iMeta最新文献

{"title":"The rheumatoid arthritis gut microbial biobank reveals core microbial species that associate and effect on host inflammation and autoimmune responses","authors":"Hao-Jie Huang,&nbsp;Chang Liu,&nbsp;Xin-Wei Sun,&nbsp;Rui-Qi Wei,&nbsp;Ling-Wei Liu,&nbsp;Hao-Yu Chen,&nbsp;Rashidin Abdugheni,&nbsp;Chang-Yu Wang,&nbsp;Xiao-Meng Wang,&nbsp;He Jiang,&nbsp;Han-Yu Niu,&nbsp;Li-Juan Feng,&nbsp;Jia-Hui He,&nbsp;Yu Jiang,&nbsp;Yan Zhao,&nbsp;Yu-Lin Wang,&nbsp;Qiang Shu,&nbsp;Ming-Xia Bi,&nbsp;Lei Zhang,&nbsp;Bin Liu,&nbsp;Shuang-Jiang Liu","doi":"10.1002/imt2.242","DOIUrl":"https://doi.org/10.1002/imt2.242","url":null,"abstract":"<p>Gut microbiota dysbiosis has been implicated in rheumatoid arthritis (RA) and influences disease progression. Although molecular and culture-independent studies revealed RA patients harbored a core microbiome and had characteristic bacterial species, the lack of cultured bacterial strains had limited investigations on their functions. This study aimed to establish an RA-originated gut microbial biobank (RAGMB) that covers and further to correlates and validates core microbial species on clinically used and diagnostic inflammation and immune indices. We obtained 3200 bacterial isolates from fecal samples of 20 RA patients with seven improved and 11 traditional bacterial cultivation methods. These isolates were phylogenetically identified and selected for RAGMB. The RAGMB harbored 601 bacterial strains that represented 280 species (including 43 novel species) of seven bacterial phyla. The RAGMB covered 93.2% at species level of medium- and high-abundant (relative abundances ≥0.2%) RA gut microbes, and included four rare species of the phylum <i>Synergistota</i>. The RA core gut microbiome was defined and composed of 20 bacterial species. Among these, <i>Mediterraneibacter tenuis</i> and <i>Eubacterium rectale</i> were two species that statistically and significantly correlated with clinically used diagnostic indices such as erythrocyte sedimentation rate (ESR) and IL-10. Thus, <i>M. tenuis</i> and <i>E. rectale</i> were selected for experimental validation using DSS-treated and not DSS-treated mice model. Results demonstrated both <i>M. tenuis</i> and <i>E. rectale</i> exacerbated host inflammatory responses, including shortened colon length and increased spleen weight, decreased IL-10 and increased IL-17A levels in plasma. Overall, we established the RAGMB, defined the RA core microbiome, correlated and demonstrated core microbial species effected on host inflammatory and immune responses. This work provides diverse gut microbial resources for future studies on RA etiology and potential new targets for new biomedical practices.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-10-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.242","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449103","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}

{"title":"Akkermansia muciniphila administration ameliorates streptozotocin-induced hyperglycemia and muscle atrophy by promoting IGF2 secretion from mouse intestine","authors":"Chi Zhang,&nbsp;Zhihong Wang,&nbsp;Xu Liu,&nbsp;Xiangpeng Liu,&nbsp;Tong Liu,&nbsp;Yu Feng,&nbsp;Zhengrong Yuan,&nbsp;Zhihao Jia,&nbsp;Yong Zhang","doi":"10.1002/imt2.237","DOIUrl":"https://doi.org/10.1002/imt2.237","url":null,"abstract":"<p>Type 1 diabetes mellitus (T1DM) is an autoimmune disease that can lead to severe diabetic complications. While the changes and correlations between gut microbiota and the pathogenesis of T1DM have been extensively studied, little is known about the benefits of interventions on gut bacterial communities, particularly using probiotics, for this disease. In the present study, we reported that the mice surviving after 5 months of streptozotocin (STZ) injection had reduced blood glucose level and recovered gut microbiota with increased <i>Akkermansia muciniphila</i> proportion. Gavage of heat-killed <i>A. muciniphila</i> increases the diversity of gut microbiota and elevated immune and metabolic signaling pathways in the intestine. Mechanistically, <i>A. muciniphila</i> treatment promoted the secretion of insulin-like growth factor 2 (IGF2) which subsequently activated IGF2 signaling in skeletal muscles and enhanced muscle and global metabolism. Our results suggest that the administration of heat-killed <i>A. muciniphila</i> could be a potential therapeutic strategy for T1DM and its associated hyperglycemia.\u0000\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.237","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449073","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}

