ISME communications最新文献_第2页

Self-growth suppression in Bradyrhizobium diazoefficiens is caused by a diffusible antagonist.

IF 5.1

ISME communications Pub Date : 2025-02-17 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf032

Armaan Kaur Sandhu, Brady R Fischer, Senthil Subramanian, Adam D Hoppe, Volker S Brözel

{"title":"Self-growth suppression in Bradyrhizobium diazoefficiens is caused by a diffusible antagonist.","authors":"Armaan Kaur Sandhu, Brady R Fischer, Senthil Subramanian, Adam D Hoppe, Volker S Brözel","doi":"10.1093/ismeco/ycaf032","DOIUrl":"10.1093/ismeco/ycaf032","url":null,"abstract":"Microbes in soil navigate interactions by recognizing kin, forming social groups, exhibiting antagonistic behavior, and engaging in competitive kin rivalry. Here, we investigated a novel phenomenon of self-growth suppression (sibling rivalry) observed in Bradyrhizobium diazoefficiens USDA 110. Swimming colonies of USDA 110 developed a distinct demarcation line and inter-colony zone when inoculated adjacent to each other. In addition to self, USDA 110 suppressed growth of other Bradyrhizobium strains and several other soil bacteria. We demonstrated that the phenomenon of sibling rivalry is due to growth suppression but not cell death. The cells in the inter-colony zone were culturable but had reduced respiratory activity, ATP levels, and motility. The observed growth suppression was due to the presence of a diffusible effector compound. This effector was labile, preventing extraction, and identification, but it is unlikely a protein or a strong acid or base. This counterintuitive phenomenon of self-growth suppression suggests a strategic adaptation for conserving energy and resources in competitive soil environments. Bradyrhizobium's utilization of antagonism including self-growth suppression likely provides a competitive advantage for long-term success in soil ecosystems.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf032"},"PeriodicalIF":5.1,"publicationDate":"2025-02-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11896636/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143607349","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Resolving ecological drivers of temporal variations of β-diversity across intertidal microbiomes.

IF 5.1

ISME communications Pub Date : 2025-02-17 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf025

Xia Liu, Xiaofan Gong, Kai Ma, Wen Song, Jiayin Zhou, Mengqi Wang, Yueyue Li, Mengzhi Ji, Yan Li, He Han, Yuzhuo Wang, Qichao Tu

{"title":"Resolving ecological drivers of temporal variations of β-diversity across intertidal microbiomes.","authors":"Xia Liu, Xiaofan Gong, Kai Ma, Wen Song, Jiayin Zhou, Mengqi Wang, Yueyue Li, Mengzhi Ji, Yan Li, He Han, Yuzhuo Wang, Qichao Tu","doi":"10.1093/ismeco/ycaf025","DOIUrl":"10.1093/ismeco/ycaf025","url":null,"abstract":"Resolving the ecological drivers mediating the diversity patterns of microbial communities across space and through time is a central issue in microbial ecology. Both regional species pools and local community assembly contribute to the spatial turnover of biodiversity. In this study, we extended the concept of regional species pool to temporal, and investigated the seasonal dynamics of intertidal microbiomes across four microbial domains/kingdoms (bacteria, archaea, fungi, and protists). The results showed that the seasonal variations of microbial β-diversity were primarily governed by community assembly processes rather than temporal species pools. Different microbial domains/kingdoms were structured by different ecological processes, with homogeneous selection as the major process for all of them. Additionally, bacteria and fungi were critically shaped by drift, and protists by drift and homogeneous dispersal. Among various factors, temperature was important in shaping the temporal patterns of microbial β-diversity. The fluctuation in temperature was strongly associated with fungi and protists, resulting in high drift of community composition. This study demonstrated that community assembly processes governed the dynamic seasonal β-variations of intertidal microbiomes, expanding our understanding from spatial ecology.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf025"},"PeriodicalIF":5.1,"publicationDate":"2025-02-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11879246/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143560354","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Pleiotropic regulation of bacterial toxin production and Allee effect govern microbial predator-prey interactions.

