npj Biofilms and Microbiomes最新文献_第9页

Targeted metabolomics reveals bioactive inflammatory mediators from gut into blood circulation in children with NAFLD. 靶向代谢组学揭示NAFLD儿童从肠道进入血液循环的生物活性炎症介质。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-07-01 DOI: 10.1038/s41522-025-00706-w

Miyang Luo, Jiayou Luo, Atipatsa C Kaminga, Jia Wei, Wen Dai, Yan Zhong, Ningan Xu, Xiongwei Li, Haixiang Zhou, Xiongfeng Pan

{"title":"Targeted metabolomics reveals bioactive inflammatory mediators from gut into blood circulation in children with NAFLD.","authors":"Miyang Luo, Jiayou Luo, Atipatsa C Kaminga, Jia Wei, Wen Dai, Yan Zhong, Ningan Xu, Xiongwei Li, Haixiang Zhou, Xiongfeng Pan","doi":"10.1038/s41522-025-00706-w","DOIUrl":"10.1038/s41522-025-00706-w","url":null,"abstract":"Altered gut metabolites are important for the inflammatory progression in children with NAFLD. Fecal and plasma samples were collected from 145 subjects including 53 non-alcoholic fatty liver (NAFL), 39 nonalcoholic steatohepatitis (NASH) and 53 obese controls. We performed G350 targeted integrative metabolomics using high performance liquid chromatography mass spectrometry for fecal and plasma analysis of NAFL, NASH, and obese children. We found 9 metabolites involved in metabolic reprogramming of inflammation in NAFLD, such as lipid, carbohydrate, amino acid metabolism, and TCA cycle pathway. Moreover, 7 inflammation-related metabolites could discriminate NAFLD severity by machine learning model. This study identified three novel elevated inflammatory pathogenic metabolites and the relationship between increased inflammation, may be involved in TLR5/MYD88/NFκB pathway. These findings reveal that specific inflammatory metabolites entering the blood circulation from the gut are associated with disease severity and inflammatory pathogenesis in children with NAFLD.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"119"},"PeriodicalIF":7.8,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12217130/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144541647","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

Gut microbiota-derived isovaleric acid ameliorates influenza virus infection via gut-lung axis. 肠道微生物来源的异戊酸通过肠-肺轴改善流感病毒感染。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-07-01 DOI: 10.1038/s41522-025-00753-3

JunHong Xing, TianMing Niu, Tong Yu, BoShi Zou, ShuHui Fan, ChunFeng Wang, ChunWei Shi, DongXing Zhang, Nan Wang, YanLong Jiang, HaiBin Huang, Xin Cao, Yan Zeng, JianZhong Wang, Di Zhang, GuiLian Yang, WenTao Yang

{"title":"Gut microbiota-derived isovaleric acid ameliorates influenza virus infection via gut-lung axis.","authors":"JunHong Xing, TianMing Niu, Tong Yu, BoShi Zou, ShuHui Fan, ChunFeng Wang, ChunWei Shi, DongXing Zhang, Nan Wang, YanLong Jiang, HaiBin Huang, Xin Cao, Yan Zeng, JianZhong Wang, Di Zhang, GuiLian Yang, WenTao Yang","doi":"10.1038/s41522-025-00753-3","DOIUrl":"10.1038/s41522-025-00753-3","url":null,"abstract":"H9N2 influenza virus infections represent a significant respiratory health concern, yet the functional role of gut microbiota during infection progression remains poorly understood. Here, we show that H9N2 infection causes dose-dependent alterations in gut microbial communities in a mammalian infection model, particularly the depletion of Prevotella species. Prophylactic administration of Prevotella copri improved survival and clinical outcomes in infected mice by restructuring the gut microbiome, promoting beneficial bacteria, and suppressing pathogens. Metabolomic profiling revealed increased isovaleric acid levels in the intestine and serum. Isovaleric acid pretreatment reduced pulmonary inflammation, alleviated tissue damage, and preserved epithelial integrity. Isovaleric acid pretreatment alleviates lung inflammation, reduces tissue damage, and maintains epithelial integrity. Additionally, isovaleric acid mitigates infection caused by the H1N1 influenza virus. These findings highlight the immunomodulatory role of gut commensals and their metabolites in antiviral defense, offering a new approach to influenza virus treatment.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"116"},"PeriodicalIF":7.8,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12216287/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144541641","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

Iron limitation-induced endophytic Ammoniphilus assemblage promotes root apoplastic iron remobilization by attenuation of salicylic acid pathways. 铁限制诱导的内生嗜氨菌组合通过衰减水杨酸途径促进根外体铁的再动员。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-07-01 DOI: 10.1038/s41522-025-00765-z