{"title":"iNAP 2.0: Harnessing metabolic complementarity in microbial network analysis","authors":"Xi Peng,&nbsp;Kai Feng,&nbsp;Xingsheng Yang,&nbsp;Qing He,&nbsp;Bo Zhao,&nbsp;Tong Li,&nbsp;Shang Wang,&nbsp;Ye Deng","doi":"10.1002/imt2.235","DOIUrl":"https://doi.org/10.1002/imt2.235","url":null,"abstract":"<p>With the widespread adoption of metagenomic sequencing, new perspectives have emerged for studying microbial ecological networks, yielding metabolic evidence of interspecies interactions that traditional co-occurrence networks cannot infer. This protocol introduces the integrated Network Analysis Pipeline 2.0 (iNAP 2.0), which features an innovative metabolic complementarity network for microbial studies from metagenomics sequencing data. iNAP 2.0 sets up a four-module process for metabolic interaction analysis, namely: (I) Prepare genome-scale metabolic models; (II) Infer pairwise interactions of genome-scale metabolic models; (III) Construct metabolic interaction networks; and (IV) Analyze metabolic interaction networks. Starting from metagenome-assembled or complete genomes, iNAP 2.0 offers a variety of methods to quantify the potential and trends of metabolic complementarity between models, including the PhyloMint pipeline based on phylogenetic distance-adjusted metabolic complementarity, the SMETANA (species metabolic interaction analysis) approach based on cross-feeding substrate exchange prediction, and metabolic distance calculation based on parsimonious flux balance analysis (pFBA). Notably, iNAP 2.0 integrates the random matrix theory (RMT) approach to find the suitable threshold for metabolic interaction network construction. Finally, the metabolic interaction networks can proceed to analysis using topological feature analysis such as hub node determination. In addition, a key feature of iNAP 2.0 is the identification of potentially transferable metabolites between species, presented as intermediate nodes that connect microbial nodes in the metabolic complementarity network. To illustrate these new features, we use a set of metagenome-assembled genomes as an example to comprehensively document the usage of the tools. iNAP 2.0 is available at https://inap.denglab.org.cn for all users to register and use for free.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.235","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449229","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}

{"title":"Interaction between intestinal mycobiota and microbiota shapes lung inflammation","authors":"Youxia Wang,&nbsp;Fang He,&nbsp;Bingnan Liu,&nbsp;Xiaoyan Wu,&nbsp;Ziyi Han,&nbsp;Xuefei Wang,&nbsp;Yuexia Liao,&nbsp;Jielin Duan,&nbsp;Wenkai Ren","doi":"10.1002/imt2.241","DOIUrl":"https://doi.org/10.1002/imt2.241","url":null,"abstract":"<p>Gut microbiota is an intricate microbial community containing bacteria, fungi, viruses, archaea, and protozoa, and each of them contributes to diverse aspects of host health. Nevertheless, the influence of interaction among gut microbiota on host health remains uncovered. Here, we showed that the interaction between intestinal fungi and bacteria shaped lung inflammation during infection. Specifically, antifungal drug-induced dysbiosis of gut mycobiota enhanced lung inflammation during infection. Dysbiosis of gut mycobiota led to gut <i>Escherichia coli</i> (<i>E. coli</i>) overgrowth and translocation to the lung during infection, which induced lung accumulation of the CD45⁺F4/80⁺Ly6G⁻Ly6C⁻CD11b⁺CD11c⁺ macrophages. Clearance of macrophages or deletion of TLR4 (Toll-like receptor 4, recognition of LPS) rather than Dectin-1 (recognition of beta-1,3/1,6 glucans on fungi) blocked the antifungal drug-induced aggravation of lung inflammation during infection. These findings suggest that the interaction between intestinal mycobiota and commensal bacteria affects host health through the gut–lung axis, offering a potential therapeutic target for ameliorating lung inflammation during infection.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.241","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142451157","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}

{"title":"ImageGP 2 for enhanced data visualization and reproducible analysis in biomedical research","authors":"Tong Chen,&nbsp;Yong-Xin Liu,&nbsp;Tao Chen,&nbsp;Mei Yang,&nbsp;Siqing Fan,&nbsp;Minglei Shi,&nbsp;Buqing Wei,&nbsp;Huijiao Lv,&nbsp;Wandi Cao,&nbsp;Chongming Wang,&nbsp;Jianzhou Cui,&nbsp;Jiwen Zhao,&nbsp;Yilai Han,&nbsp;Jiao Xi,&nbsp;Ziqiang Zheng,&nbsp;Luqi Huang","doi":"10.1002/imt2.239","DOIUrl":"https://doi.org/10.1002/imt2.239","url":null,"abstract":"<p>ImageGP is an extensively utilized, open-access platform for online data visualization and analysis. Over the past 7 years, it has catered to more than 700,000 usages globally, garnering substantial user feedback. The updated version, ImageGP 2 (available at https://www.bic.ac.cn/BIC), introduces a redesigned interface leveraging cutting-edge web technologies to enhance functionality and user interaction. Key enhancements include the following: (i) Addition of modules for data format transformation, facilitating operations such as matrix merging, subsetting, and transformation between long and wide formats. (ii) Streamlined workflows with features like preparameter selection data validation and grouping of parameters with similar attributes. (iii) Expanded repertoire of visualization functions and analysis tools, including Weighted Gene Co-Expression Network Analysis, differential gene expression analysis, and FASTA sequence processing. (iv) Personalized user space for uploading large data sets, tracking analysis history, and sharing reproducible analysis data, scripts, and results. (v) Enhanced user support through a simplified error debugging feature accessible with a single click. (vi) Introduction of an R package, ImageGP, enabling local data visualization and analysis. These updates position ImageGP 2 as a versatile tool serving both wet-lab and dry-lab researchers with expanded capabilities.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.239","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449210","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}

