npj Biofilms and Microbiomes最新文献_第9页

Not only for corals: exploring the uptake of beneficial microorganisms for corals by sponges. 不仅仅是珊瑚：探索海绵对珊瑚有益微生物的吸收。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-13 DOI: 10.1038/s41522-024-00584-8

Bárbara Ribeiro, Alessandro N Garritano, Inês Raimundo, Nathalia Delgadillo-Ordoñez, Jadranka Nappi, Neus Garcias-Bonet, Helena Villela, Torsten Thomas, Michelle Klautau, Raquel S Peixoto

{"title":"Not only for corals: exploring the uptake of beneficial microorganisms for corals by sponges.","authors":"Bárbara Ribeiro, Alessandro N Garritano, Inês Raimundo, Nathalia Delgadillo-Ordoñez, Jadranka Nappi, Neus Garcias-Bonet, Helena Villela, Torsten Thomas, Michelle Klautau, Raquel S Peixoto","doi":"10.1038/s41522-024-00584-8","DOIUrl":"10.1038/s41522-024-00584-8","url":null,"abstract":"Microbiome restoration using beneficial microorganisms for corals (BMCs) comprise a promising strategy to help corals cope with anthropogenic stressors. However, there is limited knowledge on the uptake of BMCs by nontarget animals, especially sponges. This study explores whether sponges can acquire BMCs upon direct application and whether inoculations affect sponge health. A 4-week field experiment applying BMCs to Stylissa carteri and Callyspongia crassa assessed three conditions: no inoculation, and BMCs inoculation once and thrice a week. BMC-related strains were naturally present in the seawater and the microbiome of S. carteri. These strains were enriched in response to the inoculation only in the S. carteri microbiome. Microbiomes of both sponges were restructured; sponges were visually healthy and efficiently pumped water at the end of the experiment. These results suggest that sponges can be enriched with BMC-related strains, and that BMC application on nearby corals is unlikely to negatively affect sponge health.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"125"},"PeriodicalIF":7.8,"publicationDate":"2024-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11561086/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142625016","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

Bacterial-host adhesion dominated by collagen subtypes remodelled by osmotic pressure. 渗透压重塑的胶原亚型主导细菌-宿主粘附。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-12 DOI: 10.1038/s41522-024-00600-x

Hongwei Xu, Yuting Feng, Yongtao Du, Yiming Han, Xiaocen Duan, Ying Jiang, Liya Su, Xiaozhi Liu, Siying Qin, Kangmin He, Jianyong Huang

{"title":"Bacterial-host adhesion dominated by collagen subtypes remodelled by osmotic pressure.","authors":"Hongwei Xu, Yuting Feng, Yongtao Du, Yiming Han, Xiaocen Duan, Ying Jiang, Liya Su, Xiaozhi Liu, Siying Qin, Kangmin He, Jianyong Huang","doi":"10.1038/s41522-024-00600-x","DOIUrl":"10.1038/s41522-024-00600-x","url":null,"abstract":"Environmental osmolarity plays a crucial role in regulating the functions and behaviors of both host cells and pathogens. However, it remains unclear whether and how environmental osmotic stimuli modulate bacterial‒host interfacial adhesion. Using single-cell force spectroscopy, we revealed that the interfacial adhesion force depended nonlinearly on the osmotic prestimulation of host cells but not bacteria. Quantitatively, the adhesion force increased dramatically from 25.98 nN under isotonic conditions to 112.45 or 93.10 nN after the host cells were treated with the hypotonic or hypertonic solution. There was a strong correlation between the adhesion force and the number of host cells harboring adherent/internalized bacteria. We further revealed that enhanced overexpression levels of collagen XV and II were responsible for the increases in interfacial adhesion under hypotonic and hypertonic conditions, respectively. This work provides new opportunities for developing host-directed antibacterial strategies related to interfacial adhesion from a mechanobiological perspective.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"124"},"PeriodicalIF":7.8,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11557999/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142624997","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

Microbial solutions must be deployed against climate catastrophe. 必须采用微生物解决方案来应对气候灾难。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-11 DOI: 10.1038/s41522-024-00591-9

Raquel Peixoto, Christian R Voolstra, Lisa Y Stein, Philip Hugenholtz, Joana Falcao Salles, Shady A Amin, Max Häggblom, Ann Gregory, Thulani P Makhalanyane, Fengping Wang, Nadège Adoukè Agbodjato, Yinzhao Wang, Nianzhi Jiao, Jay T Lennon, Antonio Ventosa, Patrik M Bavoil, Virginia Miller, Jack A Gilbert