Lin Zhu, Aijing Zhang, Jiansheng Guo, Huabing Liu, Yue Xie, Xiaomin Lu, Congsheng Yan, Jianfei Wang, Cheng Zhou

{"title":"Iron limitation-induced endophytic Ammoniphilus assemblage promotes root apoplastic iron remobilization by attenuation of salicylic acid pathways.","authors":"Lin Zhu, Aijing Zhang, Jiansheng Guo, Huabing Liu, Yue Xie, Xiaomin Lu, Congsheng Yan, Jianfei Wang, Cheng Zhou","doi":"10.1038/s41522-025-00765-z","DOIUrl":"10.1038/s41522-025-00765-z","url":null,"abstract":"Plants establish symbiotic associations with root-colonizing microbes to adapt to adverse conditions. However, how root-associated microbiota interacted with their hosts to improve plant growth under nutrient deficient conditions remains poorly understood. In this study, we explored an interaction between tomato plants and root-associated microbiota under iron (Fe) limitation, mediated by bacterial secretion of glutamine. 16S rRNA gene sequencing revealed that Fe-limited conditions altered the composition of root-associated microbiomes, resulting in the enrichment of Ammoniphilus sp. This taxon was isolated and shown to alleviate Fe deficiency symptoms. Moreover, Fe deficiency triggered salicylic acid (SA)-induced hydrogen peroxide (H2O2) burst, thereby inhibiting the exudation of Fe-mobilizing phenolics from the roots. However, bacterial secretion of Gln greatly attenuated the SA-induced H2O2 production in the roots, thereby enhancing bacterial colonization and promoting apoplastic Fe remobilization. Collectively, these results underscored a microbial strategy for orchestrating plant SA pathways to facilitate the reutilization of root apoplastic Fe.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"125"},"PeriodicalIF":7.8,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12216494/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144541643","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

Microfluidics unveils role of gravity and shear stress on Pseudomonas fluorescens motility and biofilm growth. 微流体揭示了重力和剪切应力对荧光假单胞菌运动和生物膜生长的作用。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-07-01 DOI: 10.1038/s41522-025-00744-4

Daniele Marra, Moreno Rizzo, Sergio Caserta

引用次数: 0

Lactobacillus regulate muscle fiber type conversion in Chinese native pigs via tryptophan metabolism. 乳酸菌通过色氨酸代谢调节猪肌纤维类型转化。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-23 DOI: 10.1038/s41522-025-00745-3

Bo Song, Md Abul Kalam Azad, Qian Zhu, Yating Cheng, Sujuan Ding, Kang Yao, Xiangfeng Kong

引用次数: 0

A promiscuous Bcd amino acid dehydrogenase promotes biofilm development in Bacillus subtilis. 混杂的Bcd氨基酸脱氢酶促进枯草芽孢杆菌生物膜的发育。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-21 DOI: 10.1038/s41522-025-00750-6

David Ranava, Stephen M Lander, Szu-Yu Kuan, Jonathan D Winkelman, Arthur Prindle, Mee-Ngan F Yap

{"title":"A promiscuous Bcd amino acid dehydrogenase promotes biofilm development in Bacillus subtilis.","authors":"David Ranava, Stephen M Lander, Szu-Yu Kuan, Jonathan D Winkelman, Arthur Prindle, Mee-Ngan F Yap","doi":"10.1038/s41522-025-00750-6","DOIUrl":"10.1038/s41522-025-00750-6","url":null,"abstract":"Glutamate dehydrogenase (GDH) resides at the crossroads of nitrogen and carbon metabolism, catalyzing the reversible conversion of L-glutamate to α-ketoglutarate and ammonium. GDH paralogs are ubiquitous across most species, presumably enabling functional specialization and genetic compensation in response to diverse conditions. Staphylococcus aureus harbors a single housekeeping GDH (GudB), whereas Bacillus subtilis encodes both a major and a minor GDH, GudB and RocG, respectively. In an unsuccessful attempt to identify an alternative GDH in S. aureus, we serendipitously discovered previously unrecognized GDH activity in two metabolic enzymes of B. subtilis. The hexameric Val/Leu/Ile dehydrogenase Bcd (formerly YqiT) catabolizes branched-chain amino acids and to a lesser extent glutamate using NAD+ as a cofactor. Removal of gudB and rocG unmasks the dual NAD(P)+-dependent GDH activity of RocA, which otherwise functions as a 3-hydroxy-1-pyrroline-5-carboxylate dehydrogenase. Bcd homologs are prevalent in free-living and obligate bacteria but are absent in most, if not all, staphylococci. Despite low sequence homology, Bcd structurally resembles the GudB/RocG family and can functionally compensate for the loss of GudB in S. aureus. Bcd is essential for the full maturation of biofilms. B. subtilis lacking GDHs exhibits severe impairments in rugose architecture and colony expansion of biofilms. This study underscores the importance of metabolic redundancy and highlights the critical role of substrate promiscuity in GDHs during biofilm development.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"112"},"PeriodicalIF":7.8,"publicationDate":"2025-06-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12181280/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144336784","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

