Results 81 to 90 of about 49,742 (293)

MGM as a Large‐Scale Pretrained Foundation Model for Microbiome Analyses in Diverse Contexts

Advanced Science, EarlyView.
We present the Microbial General Model (MGM), a transformer‐based foundation model pretrained on over 260,000 microbiome samples. MGM learns contextualized microbial representations via self‐supervised language modeling, enabling robust transfer learning, cross‐regional generalization, keystone taxa discovery, and prompt‐guided generation of realistic,
Haohong Zhang, Yuli Zhang, Zixin Kang, Jiayun Xiong, Ronghua Yang, Kang Ning   +5 more
wiley   +1 more source

MetaSort untangles metagenome assembly by reducing microbial community complexity

Nature Communications, 2017
AbstractMost current approaches to analyse metagenomic data rely on reference genomes. Novel microbial communities extend far beyond the coverage of reference databases and de novo metagenome assembly from complex microbial communities remains a great challenge.
Peifeng Ji, Yanming Zhang, Jinfeng Wang, Fangqing Zhao   +3 more
openaire   +3 more sources

Programmable Klebsiella pneumoniae Phage Tropism Enabled by Scalable Receptor‐Binding Protein Mining and Modular Assembly

Advanced Science, EarlyView.
This work introduces a scalable, data‐driven strategy that turns the vast sequence diversity of phage receptor‐binding proteins into modular tools for engineering customizable phages. By clustering and experimentally validating diverse RBPs, the authors build an accurate map linking sequence to host specificity and create plug‐and‐play modules that ...
Shisong Jing, Yiyao Song, Xianbiao Bi, Yuqin Song, Dawei Wei, Jiangqing Huang, Yuan Zeng, Gang Zhang, Rong Zhang, Chao Wang, Jie Feng   +10 more
wiley   +1 more source

Community quorum sensing signalling and quenching: microbial granular biofilm assembly [PDF]

npj Biofilms and Microbiomes, 2015
Abstract Background: Recent reports exploring the role of gradients of quorum sensing (QS) signals in functional activated sludge have raised the question of whether shared systems of signalling synthesis and degradation, or quorum quenching (QQ), across the community inform of the means by which QS biology regulate ...
Chuan Hao Tan, Kai Shyang Koh, Chao Xie, Joela Zhang, Xiao Hui Tan, Guo Ping Lee, Yan Zhou, Wun Jern Ng, Scott A Rice, Staffan Kjelleberg   +9 more
openaire   +4 more sources

Protection and Delivery of Phytochemicals from Passive Encapsulation to Guaranteed Self‐Assembly Induced by Amyloid Template for Chronic Disease Prevention via Modulating Microbial‐Host Crosstalk

Advanced Science, EarlyView.
ABSTRACT The rising incidence of chronic diseases globally has drawn widespread attention to phytochemicals, which exert targeted preventive and alleviating effect by modulating gut microbiota; thus, a potential strategy for precision nutritional interventions is offered.
Shiqi Bai, Siying Cheng, Fengguang Ma, Xiaorong Zhang, Jianan Huang, Zhonghua Liu, Bing Hu   +6 more
wiley   +1 more source

Alternating High‐Fat and Polysaccharide Diets Modulates Gut Phage‐Bacterial Interplay

Advanced Science, EarlyView.
This study reveals how alternating high‐fat and polysaccharide diets reshape the human gut virome and enhance phage‐bacteria interactions. Using large‐scale metagenomic meta‐analysis and a time‐resolved mouse model, the authors show that diets strongly modulate phage abundance, lifestyle, and gene exchange, offering new insights into nutrition‐guided ...
Fengxiang Zhao, Ruiqi Zhang, Rujun Wei, Huimin Fan, Yongfei Hu, Wenyu Shi, Jinfeng Wang   +6 more
wiley   +1 more source

The potential to produce tropodithietic acid by Phaeobacter inhibens affects the assembly of microbial biofilm communities in natural seawater

npj Biofilms and Microbiomes, 2023
Microbial secondary metabolites play important roles in biotic interactions in microbial communities and yet, we do not understand how these compounds impact the assembly and development of microbial communities.
Pernille Kjersgaard Bech, Sheng-Da Zhang, Nathalie Nina Suhr Eiris Henriksen, Mikkel Bentzon-Tilia, Mikael Lenz Strube, Lone Gram   +5 more
doaj   +1 more source

Attenuated Bacteria‐Based Tumor Therapy: Clinical Application Risks, Marketing Approval Restrictions, and Coping Strategies

Advanced Science, EarlyView.
This review comprehensively overviews attenuated bacteria‐based tumor therapy, highlighting key methodologies and recent progress. It examines strategies for enhancing safety, stabilizing efficacy, optimizing manufacturing, and navigating regulatory pathways.
Yucheng Liu, Junhong Yao, Jiaxin Deng, Minjie Zhou, Kaiyue Shen, Shishuo Sun, Xiaoge Gao, Qing Zhang, Haiheng Xu   +8 more
wiley   +1 more source

Metabolic similarity and the predictability of microbial community assembly

, 2023
AbstractWhen microbial communities form, their composition is shaped by selective pressures imposed by the environment. Can we predict which communities will assemble under different environmental conditions? Here, we hypothesize that quantitative similarities in metabolic traits across metabolically similar environments lead to predictable ...
Jean C.C. Vila, Joshua Goldford, Sylvie Estrela, Djordje Bajic, Alicia Sanchez-Gorostiaga, Alejandro Damian-Serrano, Nanxi Lu, Robert Marsland, Maria Rebolleda-Gomez, Pankaj Mehta, Alvaro Sanchez   +10 more
openaire   +2 more sources

Microbial community assembly is taxon- and habitat-dependent in an arid inland river basin, Northwest China

Global Ecology and Conservation
Oasis habitats play a critical role in arid areas, yet little is known regarding microbial community assembly processes and their divergence between oasis and desert habitats in arid inland river basins.
Wenjuan Wang, Yiming Ding, Mingxun Ren, Jingwen Li   +3 more
doaj   +1 more source