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Disentangling microbial interaction networks. 分解微生物相互作用网络。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-05 DOI: 10.1016/j.tim.2025.01.013
Leonardo Oña, Shryli K Shreekar, Christian Kost
{"title":"Disentangling microbial interaction networks.","authors":"Leonardo Oña, Shryli K Shreekar, Christian Kost","doi":"10.1016/j.tim.2025.01.013","DOIUrl":"https://doi.org/10.1016/j.tim.2025.01.013","url":null,"abstract":"<p><p>The structure and function of microbial communities is shaped by intricate ecological interactions amongst the constituent microorganisms. Thus, a mechanistic understanding of emergent community-level functions requires knowledge on how the architecture of the underlying interaction networks affects these properties. To address this, researchers employ different sequencing-based and experimental approaches to infer the topology of a given network. However, it remains generally unclear which method is best suited for quantifying critical network parameters. Here we provide a comparative overview of different approaches serving this purpose, with particular emphasis on their strengths and weaknesses. In this way, our work can help to guide the design of studies that aim at unraveling structure-function relationships in microbial communities.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":""},"PeriodicalIF":14.0,"publicationDate":"2025-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143568310","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
H2S regulation of a host-microbe interaction. H2S对宿主-微生物相互作用的调控。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2025-02-05 DOI: 10.1016/j.tim.2025.01.012
Kelsie M Nauta, Nicholas O Burton
{"title":"H<sub>2</sub>S regulation of a host-microbe interaction.","authors":"Kelsie M Nauta, Nicholas O Burton","doi":"10.1016/j.tim.2025.01.012","DOIUrl":"10.1016/j.tim.2025.01.012","url":null,"abstract":"<p><p>It is often difficult to identify the molecular mechanisms that underlie interactions between species. Using Caenorhabditis elegans as a model system,Patange et al. recently demonstrated that H<sub>2</sub>S mediates interactions between C. elegans and Actinobacteria.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"258-259"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143366063","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Small intestine changes, large intestine problems. 小肠变化，大肠问题。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2025-01-30 DOI: 10.1016/j.tim.2025.01.010
Deepanshu Singla, Abigail E Rose, Wenhan Zhu
{"title":"Small intestine changes, large intestine problems.","authors":"Deepanshu Singla, Abigail E Rose, Wenhan Zhu","doi":"10.1016/j.tim.2025.01.010","DOIUrl":"10.1016/j.tim.2025.01.010","url":null,"abstract":"<p><p>Enteric pathogens must overcome host microbiota-mediated colonization resistance to colonize the gut. Radlinski et al. discovered that Salmonella invasion of the small intestine leads to amino acid malabsorption. This increases amino acid availability in the large intestine, fueling Salmonella colonization through amino acid decarboxylation and counteracting SCFA-mediated cytoplasmic acidification.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"255-257"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11885040/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143075544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Overlooked tripartite microbial interactions influencing chemical cycling in the ocean. 被忽视的影响海洋化学循环的三方微生物相互作用。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2025-01-24 DOI: 10.1016/j.tim.2025.01.005
Amaranta Focardi, Justin R Seymour, Jean-Baptiste Raina
{"title":"Overlooked tripartite microbial interactions influencing chemical cycling in the ocean.","authors":"Amaranta Focardi, Justin R Seymour, Jean-Baptiste Raina","doi":"10.1016/j.tim.2025.01.005","DOIUrl":"10.1016/j.tim.2025.01.005","url":null,"abstract":"<p><p>Inter-microbial interactions fundamentally govern ocean ecology and biogeochemistry. Recently, Henshaw and colleagues revealed that important inter-bacterial associations in the ocean can be shaped by viral infections, whereby infected cyanobacteria release specific chemicals that attract heterotrophic bacteria, uncovering a new tripartite microbial interaction that influences carbon transfer in the surface ocean.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"253-254"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143042059","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
The sticky business of Alphavirus capsid-host interactions. 甲病毒衣壳与宿主相互作用的粘性业务。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2024-12-10 DOI: 10.1016/j.tim.2024.11.003
Caroline K Martin, Peiqi Yin, Margaret Kielian
{"title":"The sticky business of Alphavirus capsid-host interactions.","authors":"Caroline K Martin, Peiqi Yin, Margaret Kielian","doi":"10.1016/j.tim.2024.11.003","DOIUrl":"10.1016/j.tim.2024.11.003","url":null,"abstract":"<p><p>Alphaviruses are a serious threat to global health and can cause lethal encephalitic or arthritogenic disease in humans and animals. As there are no licensed antivirals, it is critical to improve our understanding of alphavirus interactions with the host cell. Here, we focus on the essential alphavirus protein capsid. While its roles in genome packaging and virus assembly have been well-studied, much less is known about capsid's interactions with host proteins and their functional relevance for infection. Recently, several new capsid interactor candidates were identified, collectively emphasising the complexity of capsid-host biology. In this review we summarise these novel interactor candidates, highlight capsid's emerging role in immune evasion, and discuss the challenges and opportunities arising from capsid-host interactions.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"321-339"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11916923/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142813732","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Epigenetic maneuvering: an emerging strategy for mycobacterial intracellular survival. 表观遗传操纵：分枝杆菌胞内生存的新策略。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2024-11-29 DOI: 10.1016/j.tim.2024.10.007