引用次数: 0

Role of intestinal testosterone-degrading bacteria and 3/17β-HSD in the pathogenesis of testosterone deficiency-induced hyperlipidemia in males. 肠道睾酮降解菌和 3/17β-HSD 在男性睾酮缺乏引发的高脂血症发病机制中的作用。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-09 DOI: 10.1038/s41522-024-00599-1

Jun Tao, Wen Dai, Yongnan Lyu, Hang Liu, Juan Le, Ting Sun, Qian Yao, Zhiming Zhao, Xuejun Jiang, Yan Li

{"title":"Role of intestinal testosterone-degrading bacteria and 3/17β-HSD in the pathogenesis of testosterone deficiency-induced hyperlipidemia in males.","authors":"Jun Tao, Wen Dai, Yongnan Lyu, Hang Liu, Juan Le, Ting Sun, Qian Yao, Zhiming Zhao, Xuejun Jiang, Yan Li","doi":"10.1038/s41522-024-00599-1","DOIUrl":"10.1038/s41522-024-00599-1","url":null,"abstract":"Testosterone deficiency can cause abnormal lipid metabolism in men, leading to hyperlipidemia. We identified the testosterone-degrading bacterium Pseudomonas nitroreducens in the fecal samples of male patients with hyperlipidemia. Gastric administration of P. nitroreducens in mice led to testosterone deficiency and elevated blood lipid levels. Whole-genome sequencing of P. nitroreducens revealed the presence of 3/17β-hydroxysteroid dehydrogenase (3/17β-HSD), a gene responsible for testosterone degradation, which is also associated with hyperlipidemia. Microbiota analysis of fecal samples collected from 158 patients with hyperlipidemia and 151 controls revealed that the relative abundance of P. nitroreducens and 3/17β-HSD in the fecal samples of patients with hyperlipidemia was significantly higher than that in controls. These results suggest that P. nitroreducens and 3/17β-HSD may be related to the onset of testosterone deficiency-induced hyperlipidemia. Therefore, treatments targeted at eradicating testosterone-degrading bacteria are a potential future option for patients with testosterone-induced hyperlipidemia and should thus be studied further.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"123"},"PeriodicalIF":7.8,"publicationDate":"2024-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11550401/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142625020","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

Microbial diversity and secondary metabolism potential in relation to dark alterations in Paleolithic Lascaux Cave. 旧石器时代拉斯科洞穴中与黑暗变化有关的微生物多样性和次级代谢潜力。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-06 DOI: 10.1038/s41522-024-00589-3

Zélia Bontemps, Danis Abrouk, Sita Venier, Pierre Vergne, Serge Michalet, Gilles Comte, Yvan Moënne-Loccoz, Mylène Hugoni

{"title":"Microbial diversity and secondary metabolism potential in relation to dark alterations in Paleolithic Lascaux Cave.","authors":"Zélia Bontemps, Danis Abrouk, Sita Venier, Pierre Vergne, Serge Michalet, Gilles Comte, Yvan Moënne-Loccoz, Mylène Hugoni","doi":"10.1038/s41522-024-00589-3","DOIUrl":"10.1038/s41522-024-00589-3","url":null,"abstract":"Tourism in Paleolithic caves can cause an imbalance in cave microbiota and lead to cave wall alterations, such as dark zones. However, the mechanisms driving dark zone formation remain unclear. Using shotgun metagenomics in Lascaux Cave's Apse and Passage across two years, we tested metabarcoding-derived functional hypotheses regarding microbial diversity and metabolic potential in dark zones vs unmarked surfaces nearby. Taxonomic and functional metagenomic profiles were consistent across years but divergent between cave locations. Aromatic compound degradation genes were prevalent inside and outside dark zones, as expected from past biocide usage. Dark zones exhibited enhanced pigment biosynthesis potential (melanin and carotenoids) and melanin was evidenced chemically, while unmarked surfaces showed genes for antimicrobials production, suggesting that antibiosis might restrict the development of pigmented microorganisms and dark zone extension. Thus, this work revealed key functional microbial traits associated with dark zone formation, which helps understand cave alteration processes under severe anthropization.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"121"},"PeriodicalIF":7.8,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11541736/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142591321","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

Large-scale metagenomic assembly provide new insights into the genetic evolution of gut microbiomes in plateau ungulates. 大规模元基因组组装为了解高原蹄类动物肠道微生物群的遗传进化提供了新的视角。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-06 DOI: 10.1038/s41522-024-00597-3