Lactobacillus amylovorus extracellular vesicles mitigate mammary gland ferroptosis via the gut-mammary gland axis. 淀粉样乳杆菌胞外囊泡通过肠-乳腺轴减轻乳腺铁下垂。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-21 DOI: 10.1038/s41522-025-00752-4

Qianzi Zhang, Dongpang Chen, Hanting Ding, Qihui Li, Siyu Yuan, Haobin Li, Wutai Guan, Shihai Zhang

{"title":"Lactobacillus amylovorus extracellular vesicles mitigate mammary gland ferroptosis via the gut-mammary gland axis.","authors":"Qianzi Zhang, Dongpang Chen, Hanting Ding, Qihui Li, Siyu Yuan, Haobin Li, Wutai Guan, Shihai Zhang","doi":"10.1038/s41522-025-00752-4","DOIUrl":"10.1038/s41522-025-00752-4","url":null,"abstract":"Lactation is essential for supporting neonatal growth and development, and its regulation is influenced by the gut microbiota. However, the role of gut microbes in lactation under conditions of oxidative stress remains unclear. In this study, we identify a novel function for gut microbiota in regulating maternal lactation through the modulation of ferroptosis in the mammary gland under oxidative stress. We identify Lactobacillus amylovorus (L. amylovorus), enriched in mothers with low oxidative stress, as negatively correlating with both oxidative stress and ferroptosis. In a mouse model, L. amylovorus alleviates mammary ferroptosis and promotes lactation. In addition to producing of short-chain fatty acids, L. amylovorus secretes bacterial extracellular vesicles (BEVs) enriched in oleic acid, a monounsaturated fatty acid that can be transferred to the mammary gland. Mechanistically, the accumulation of oleic acid in mammary epithelial cells enhances their resistance to ferroptosis, thereby supporting milk production. These findings highlight the potential of L. amylovorus and its BEVs as therapeutic tools to counteract oxidative stress-induced lactation decline.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"113"},"PeriodicalIF":7.8,"publicationDate":"2025-06-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12182568/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144340301","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

Genomic evidence for flies as carriers of zoonotic pathogens on dairy farms. 苍蝇作为奶牛农场人畜共患病病原体携带者的基因组证据。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-19 DOI: 10.1038/s41522-025-00685-y

Andrew J Sommer, Joseph H Skarlupka, Serafino Teseo, Saria Otani, Garret Suen, Kerri L Coon, Panagiotis Sapountzis

{"title":"Genomic evidence for flies as carriers of zoonotic pathogens on dairy farms.","authors":"Andrew J Sommer, Joseph H Skarlupka, Serafino Teseo, Saria Otani, Garret Suen, Kerri L Coon, Panagiotis Sapountzis","doi":"10.1038/s41522-025-00685-y","DOIUrl":"10.1038/s41522-025-00685-y","url":null,"abstract":"Dairy farms are major reservoirs of zoonotic bacterial pathogens, which harbor antimicrobial resistance genes (ARGs), and raise critical questions about their dissemination on and off the farm environment. Here, we investigated the role of coprophagous muscid flies (Diptera: Muscidae) as carriers of zoonotic pathogens and antimicrobial resistance. We collected cow manure and flies on a dairy farm and used shotgun metagenomics to identify the presence of clinically relevant bacteria, virulence factors, and ARGs in both environments. Our results reveal that, although the fly microbiome is largely composed of manure-associated taxa, they also harbor specific insect-associated bacteria, which may be involved in nutrient provisioning to the host. Furthermore, we identifed shared ARGs, virulence factors, and zoonotic pathogens enriched within the fly gastrointestinal tract (GIT). Our study illustrates the potential flow of pathogenic microorganisms from manure to coprophagous flies, suggesting that flies may pose an important zoonotic threat on dairy farms.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"111"},"PeriodicalIF":7.8,"publicationDate":"2025-06-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12179284/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144333627","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