IF 5.1

ISME communications Pub Date : 2025-02-14 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf031

Harikumar R Suma, Pierre Stallforth

{"title":"Pleiotropic regulation of bacterial toxin production and Allee effect govern microbial predator-prey interactions.","authors":"Harikumar R Suma, Pierre Stallforth","doi":"10.1093/ismeco/ycaf031","DOIUrl":"10.1093/ismeco/ycaf031","url":null,"abstract":"Bacteria are social organisms, which are constantly exposed to predation by nematodes or amoebae. To counteract these predation pressures, bacteria have evolved a variety of potent antipredator strategies. Bacteria of the genus Pseudomonas, for instance, evade amoebal predation by the secretion of amoebicidal natural products. The soil bacterium Pseudomonas fluorescens HKI0770 produces pyreudione alkaloids that can kill amoebae. Even though the mode of action of the pyreudiones has been elucidated, the spatiotemporal dynamics underlying this predator-prey interaction remain unknown. Using a combination of microscopy and analytical techniques, we elucidated the intricate relationship of this predator-prey association. We used the chromatic bacteria toolbox for intraspecific differentiation of the amoebicide-producing wildtype and the non-producing mutant within microcosms. These allow for variations in nutrient availability and the emergence of predation-evasion strategies of interacting microorganisms. Imaging of the co-cultures revealed that the amoebae initially ingest both the non-producer as well as the toxin-producer cells. The outcomes of predator-prey interactions are governed by the population size and fitness of the interacting partners. We identified that changes in the cell density coupled with alterations in nutrient availability led to a strong Allee effect resulting in the diminished production of pyreudione A. The loss of defense capabilities renders P. fluorescens HKI0770 palatable to amoebae. Such a multifaceted regulation provides the basis for a model by which predator-prey populations are being regulated in specific niches. Our results demonstrate how the spatiotemporal regulation of bacterial toxin production alters the feeding behavior of amoeba.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf031"},"PeriodicalIF":5.1,"publicationDate":"2025-02-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11904905/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143626940","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multiple defense is an effective antipredator strategy in dinoflagellates.

IF 5.1

ISME communications Pub Date : 2025-02-14 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf029

Gihong Park, Hans G Dam

{"title":"Multiple defense is an effective antipredator strategy in dinoflagellates.","authors":"Gihong Park, Hans G Dam","doi":"10.1093/ismeco/ycaf029","DOIUrl":"10.1093/ismeco/ycaf029","url":null,"abstract":"Phytoplankton have evolved myriad defenses against predators; yet, studies that simultaneously test for defense fitness costs and benefits are rare. We tested for relative fitness costs and benefits of defense in the marine dinoflagellate Alexandrium catenella using a framework that relates growth rates of prey genotypes (strains) that differed in constitutive toxin production (low, moderate, and high) to predator (copepod) concentration. Our approach is based on a novel molecular technique that allows one to disentangle the effect of predation mortality from the cell growth reduction due to toxin production. Results show that the strain with the highest constitutive toxin production was the only one that expressed inducible toxin production-a strategy that paid off as its fitness benefit outweighed its cost. Surprisingly, the moderate toxin strain that derived the highest relative fitness benefit increased cell division rate (akin to compensatory growth) and decreased cell size, while keeping its volume-specific toxin production constant in response to predation. These results suggest an effective antipredator defense portfolio.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf029"},"PeriodicalIF":5.1,"publicationDate":"2025-02-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11894931/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143607346","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Chemical pollution drives taxonomic and functional shifts in marine sediment microbiome, influencing benthic metazoans.