Bo Xu, Pengfei Song, Feng Jiang, Zhenyuan Cai, Haifeng Gu, Hongmei Gao, Bin Li, Chengbo Liang, Wen Qin, Jingjie Zhang, Jingyan Yan, Daoxin Liu, Guo Sun, Tongzuo Zhang

{"title":"Large-scale metagenomic assembly provide new insights into the genetic evolution of gut microbiomes in plateau ungulates.","authors":"Bo Xu, Pengfei Song, Feng Jiang, Zhenyuan Cai, Haifeng Gu, Hongmei Gao, Bin Li, Chengbo Liang, Wen Qin, Jingjie Zhang, Jingyan Yan, Daoxin Liu, Guo Sun, Tongzuo Zhang","doi":"10.1038/s41522-024-00597-3","DOIUrl":"10.1038/s41522-024-00597-3","url":null,"abstract":"Trillions of microbes colonize the ungulate gastrointestinal tract, playing a pivotal role in enhancing host nutrient utilization by breaking down cellulose and hemicellulose present in plants. Here, through large-scale metagenomic assembly, we established a catalog of 131,416 metagenome-assembled genomes (MAGs) and 11,175 high-quality species-level genome bins (SGBs) from 17 species of ungulates in China. Our study revealed the convergent evolution of high relative abundances of carbohydrate-active enzymes (CAZymes) in the gut microbiomes of plateau-dwelling ungulates. Notably, two significant factors contribute to this phenotype: structural variations in their gut microbiome genomes, which contain more CAZymes, and the presence of novel gut microbiota species, particularly those in the genus Cryptobacteroides, which are undergoing independent rapid evolution and speciation and have higher gene densities of CAZymes. Furthermore, these enrichment CAZymes in the gut microbiomes are highly enrichment in known metabolic pathways for short-chain fatty acid (SCFA) production. Our findings not only provide a valuable genomic resource for understanding the gut microbiomes of ungulates but also offer fresh insights into the interaction between gut microbiomes and their hosts, as well as the co-adaptation of hosts and their gut microbiomes to their environments.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"120"},"PeriodicalIF":7.8,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11541592/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142591319","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

Combating biofilm-associated Klebsiella pneumoniae infections using a bovine microbial enzyme. 利用牛微生物酶对抗生物膜相关的肺炎克雷伯菌感染。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-05 DOI: 10.1038/s41522-024-00593-7

Reshma Ramakrishnan, Abhilash V Nair, Kirti Parmar, Raju S Rajmani, Dipshikha Chakravortty, Debasis Das

{"title":"Combating biofilm-associated Klebsiella pneumoniae infections using a bovine microbial enzyme.","authors":"Reshma Ramakrishnan, Abhilash V Nair, Kirti Parmar, Raju S Rajmani, Dipshikha Chakravortty, Debasis Das","doi":"10.1038/s41522-024-00593-7","DOIUrl":"10.1038/s41522-024-00593-7","url":null,"abstract":"The emergence of multidrug-resistant Klebsiella pneumoniae poses significant clinical challenges with limited treatment options. Biofilm is an important virulence factor of K. pneumoniae, serving as a protective barrier against antibiotics and the immune system. Here, we present the remarkable ability of a bovine microbial enzyme to prevent biofilm formation (IC50 2.50 μM) and degrade pre-formed K. pneumoniae biofilms (EC50 1.94 μM) by degrading the matrix polysaccharides. The treatment was effective against four different clinical K. pneumoniae isolates tested. Moreover, the enzyme significantly improved the biofilm sensitivity of a poorly performing broad-spectrum antibiotic, meropenem, and immune cells, resulting in facile biofilm clearance from the mouse wound infection. Notably, well-known powerful enzymes of the same class, cellulase, and α-amylase, were nearly inactive against the K. pneumoniae biofilms. The enzyme exhibited antibiofilm activity without showing toxicity to the mammalian and microbial cells, highlighting the potential of the enzyme for in vivo applications.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"119"},"PeriodicalIF":7.8,"publicationDate":"2024-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11538315/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142583579","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

Kinetics of imidazole propionate from orally delivered histidine in mice and humans. 小鼠和人类口服组氨酸咪唑丙酸盐的动力学。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-04 DOI: 10.1038/s41522-024-00592-8

Moritz V Warmbrunn, Ilias Attaye, Anthony Horak, Rakhee Banerjee, William J Massey, Venkateshwari Varadharajan, Elena Rampanelli, Youling Hao, Sumita Dutta, Ina Nemet, Judith Aron-Wisnewsky, Karine Clément, Annefleur Koopen, Koen Wortelboer, Per-Olof Bergh, Mark Davids, Nadia Mohamed, E Marleen Kemper, Stanley Hazen, Albert K Groen, Daniel H van Raalte, Hilde Herrema, Fredrik Backhed, J Mark Brown, Max Nieuwdorp