Tanzanian gut microbiota profiles linked to high but rapidly waning yellow fever antibody titers. 坦桑尼亚的肠道微生物群与黄热病抗体滴度高但迅速下降有关。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-19 DOI: 10.1038/s41522-025-00687-w

Jeremia J Pyuza, Marloes M A R van Dorst, David Barnett, Koen Stam, Mikhael Manurung, Linda Wammes, Marion König, Yvonne Kruize, Nikuntufya Andongolile, Anastazia Ngowi, Elichilia R Shao, Vesla I Kullaya, Alex Mremi, Pancras C W Hogendoorn, Sia E Msuya, Simon P Jochems, John Penders, Maria Yazdanbakhsh, Wouter A A de Steenhuijsen Piters

{"title":"Tanzanian gut microbiota profiles linked to high but rapidly waning yellow fever antibody titers.","authors":"Jeremia J Pyuza, Marloes M A R van Dorst, David Barnett, Koen Stam, Mikhael Manurung, Linda Wammes, Marion König, Yvonne Kruize, Nikuntufya Andongolile, Anastazia Ngowi, Elichilia R Shao, Vesla I Kullaya, Alex Mremi, Pancras C W Hogendoorn, Sia E Msuya, Simon P Jochems, John Penders, Maria Yazdanbakhsh, Wouter A A de Steenhuijsen Piters","doi":"10.1038/s41522-025-00687-w","DOIUrl":"10.1038/s41522-025-00687-w","url":null,"abstract":"Vaccine responses vary across populations and are influenced by numerous intrinsic and extrinsic factors, including the gut microbiota. However, studies linking microbiota composition to vaccine immunogenicity in low- and middle-income countries are sparse. In this study, we examined the gut microbiota of 143 healthy rural and urban living Tanzanians who participated in a yellow fever vaccine (YF-17D) trial. We found significant differences in gut microbiota profiles between rural and urban participants. Rural-associated microbiota showed higher diversity and enrichment of taxa like Prevotella and Succinivibrio, which were linked to dietary intake patterns. Yellow fever neutralizing antibody titers were higher in rural compared to urban participants. Interestingly, a subset of urban individuals with a rural-like microbiota had higher antibody titers and faster antibody waning than those with a more industrialized microbiota. These findings suggest that gut microbiota composition might be linked to vaccine immunogenicity, potentially outweighing the influence of living location.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"110"},"PeriodicalIF":7.8,"publicationDate":"2025-06-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12179272/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144333628","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

M.marinum lacking epsH shows increased biofilm formation in vitro and boosted antibiotic tolerance in zebrafish. 缺乏epsH的marinum在斑马鱼中显示出体外生物膜形成增加和抗生素耐受性增强。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2025-06-14 DOI: 10.1038/s41522-025-00743-5

Saara Lehmusvaara, Alina Sillanpää, Milan Wouters, Rosa Korhonen, Nelli Vahvelainen, Hanna Luukinen, Paulina Deptula, Kirsi Savijoki, Milka Hammarén, Mataleena Parikka

{"title":"M.marinum lacking epsH shows increased biofilm formation in vitro and boosted antibiotic tolerance in zebrafish.","authors":"Saara Lehmusvaara, Alina Sillanpää, Milan Wouters, Rosa Korhonen, Nelli Vahvelainen, Hanna Luukinen, Paulina Deptula, Kirsi Savijoki, Milka Hammarén, Mataleena Parikka","doi":"10.1038/s41522-025-00743-5","DOIUrl":"10.1038/s41522-025-00743-5","url":null,"abstract":"Recent discoveries have indicated that biofilm communities may play a role in natural drug tolerance of Mycobacterium tuberculosis. A transposon-based mutation library of a closely related species, Mycobacterium marinum, was used to identify clones in which the relative amount of extracellular DNA (eDNA), an important component of the extracellular matrix of biofilms, is altered. The disruption of a putative glycosyl transferase gene QDR78 11175, epsH, caused a substantial increase of the eDNA content of biofilms, and increased the growth rate and the biomass/cell in biofilm-forming conditions compared to wild-type. The increased abundance of biomass was mainly due to the elevated levels of eDNA and proteins in the extracellular matrix. The growth of the ΔepsH strain in the zebrafish was normal, but the mutant developed greater antibiotic tolerance in the adult zebrafish model. These results suggest that the extracellular matrix of biofilms increases antibiotic tolerance of mycobacteria during infection.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"11 1","pages":"109"},"PeriodicalIF":7.8,"publicationDate":"2025-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12167362/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144294078","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