IF 5.1

ISME communications Pub Date : 2025-02-13 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycae141

Lin-Lin Xu, Shelby E McIlroy, Yueqiong Ni, Isis Guibert, Jiarui Chen, Ulisses Rocha, David M Baker, Gianni Panagiotou

{"title":"Chemical pollution drives taxonomic and functional shifts in marine sediment microbiome, influencing benthic metazoans.","authors":"Lin-Lin Xu, Shelby E McIlroy, Yueqiong Ni, Isis Guibert, Jiarui Chen, Ulisses Rocha, David M Baker, Gianni Panagiotou","doi":"10.1093/ismeco/ycae141","DOIUrl":"10.1093/ismeco/ycae141","url":null,"abstract":"Microbial communities in marine sediments contribute significantly to the overall health and resiliency of marine ecosystems. However, increased human disturbance undermines biodiversity and, hence, natural functionality provided by marine sediments. Here, through a deep shotgun metagenomics sequencing of the sediment microbiome and COI metabarcoding of benthic metazoans, we demonstrate that >50% of the microorganisms' and metazoan's taxonomic variation can be explained by specific chemical pollution indices. Interestingly, there was a significant correlation between the similarity in microbiome communities' taxonomical and functional attributes and the similarity of benthic metazoans community composition. Furthermore, mediation analysis was conducted to evaluate the microbiome-mediated indirect effect, suggesting that microbial species and functions accounted for 36% and 26%, respectively, of the total effect of pollution on the benthic metazoans. Our study introduces a multi-level perspective for future studies in urbanized coastal areas to explore marine ecosystems, revealing the impact of pollution stress on microbiome communities and their critical biogeochemical functions, which in turn may influence macrofaunal composition.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycae141"},"PeriodicalIF":5.1,"publicationDate":"2025-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11851482/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143506554","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Internal transcribed spacers enable species-level Metataxonomic analysis of ciliated protozoa.

IF 5.1

ISME communications Pub Date : 2025-02-11 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf024

Sripoorna Somasundaram, Zhongtang Yu

{"title":"Internal transcribed spacers enable species-level Metataxonomic analysis of ciliated protozoa.","authors":"Sripoorna Somasundaram, Zhongtang Yu","doi":"10.1093/ismeco/ycaf024","DOIUrl":"10.1093/ismeco/ycaf024","url":null,"abstract":"Traditional morphology-based ciliate classification is often time-consuming and inaccurate, necessitating molecular approaches. Although 18S rRNA gene sequencing is widely used for taxonomic analyses of ciliates, its high degree of conservation makes it challenging to achieve species-level resolution. This study explores the potential of internal transcribed spacers (ITS1 and ITS2) and the 28S rRNA gene to improve taxonomic resolution beyond that offered by 18S rRNA gene in free-living and host-associated ciliates. A comparative analysis of ITS, the 18S, and 28S rRNA gene sequences retrieved from public databases indicated that ITS regions exhibit greater inter- and intra-specific sequence dissimilarity compared to 18S rRNA gene, supporting existing literature. We then designed universal primers targeting the ITS and 28S rRNA gene for freshwater and rumen ciliates. These primers were rigorously evaluated for their inclusiveness, specificity, and amplification efficiency using in-silico PCR, experimental PCR, followed by sequencing and metataxonomic analyses of the ciliate communities. In-silico analyses revealed inclusiveness exceeding 80%, while experimental analyses validated their specificity. Metataxonomic analyses of ciliates demonstrated that the ITS and 28S rRNA gene captured significantly greater taxonomic diversity than 18S rRNA gene. Also, ITS1 offered superior taxonomic resolution by detecting the most ciliate species that went unnoticed by the 18S rRNA gene. These findings underscore the superiority of ITS1, and to a lesser extent ITS2, as taxonomic markers for enhancing the resolution of freshwater and rumen ciliate communities. We recommend ITS1 as an alternative marker to overcome the limitations of 18S rRNA gene-based approaches in free-living and host-associated ciliate taxonomy.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf024"},"PeriodicalIF":5.1,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11879186/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143560345","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Evaluating agar-plating and dilution-to-extinction isolation methods for generating oak-associated microbial culture collections.