{"title":"Multi-level insights into the immuno-oncology-microbiome axis: From biotechnology to novel therapies","authors":"Zheshun Pi,&nbsp;Weici Liu,&nbsp;Chenghu Song,&nbsp;Chuandong Zhu,&nbsp;Jiwei Liu,&nbsp;Lu Wang,&nbsp;Zhao He,&nbsp;Chengliang Yang,&nbsp;Lei Wu,&nbsp;Tianshuo Liu,&nbsp;Zijie Geng,&nbsp;Scott J. Tebbutt,&nbsp;Ningning Liu,&nbsp;Yuan Wan,&nbsp;Faming Zhang,&nbsp;Wenjun Mao","doi":"10.1002/imt2.240","DOIUrl":"https://doi.org/10.1002/imt2.240","url":null,"abstract":"<p>The multifaceted interactions among the immune system, cancer cells and microbial components have established a novel concept of the immuno-oncology-microbiome (IOM) axis. Microbiome sequencing technologies have played a pivotal role in not only analyzing how gut microbiota affect local and distant tumors, but also providing unprecedented insights into the intratumor host-microbe interactions. Herein, we discuss the emerging trends of transiting from bulk-level to single cell- and spatial-level analyses. Moving forward with advances in biotechnology, microbial therapies, including microbiota-based therapies and bioengineering-inspired microbes, will add diversity to the current oncotherapy paradigm.\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.240","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142451249","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}

{"title":"LTBR acts as a novel immune checkpoint of tumor-associated macrophages for cancer immunotherapy","authors":"Liang Wang,&nbsp;Jieyi Fan,&nbsp;Sifan Wu,&nbsp;Shilin Cheng,&nbsp;Junlong Zhao,&nbsp;Fan Fan,&nbsp;Chunchen Gao,&nbsp;Rong Qiao,&nbsp;Qiqi Sheng,&nbsp;Yiyang Hu,&nbsp;Yong Zhang,&nbsp;Pengjun Liu,&nbsp;Zhe Jiao,&nbsp;Tiaoxia Wei,&nbsp;Jie Lei,&nbsp;Yan Chen,&nbsp;Hongyan Qin","doi":"10.1002/imt2.233","DOIUrl":"https://doi.org/10.1002/imt2.233","url":null,"abstract":"<p>Tumor-associated macrophages (TAMs) greatly contribute to immune checkpoint inhibitor (ICI) resistance of cancer. However, its underlying mechanisms and whether TAMs can be promising targets to overcome ICI resistance remain to be unveiled. Through integrative analysis of immune multiomics data and single-cell RNA-seq data (iMOS) in lung adenocarcinoma (LUAD), lymphotoxin β receptor (<i>LTBR</i>) is identified as a potential immune checkpoint of TAMs, whose high expression, duplication, and low methylation are correlated with unfavorable prognosis. Immunofluorescence staining shows that the infiltration of LTBR⁺ TAMs is associated with LUAD stages, immunotherapy failure, and poor prognosis. Mechanistically, LTΒR maintains immunosuppressive activity and M2 phenotype of TAMs by noncanonical nuclear factor kappa B and Wnt/β-catenin signaling pathways. Macrophage-specific knockout of <i>LTBR</i> hinders tumor growth and prolongs survival time via blocking TAM immunosuppressive activity and M2 phenotype. Moreover, TAM-targeted delivery of <i>LTΒR</i> small interfering RNA improves the therapeutic effect of ICI via reversing TAM-mediated immunosuppression, such as boosting cytotoxic CD8⁺ T cells and inhibiting granulocytic myeloid-derived suppressor cells infiltration. Taken together, we bring forth an immune checkpoint discovery pipeline iMOS, identify LTBR as a novel immune checkpoint of TAMs, and propose a new immunotherapy strategy by targeting LTBR⁺ TAMs.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.233","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449105","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}