{"title":"Kinetics of imidazole propionate from orally delivered histidine in mice and humans.","authors":"Moritz V Warmbrunn, Ilias Attaye, Anthony Horak, Rakhee Banerjee, William J Massey, Venkateshwari Varadharajan, Elena Rampanelli, Youling Hao, Sumita Dutta, Ina Nemet, Judith Aron-Wisnewsky, Karine Clément, Annefleur Koopen, Koen Wortelboer, Per-Olof Bergh, Mark Davids, Nadia Mohamed, E Marleen Kemper, Stanley Hazen, Albert K Groen, Daniel H van Raalte, Hilde Herrema, Fredrik Backhed, J Mark Brown, Max Nieuwdorp","doi":"10.1038/s41522-024-00592-8","DOIUrl":"10.1038/s41522-024-00592-8","url":null,"abstract":"Imidazole Propionate (ImP), a gut-derived metabolite from histidine, affects insulin signaling in mice and is elevated in type 2 diabetes (T2D). However, the source of histidine and the role of the gut microbiota remain unclear. We conducted an intervention study in mice and humans, comparing ImP kinetics in mice on a high-fat diet with varying histidine levels and antibiotics, and assessed ImP levels in healthy and T2D subjects with histidine supplementation. Results show that dietary histidine is metabolized to ImP, with antibiotic-induced gut microbiota suppression reducing ImP levels in mice. In contrast, oral histidine supplementation resulted in increases in circulating ImP levels in humans, whereas antibiotic treatment increased ImP levels, which was associated with a bloom of several bacterial genera that have been associated with ImP production, such as Lactobacilli. Our findings highlight the gut microbiota's crucial role in regulating ImP and the complexity of translating mouse models to humans.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"118"},"PeriodicalIF":7.8,"publicationDate":"2024-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11535228/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142576712","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

Autoinducer-2 relieves soil stress-induced dormancy of Bacillus velezensis by modulating sporulation signaling. 自诱导因子-2通过调节孢子信号转导缓解土壤胁迫诱导的韦氏芽孢杆菌休眠。

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-11-03 DOI: 10.1038/s41522-024-00594-6

Qin Xiong, Huihui Zhang, Xia Shu, Xiting Sun, Haichao Feng, Zhihui Xu, Ákos T Kovács, Ruifu Zhang, Yunpeng Liu

{"title":"Autoinducer-2 relieves soil stress-induced dormancy of Bacillus velezensis by modulating sporulation signaling.","authors":"Qin Xiong, Huihui Zhang, Xia Shu, Xiting Sun, Haichao Feng, Zhihui Xu, Ákos T Kovács, Ruifu Zhang, Yunpeng Liu","doi":"10.1038/s41522-024-00594-6","DOIUrl":"10.1038/s41522-024-00594-6","url":null,"abstract":"The collective behavior of bacteria is regulated by quorum sensing (QS). Autoinducer-2 (AI-2) is a common QS signal that regulates the behavior of both Gram-positive and Gram-negative bacteria. Despite the plethora of processes described to be influenced by AI-2 in diverse Gram-negative bacteria, the AI-2-regulated processes in Bacilli are relatively unexplored. Here, we describe a novel function for AI-2 in Bacillus velezensis SQR9 related to the sporulation. AI-2 inhibited the initiation of sporulation through the phosphatase RapC and the DNA binding regulator ComA. Using biochemistry experiments, we demonstrated that AI-2 interacts with RapC to stimulate its binding to ComA, which leads to an inactive ComA and subsequently a sporulation inhibition. The AI-2 molecule could be shared across species for inhibiting Bacillus sporulation and it also plays the same role in different soil conditions. Our study revealed a novel function and regulatory mechanism of AI-2 in inhibiting sporulation in Bacilli.","PeriodicalId":19370,"journal":{"name":"npj Biofilms and Microbiomes","volume":"10 1","pages":"117"},"PeriodicalIF":7.8,"publicationDate":"2024-11-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11532509/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142569111","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

Author Correction: Secreted nucleases reclaim extracellular DNA during biofilm development. 作者更正：分泌型核酸酶在生物膜发育过程中回收胞外 DNA

IF 7.8 1区生物学

npj Biofilms and Microbiomes Pub Date : 2024-10-31 DOI: 10.1038/s41522-024-00595-5

Stephen M Lander, Garth Fisher, Blake A Everett, Peter Tran, Arthur Prindle

引用次数: 0