IF 5.1

ISME communications Pub Date : 2025-02-11 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf019

Alejandra Ordonez, Usman Hussain, Marine C Cambon, Peter N Golyshin, Jim Downie, James E McDonald

{"title":"Evaluating agar-plating and dilution-to-extinction isolation methods for generating oak-associated microbial culture collections.","authors":"Alejandra Ordonez, Usman Hussain, Marine C Cambon, Peter N Golyshin, Jim Downie, James E McDonald","doi":"10.1093/ismeco/ycaf019","DOIUrl":"10.1093/ismeco/ycaf019","url":null,"abstract":"Microbial isolation methods are crucial for producing comprehensive microbial culture collections that reflect the richness and diversity of natural microbiotas. Few studies have focused on isolation of plant-associated microbiota, with even less focus on forest trees. Here, we tested two isolation methods, (i) agar plating and (ii) dilution-to-extinction, for isolation of microbiota from leaf, stem, and root/rhizosphere tissues of oak trees. Microbial isolates obtained (culture-dependent) and the endogenous oak microbiota of the source tissue samples (culture-independent) were characterized by 16S rRNA gene and ITS community profiling. We found that the type of growth medium, incubation conditions, and sample type inoculated onto agar influenced the number of isolates and taxonomic richness of the isolates obtained. Most bacterial and fungal ASVs obtained from isolation-based approaches were only obtained using one of the two isolation methods, with only 12% of the ASVs detected in both. Moreover, the isolation methods captured microorganisms not detected by culture-independent analysis of the microbiota, suggesting these approaches can complement culture-independent analysis by enriching low-abundant taxa. Our results suggest that dilution-to-extinction and agar-plating approaches captured distinct fractions of the oak microbiota, and that a combination of both isolation methods was required to produce taxonomically richer microbial culture collections.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf019"},"PeriodicalIF":5.1,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11878766/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143560297","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Terrestrial-aquatic connectivity structures microbial communities during the formation of thermokarst lakes.

IF 5.1

ISME communications Pub Date : 2025-02-10 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf027

Martial Leroy, Melanie S Burnett, Isabelle Laurion, Peter M J Douglas, Cynthia M Kallenbach, Jérôme Comte

{"title":"Terrestrial-aquatic connectivity structures microbial communities during the formation of thermokarst lakes.","authors":"Martial Leroy, Melanie S Burnett, Isabelle Laurion, Peter M J Douglas, Cynthia M Kallenbach, Jérôme Comte","doi":"10.1093/ismeco/ycaf027","DOIUrl":"10.1093/ismeco/ycaf027","url":null,"abstract":"Rising air temperatures and permafrost degradation drive the erosion of palsas (permafrost mounds mainly composed of frozen peat and ice layers) and lead to the formation of thermokarst ponds and lakes, known for their high greenhouse gas (GHG) emissions. This study investigates the impact of permafrost soil erosion during thermokarst lake formation on microbial community structure and its implications for GHG dynamics in a highly degraded permafrost valley (Nunavik, northern Quebec, Canada). Samples were collected from a palsa, an emerging lake connected to the palsa, surrounding peat and soil pore water, and two mature lakes which are older, stratified, and less connected to the palsa. Analysis of total and potentially active microbial communities, based on 16S rRNA gene amplicon sequence variants revealed significant changes in taxonomic and phylogenetic diversity during thermokarst lake formation. We found distinct assembly processes depending on the stage of formation. Firstly stochastics, they became more deterministic as lakes mature. Distinct methanogens/trophs communities in emerging lake led to lower CO2:CH4 ratio compared to the surface of mature lakes. Which presented a greater diversity of methanogens and distinct methanotrophic communities, with acetogenic, hydrogenotrophic and methylotrophic methanogens along anaerobic an aerobic methanotrophs. Multivariate analyses revealed that selection processes were primarily driven by concentrations of CH4, CO2, and NO3 -. The interplay between the nitrogen and carbon cycles appears to be pivotal in these assemblages, with nitrogen playing key roles on community structure. These findings underscore the significance of terrestrial-aquatic connectivity in shaping microbial communities and GHG emissions in thermokarst lakes.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf027"},"PeriodicalIF":5.1,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11879182/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143560363","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Distinct phytoplankton size classes respond differently to biotic and abiotic factors.