{"title":"Integrating genome- and transcriptome-wide association studies to uncover the host–microbiome interactions in bovine rumen methanogenesis","authors":"Wei Wang,&nbsp;Zhenyu Wei,&nbsp;Zhuohui Li,&nbsp;Jianrong Ren,&nbsp;Yanliang Song,&nbsp;Jingyi Xu,&nbsp;Anguo Liu,&nbsp;Xinmei Li,&nbsp;Manman Li,&nbsp;Huimei Fan,&nbsp;Liangliang Jin,&nbsp;Zhannur Niyazbekova,&nbsp;Wen Wang,&nbsp;Yuanpeng Gao,&nbsp;Yu Jiang,&nbsp;Junhu Yao,&nbsp;Fuyong Li,&nbsp;Shengru Wu,&nbsp;Yu Wang","doi":"10.1002/imt2.234","DOIUrl":"https://doi.org/10.1002/imt2.234","url":null,"abstract":"<p>The ruminal microbiota generates biogenic methane in ruminants. However, the role of host genetics in modifying ruminal microbiota-mediated methane emissions remains mysterious, which has severely hindered the emission control of this notorious greenhouse gas. Here, we uncover the host genetic basis of rumen microorganisms by genome- and transcriptome-wide association studies with matched genome, rumen transcriptome, and microbiome data from a cohort of 574 Holstein cattle. Heritability estimation revealed that approximately 70% of microbial taxa had significant heritability, but only 43 genetic variants with significant association with 22 microbial taxa were identified through a genome-wide association study (GWAS). In contrast, the transcriptome-wide association study (TWAS) of rumen microbiota detected 28,260 significant gene–microbe associations, involving 210 taxa and 4652 unique genes. On average, host genetic factors explained approximately 28% of the microbial abundance variance, while rumen gene expression explained 43%. In addition, we highlighted that TWAS exhibits a strong advantage in detecting gene expression and phenotypic trait associations in direct effector organs. For methanogenic archaea, only one significant signal was detected by GWAS, whereas the TWAS obtained 1703 significant associated host genes. By combining multiple correlation analyses based on these host TWAS genes, rumen microbiota, and volatile fatty acids, we observed that substrate hydrogen metabolism is an essential factor linking host–microbe interactions in methanogenesis. Overall, these findings provide valuable guidelines for mitigating methane emissions through genetic regulation and microbial management strategies in ruminants.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.234","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449104","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}

{"title":"Sangerbox 2: Enhanced functionalities and update for a comprehensive clinical bioinformatics data analysis platform","authors":"Di Chen,&nbsp;Lixia Xu,&nbsp;Huiwu Xing,&nbsp;Weitao Shen,&nbsp;Ziguang Song,&nbsp;Hongjiang Li,&nbsp;Xuqiang Zhu,&nbsp;Xueyuan Li,&nbsp;Lixin Wu,&nbsp;Henan Jiao,&nbsp;Shuang Li,&nbsp;Jing Yan,&nbsp;Yuting He,&nbsp;Dongming Yan","doi":"10.1002/imt2.238","DOIUrl":"https://doi.org/10.1002/imt2.238","url":null,"abstract":"<p>In recent years, development in high-throughput sequencing technologies has experienced an increasing application of statistics, pattern recognition, and machine learning in bioinformatics analyses. SangeBox platform to meet different scientific demands. The new version of Sangs is a widely used tool among many researchers, which encourages us to continuously improve the plerBox 2 (http://vip.sangerbox.com) and extends and optimizes the functions of interactive graphics and analysis of clinical bioinformatics data. We introduced novel analytical tools such as random forests and support vector machines, as well as corresponding plotting functions. At the same time, we also optimized the performance of the platform and fixed known problems to allow users to perform data analyses more quickly and efficiently. SangerBox 2 improved the speed of analysis, reduced resource required for computer performance, and provided more analysis methods, greatly promoting the research efficiency.</p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.238","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449038","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}

{"title":"USEARCH 12: Open-source software for sequencing analysis in bioinformatics and microbiome","authors":"Yuanping Zhou,&nbsp;Yong-Xin Liu,&nbsp;Xuemeng Li","doi":"10.1002/imt2.236","DOIUrl":"https://doi.org/10.1002/imt2.236","url":null,"abstract":"<p>The well-known bioinformatic software USEARCH v12 was open sourced. Its meaning encourages the microbiome research community to constantly develop excellent bioinformatic software based on the codes. The open source and popularization of artificial intelligence (AI) will make a better infrastructure for microbiome research.\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":73342,"journal":{"name":"iMeta","volume":"3 5","pages":""},"PeriodicalIF":23.7,"publicationDate":"2024-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/imt2.236","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142449037","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}