu, Shuqin Tao, Bernd Krock, Changyou Wang, Xinguo Shi, Qi Yan, Xiusong Pan, Jianfeng Chen, Senjie Lin, Zhaohe Luo","doi":"10.1093/ismejo/wraf095","DOIUrl":"https://doi.org/10.1093/ismejo/wraf095","url":null,"abstract":"Existing data and models suggest increasing prominence of dinoflagellates and their blooms in future warmer ocean but supporting long-term data are sparse. Here, we used 18S rRNA gene sequencing to investigate sedimentary ancient dinoflagellate communities in northern South China Sea and compared them with contemporary dinoflagellate data from global oceans (TARA Oceans data) and 40 years of dinoflagellate bloom records in China. We found a continuous warming (by ~4.3°C in mean annual sea surface temperature) from 12 to 4.3 kiloyears before present (kyr BP), which caused an initial increase in the relative abundance and diversity of dinoflagellates, followed by a decrease reaching the lowest value, probably due to thermal stress. However, dinoflagellates flourished again after 4.3 kyr BP, coinciding with a rapid increase in human activities. Further analyses indicated that warming and environmental changes during the Holocene favored dinoflagellate generalists over specialists. These generalists have also been abundant throughout contemporary low- and mid-latitude regions, whereas specialists were more abundant at higher latitudes. The predominant generalist genera Noctiluca, Gymnodinium, and Prorocentrum in core sediment corresponded to taxa responsible for most dinoflagellate blooms in the contemporary China Seas over the past 40 years. The success of generalists during warmer periods suggests that dinoflagellate blooms are likely to expand geographically rather than simply shift toward high latitudes under global warming. Moreover, the homogenization of dinoflagellate communities resulting from generalist expansion may significantly reduce the complexity of marine plankton interactions and compromise ecosystem services under global warming.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"53 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143979954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Natural and lab-derived microbiomes differentially shape stressor interaction patterns of Daphnia magna. 天然和实验室衍生的微生物组不同地塑造了大水蚤的应激相互作用模式。
The ISME Journal Pub Date : 2025-05-12 DOI: 10.1093/ismejo/wrae249
Shira Houwenhuyse,Lore Bulteel,Isabel Vanoverberghe,Anna Krzynowek,Marlies Van de Maele,Manon Coone,Silke Van den Wyngaert,Arne Sinnesael,Robby Stoks,Ellen Decaestecker
{"title":"Natural and lab-derived microbiomes differentially shape stressor interaction patterns of Daphnia magna.","authors":"Shira Houwenhuyse,Lore Bulteel,Isabel Vanoverberghe,Anna Krzynowek,Marlies Van de Maele,Manon Coone,Silke Van den Wyngaert,Arne Sinnesael,Robby Stoks,Ellen Decaestecker","doi":"10.1093/ismejo/wrae249","DOIUrl":"https://doi.org/10.1093/ismejo/wrae249","url":null,"abstract":"Organisms are facing multiple, potentially interacting stressors in natural populations. The ability of populations coping with combined stressors depends on their tolerance to individual stressors and how stressors interact, which may not be correctly captured in controlled laboratory settings. One reason for this is that the microbial communities in laboratory settings often differ from the natural environment, which could result in different stressor responses and interaction patterns. In this study, we investigated the impact of single and combined exposure to a toxic cyanobacterium and an oomycete parasite on the performance of three Daphnia magna genotypes. Daphnia individuals were sterilized and subsequently exposed to a natural or a laboratory-derived microbial inoculum. Survival, reproduction and body size were monitored, and gut microbiomes were characterized. Our study confirmed that natural and laboratory microbial inocula and gut microbiomes are differently structured. An antagonistic interaction between the two biotic stressors was revealed with respect to survival when Daphnia, across all three genotypes, were exposed to the laboratory microbial inoculum, with a higher survival in the multiple stressor treatment than in the single stressor treatments. In contrast, no antagonistic interaction was detected in Daphnia exposed to a natural microbial inoculum, where the interaction effects were mainly host genotype-dependent. Our results provide the first causal evidence that host-stressor interaction patterns may be shaped by the gut microbiome and the uptake from certain strains from the environment. This raises concern that the many multiple stressor studies on lab-cultured animals with a differently structured microbiome may provide misleading results.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"125 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143932780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Emergence and disruption of cooperativity in a denitrifying microbial community 反硝化微生物群落中协同作用的出现和破坏