Prakruti R Singh, Valakunja Nagaraja
{"title":"Epigenetic maneuvering: an emerging strategy for mycobacterial intracellular survival.","authors":"Prakruti R Singh, Valakunja Nagaraja","doi":"10.1016/j.tim.2024.10.007","DOIUrl":"10.1016/j.tim.2024.10.007","url":null,"abstract":"<p><p>Mycobacterium tuberculosis (Mtb) has elaborated numerous mechanisms for its pathogenesis. Mtb manipulates host signaling pathways to interfere with the immune response and cell death pathways. By employing virulence factors - of which secretory proteins are emerging as significant components - it ensures successful survival in the host. In this review, we discuss advances made on the largely unexplored secretory modifiers of Mtb that alter the host epigenome to impact host pathways for the pathogen's advantage. We highlight the findings on the Mtb-encoded modification enzymes and their role in maneuvering the host machinery. We also provide pointers to the gaps that still exist in this area and approaches to address these questions for a better appreciation of the uncanny success of Mtb as an intracellular pathogen.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"354-369"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142755698","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
New insights on nitrogen transformation and attack on world stone monuments. 氮转化与世界石碑攻击的新认识。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2025-01-31 DOI: 10.1016/j.tim.2025.01.002
Pengfei Hu, Ji-Dong Gu
{"title":"New insights on nitrogen transformation and attack on world stone monuments.","authors":"Pengfei Hu, Ji-Dong Gu","doi":"10.1016/j.tim.2025.01.002","DOIUrl":"10.1016/j.tim.2025.01.002","url":null,"abstract":"<p><p>Nitrogen (N)-transferring microorganisms can exacerbate biodegradation of world cultural heritage. This forum article focuses on microorganisms with ammonia-oxidizing and related reactions, newly detected on stone monuments, with an emphasis on their ecological diversity, acid production, and mechanisms of biodeterioration. This analysis provides a new research framework for understanding biodeterioration and future conservation management.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"260-263"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143075541","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Bacterial peptidoglycan recycling. 细菌肽聚糖回收。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2024-11-29 DOI: 10.1016/j.tim.2024.11.004
Michael C Gilmore, Felipe Cava
{"title":"Bacterial peptidoglycan recycling.","authors":"Michael C Gilmore, Felipe Cava","doi":"10.1016/j.tim.2024.11.004","DOIUrl":"10.1016/j.tim.2024.11.004","url":null,"abstract":"<p><p>During growth and division, the bacterial cell wall is remodeled, resulting in the liberation of peptidoglycan (PG) fragments which are typically reinternalized and recycled. Recycling of PG has been studied in a few model species, but its importance and diversity are not yet well understood. Here, we review how bacteria transport and recycle the components of their PG, highlighting updates and new findings.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"340-353"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142755697","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Neisseria meningitidis. 脑膜炎奈瑟菌。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2025-01-24 DOI: 10.1016/j.tim.2025.01.001
Emmanuelle Bille, Alexandra Schubert-Unkmeir, Mathieu Coureuil
{"title":"Neisseria meningitidis.","authors":"Emmanuelle Bille, Alexandra Schubert-Unkmeir, Mathieu Coureuil","doi":"10.1016/j.tim.2025.01.001","DOIUrl":"10.1016/j.tim.2025.01.001","url":null,"abstract":"","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"370-371"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143042014","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Balancing act: counteracting adverse drug effects on the microbiome. 平衡之术：抵消药物对微生物群的不良影响。
IF 14 1区 生物学
Trends in Microbiology Pub Date : 2025-03-01 Epub Date: 2024-10-11 DOI: 10.1016/j.tim.2024.09.011
Jacobo de la Cuesta-Zuluaga, Patrick Müller, Lisa Maier
{"title":"Balancing act: counteracting adverse drug effects on the microbiome.","authors":"Jacobo de la Cuesta-Zuluaga, Patrick Müller, Lisa Maier","doi":"10.1016/j.tim.2024.09.011","DOIUrl":"10.1016/j.tim.2024.09.011","url":null,"abstract":"<p><p>The human gut microbiome, a community of microbes that plays a crucial role in our wellbeing, is highly adaptable but also vulnerable to drug treatments. This vulnerability can have serious consequences for the host, for example, increasing susceptibility to infections, immune, metabolic, and cognitive disorders. However, the microbiome's adaptability also provides opportunities to prevent, protect, or even reverse drug-induced damage. Recently, several innovative approaches have emerged aimed at minimizing the collateral damage of drugs on the microbiome. Here, we outline these approaches, discuss their applicability in different treatment scenarios, highlight current challenges, and suggest avenues that may lead to an effective protection of the microbiome.</p>","PeriodicalId":23275,"journal":{"name":"Trends in Microbiology","volume":" ","pages":"268-276"},"PeriodicalIF":14.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142475618","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
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