IF 5.1

ISME communications Pub Date : 2025-02-08 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycae148

Stefanie Eyring, Ewa Merz, Marta Reyes, Pinelopi Ntetsika, Stuart R Dennis, Peter D F Isles, Sreenath Kyathanahally, Marco Baity-Jesi, Sze-Wing To, Agostino Merico, Francesco Pomati

{"title":"Distinct phytoplankton size classes respond differently to biotic and abiotic factors.","authors":"Stefanie Eyring, Ewa Merz, Marta Reyes, Pinelopi Ntetsika, Stuart R Dennis, Peter D F Isles, Sreenath Kyathanahally, Marco Baity-Jesi, Sze-Wing To, Agostino Merico, Francesco Pomati","doi":"10.1093/ismeco/ycae148","DOIUrl":"10.1093/ismeco/ycae148","url":null,"abstract":"The interplay between abiotic (resource supply, temperature) and biotic (grazing) factors determines growth and loss processes in phytoplankton through resource competition and trophic interactions, which are mediated by morphological traits like size. Here, we study the relative importance of grazers, water physics, and chemistry on the daily net accumulation rates (ARs) of individual phytoplankton from natural communities, grouped into six size classes from circa 10 to 500 μm. Using a Random Forest modelling approach and 4 years of daily data from a lake, we find that water temperature is generally a pivotal control of all phytoplankton ARs. At the same time, nutrients and light are important for the smallest and the largest classes. Mesozooplankton abundance is a key predictor of the AR for small phytoplankton, with microzooplankton being important for the middle-size range. In our data, large and small phytoplankton have different (seasonal) blooming patterns: small forms are favoured by low temperature and grazing, and high phosphorus levels. Larger forms show positive ARs at high temperatures and low phosphorus (being relatively insensitive to zooplankton grazing). These results help us understand the opportunities and limitations of using size to explain and model phytoplankton responses to biotic and abiotic environmental change.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycae148"},"PeriodicalIF":5.1,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11843441/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143484828","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Different intestinal ecological niches drive the divergent evolution of probiotics in the gut.

IF 5.1

ISME communications Pub Date : 2025-02-06 eCollection Date: 2025-01-01 DOI: 10.1093/ismeco/ycaf023

Zhe Han, Denggao Huang, Xinlei Liu, Wenyao Ma, Weipeng Cui, Shuaiming Jiang, Dongyu Zhen, Jiachao Zhang

{"title":"Different intestinal ecological niches drive the divergent evolution of probiotics in the gut.","authors":"Zhe Han, Denggao Huang, Xinlei Liu, Wenyao Ma, Weipeng Cui, Shuaiming Jiang, Dongyu Zhen, Jiachao Zhang","doi":"10.1093/ismeco/ycaf023","DOIUrl":"10.1093/ismeco/ycaf023","url":null,"abstract":"Previously, we described the divergent evolution of probiotics in the gut, which potentially compromises their health-promoting effects. Here, we employed a spatiotemporal multiomic approach to explore the distribution and evolutionary trends of the probiotic Lactiplantibacillus plantarum HNU082 (Lp082) in specific-pathogen-free and monocolonized mouse models. Initially, after establishing the inherent differences in the gut microbiota between the small and large intestines, we observed that the small intestine served as the main site for Lp082 survival and colonization. Subsequently, we discovered that the small intestine was the sole site where Lp082 exhibited divergent evolution. Moreover, our research indicated that Lp082 had a more substantial impact on the small-intestinal microbiota than on the large-intestinal microbiota. Consequently, we observed a significantly greater number of closely associated species coevolving with Lp082 in the small intestine than in the large intestine. This suggests that Lp082 faced higher selective pressures within the small intestine, potentially leading to the emergence of a greater number of mutants. Our findings will contribute to the differentiated application of probiotics, enhancing their beneficial effects, and offer insights into the targeted domestication of probiotic strains.","PeriodicalId":73516,"journal":{"name":"ISME communications","volume":"5 1","pages":"ycaf023"},"PeriodicalIF":5.1,"publicationDate":"2025-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11879351/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143560294","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0