The ISME Journal Pub Date : 2025-05-11 DOI: 10.1093/ismejo/wraf093
Alex V Carr, Anne E Otwell, Kristopher A Hunt, Yan Chen, James Wilson, José P Faria, Filipe Liu, Janaka N Edirisinghe, Jacob J Valenzuela, Serdar Turkarslan, Lauren M Lui, Torben N Nielsen, Adam P Arkin, Christopher S Henry, Christopher J Petzold, David A Stahl, Nitin S Baliga
{"title":"Emergence and disruption of cooperativity in a denitrifying microbial community","authors":"Alex V Carr, Anne E Otwell, Kristopher A Hunt, Yan Chen, James Wilson, José P Faria, Filipe Liu, Janaka N Edirisinghe, Jacob J Valenzuela, Serdar Turkarslan, Lauren M Lui, Torben N Nielsen, Adam P Arkin, Christopher S Henry, Christopher J Petzold, David A Stahl, Nitin S Baliga","doi":"10.1093/ismejo/wraf093","DOIUrl":"https://doi.org/10.1093/ismejo/wraf093","url":null,"abstract":"Anthropogenic perturbations to the nitrogen cycle, primarily through use of synthetic fertilizers, is driving an unprecedented increase in the emission of nitrous oxide (N2O), a potent greenhouse gas and an ozone depleting substance, causing urgency in identifying the sources and sinks of N2O. Microbial denitrification is a primary contributor to biotic production of N2O in anoxic regions of soil, marine systems, and wastewater treatment facilities. Here, through comprehensive genome analysis, we show that pathway partitioning is a ubiquitous mechanism of complete denitrification within microbial communities. We have investigated mechanisms and consequences of process partitioning of denitrification through detailed physiological characterization and kinetic modeling of a synthetic community of Rhodanobacter thiooxydans FW510-R12 and Acidovorax sp. GW101-3H11. We have discovered that these two bacterial isolates, from a heavily nitrate (NO3−) contaminated superfund site, complete denitrification through the exchange of nitrite (NO2−) and nitric oxide (NO). The process partitioning of denitrification and other processes, including amino acid metabolism, contribute to increased cooperativity within this denitrifying community. We demonstrate that certain contexts, such as high NO3−, cause unbalanced growth of community members, due to differences in their substrate utilization kinetics. The altered growth characteristics of community members drives accumulation of toxic NO2−, which disrupts denitrification causing N2O off gassing.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"8 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143932421","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Drug delivery dynamics dictate evolution of bacterial antibiotic responses 药物传递动力学决定了细菌抗生素反应的演变
The ISME Journal Pub Date : 2025-05-11 DOI: 10.1093/ismejo/wraf082
John C Crow, Hao Geng, Christopher J Geiger, Timothy J Sullivan, Shannon M Soucy, Daniel Schultz
{"title":"Drug delivery dynamics dictate evolution of bacterial antibiotic responses","authors":"John C Crow, Hao Geng, Christopher J Geiger, Timothy J Sullivan, Shannon M Soucy, Daniel Schultz","doi":"10.1093/ismejo/wraf082","DOIUrl":"https://doi.org/10.1093/ismejo/wraf082","url":null,"abstract":"Microbes inhabit natural environments that are remarkably dynamic. Therefore, microbes harbor regulated genetic mechanisms to sense shifts in conditions and induce the appropriate responses. Recent studies suggest that the initial evolution of microbes occupying new niches favors mutations in regulatory pathways. However, it is not clear how this evolution is affected by how quickly conditions change (i.e. dynamics), or which mechanisms are commonly used to implement new regulation. Here, we perform experimental evolution on continuous cultures of E. coli carrying the tetracycline resistance tet operon to identify specific mutations that adapt drug responses to different dynamic regimens of drug administration. We find that cultures evolved under gradually increasing tetracycline concentrations show no mutations in the tet operon, but instead a predominance of fine-tuning mutations increasing the affinity of an alternative efflux pump AcrB to tetracycline. When cultures are instead periodically exposed to large drug doses, all populations evolved transposon insertions in repressor TetR, resulting in loss of regulation and constitutive expression of efflux pump TetA. We use a mathematical model of the dynamics of antibiotic responses to show that sudden exposure to large drug concentrations overwhelm regulated responses, which cannot induce resistance fast enough, resulting in selection for constitutive expression of resistance. These results help explain the frequent loss of regulation of antibiotic resistance by pathogens evolved in clinical environments. Our experiment supports the notion that initial evolution in new ecological niches proceeds largely through regulatory mutations and suggests that transposon insertions are a main mechanism driving this process.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"126 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143932424","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Chromosomal capture of beneficial genes drives plasmids towards ecological redundancy 染色体捕获有益基因驱动质粒走向生态冗余
The ISME Journal Pub Date : 2025-05-11 DOI: 10.1093/ismejo/wraf091
R Craig MacLean, Cédric Lood, Rachel M Wheatley
{"title":"Chromosomal capture of beneficial genes drives plasmids towards ecological redundancy","authors":"R Craig MacLean, Cédric Lood, Rachel M Wheatley","doi":"10.1093/ismejo/wraf091","DOIUrl":"https://doi.org/10.1093/ismejo/wraf091","url":null,"abstract":"Plasmids are a ubiquitous feature of bacterial genomes, but the forces driving genes and phenotypes to become associated with plasmids are poorly understood. To address this problem, we compared the fitness effects of chromosomal and plasmid genes in the plant symbiont Rhizobium leguminosarum. The relative abundance of beneficial genes on plasmids was very low compared to the chromosome across niches that reflect key steps in plant colonization. Two lines of evidence support the hypothesis that this pattern emerges because evolutionary processes drive beneficial genes to move from plasmids to the bacterial chromosome. First, weakly beneficial genes that increased fitness in a single niche were evenly distributed between plasmids and the chromosome, whereas the chromosome was enriched for strongly beneficial genes that increased fitness multiple niches. Second, beneficial genes were more prevalent on recently acquired plasmids compared to ancient plasmids. Our findings support a model in which bacterial lineages initially acquire plasmids due to the beneficial genes that they carry, but the movement of beneficial genes to the chromosome gradually erodes the ecological value of plasmids. These findings reconcile existing models of plasmids and highlight the challenge of understanding how plasmids can persist over the long term.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"10 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143932420","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Beneficial and detrimental fungi within the culturable mycobiome of the Red Sea coral Stylophora pistilatta 红海珊瑚柱头可培养菌群内的有益和有害真菌
The ISME Journal Pub Date : 2025-05-03 DOI: 10.1093/ismejo/wraf090
Lior Granit, Rotem Levi, Nofar Lifshitz, Guilhem Banc-Prandi, Einat Zelinger, Britt Ronen, Judith Kraut-Cohen, Ankur Naqib, Stefan J Green, Maoz Fine, Oded Yarden
{"title":"Beneficial and detrimental fungi within the culturable mycobiome of the Red Sea coral Stylophora pistilatta","authors":"Lior Granit, Rotem Levi, Nofar Lifshitz, Guilhem Banc-Prandi, Einat Zelinger, Britt Ronen, Judith Kraut-Cohen, Ankur Naqib, Stefan J Green, Maoz Fine, Oded Yarden","doi":"10.1093/ismejo/wraf090","DOIUrl":"https://doi.org/10.1093/ismejo/wraf090","url":null,"abstract":"The presence of fungi in the coral microbiome is increasingly recognized, yet their potential impact on the holobiont’s health, particularly under stress conditions, remains underexplored. To address this gap, we isolated over 200 strains (predominantly Ascomycota) from the common scleractinian Red Sea coral, Stylophora pistillata. Using conidia from a rare (Stachybotrys chlorohalonata) and a common (Cladosporium halotolerans) fungal symbiont, we investigated their effects on coral fragments maintained at ambient (25°C) and elevated (33°C) sea temperatures. Inoculation with S. chlorohalonata resulted in significant tissue loss, across both water temperature treatments. Conversely, inoculation with C. halotolerans did not result in visible effects at ambient temperature, but mitigated tissue loss at elevated temperature. This protective effect was accompanied by reduced expression of stress-induced peroxiredoxin-6 and Rad51 host genes, yet not that of Hsp70. Additionally, potential algal symbiont photosynthetic efficiency was higher by over 25% in the elevated temperature treatment, concurrent with higher bacterial diversity, including a marked reduction (>3-fold) in the proliferation of Vibrionaceae in the C. halotolerans-treated coral nubbins. These findings reveal the contrasting impacts of fungal symbionts on coral health, highlighting the dual roles of the mycobiome in influencing holobiont resilience under environmental stress.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"109 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143902950","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Millimeter-scale niche differentiation of N-cycling microorganisms across the soil-water interface has implications for N2O emissions from wetlands 氮循环微生物在土壤-水界面上的毫米尺度生态位分化对湿地N2O排放具有重要意义
The ISME Journal Pub Date : 2025-05-03 DOI: 10.1093/ismejo/wraf062
Yu-Jia Cai, Hong-Yang Zhang, Xiao-Ran Hu, Yu-Chen Yang, Christina Hazard, Graeme W Nicol, Ji-Zheng He, Ju-Pei Shen, Zi-Yang He, Lu Zhang, Jing-Hui Zhang, Hao Liu, Sha Zhang, Zheng Chen
{"title":"Millimeter-scale niche differentiation of N-cycling microorganisms across the soil-water interface has implications for N2O emissions from wetlands","authors":"Yu-Jia Cai, Hong-Yang Zhang, Xiao-Ran Hu, Yu-Chen Yang, Christina Hazard, Graeme W Nicol, Ji-Zheng He, Ju-Pei Shen, Zi-Yang He, Lu Zhang, Jing-Hui Zhang, Hao Liu, Sha Zhang, Zheng Chen","doi":"10.1093/ismejo/wraf062","DOIUrl":"https://doi.org/10.1093/ismejo/wraf062","url":null,"abstract":"Wetlands can be a significant source of N2O under current global climate change regime with the soil-water interface representing a biogeochemical hotspot for microbial activity. However, the role of soil-water interface in controlling N2O emissions remains poorly understood. We hypothesized that the millimeter-scale redox gradient across the soil-water interface generates corresponding distinct niche for N-cycling microorganisms that collectively regulate the production and consumption of N2O over the same spatial scale. The abundance, transcriptional activity and spatial organization of different N-cycling guilds across the soil-water interface were characterized in mesocosms from three different paddy soils with different N2O emissions. Results demonstrated millimeter-scale stratification of N-cycling microbial activity across the soil-water interface, and in particular within the first 10 mm of flooded soils. Ammonia-oxidizing microorganisms were only transcriptionally active in the top 4 mm, suggesting a previously underestimated contribution to N2O emissions from wetlands. Variation in N2O accumulation was observed across the soil-water interface, with the highest concentrations measured at either the soil-water interface or in the deeper anoxic layer of paddy soils. Despite this difference, N2O-reducing microorganisms exhibited high transcriptional activity at the soil-water interface in all soils, suggesting that there is a microbial-mediated sink for N2O across the soil-water interface that can reduce N2O produced from both oxic and anoxic layers. This work demonstrate an underappreciated and essential role of the microbial hot zones at soil-water interface in regulating N2O emissions from wetlands.","PeriodicalId":516554,"journal":{"name":"The ISME Journal","volume":"75 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-05-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143902948","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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