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Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts.

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收录情况： ◇ SCIE

作者：
Liu Ning-Ning[1] * ; Jiao Na[2,3,4] * ; Tan Jing-Cong[1] * ; Wang Ziliang[5] * ; Wu Dingfeng[6,7] ; Wang An-Jun[1] ; Chen Jie[1] ; Tao Liwen[6] ; Zhou Chenfen[8] ; Fang Wenjie[9] ; Cheong Io Hong[1] ; Pan Weihua[9] ; Liao Wanqing[9] ; Kozlakidis Zisis[10] ; Heeschen Christopher[1] ; Moore Geromy G[11] ; Zhu Lixin[3] ; Chen Xingdong[12,13] ; Zhang Guoqing[8] ; Zhu Ruixin[4,6,7] ; Wang Hui[1] ;
机构： [1]State Key Laboratory of Oncogenes and Related Genes, Center for Single-Cell Omics, School of Public Health, Shanghai Jiao Tong University Schoolof Medicine, Shanghai, China [2]National Clinical Research Center for Child Health, the Children’s Hospital, Zhejiang University School of Medicine,Hangzhou, China [3]Guangdong Institute of Gastroenterology, Guangdong Provincial Key Laboratory of Colorectal and Pelvic Floor Diseases, Departmentof Colorectal Surgery, the Sixth Affiliated Hospital, Sun Yat-sen University, Guangzhou, China [4]Research Institute, GloriousMed Clinical Laboratory Co.,Ltd.,Shanghai, China [5]Clinical Medicine Transformation Center and Office of Academic Research, Shanghai Hospital of Traditional Chinese MedicineAffiliated to Shanghai University of traditional Chinese Medicine, Shanghai, China [6]Department of Gastroenterology, The Shanghai Tenth People’sHospital, Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China [7]Bioinformatics Division, GloriousMedClinical Laboratory Co.,Ltd, Shanghai, China [8]Chinese Academy of Sciences Key Laboratory of Computational Biology, Bio-Med Big Data Center,Shanghai Institute of Nutrition and Health, University of the Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China [9]Shanghai KeyLaboratory of Molecular Medical Mycology, Department of Dermatology, Shanghai Changzheng Hospital, Second Military Medical University, Shanghai,China [10]Laboratory Services and Biobanking, International Agency for Research on Cancer, World Health Organization, Lyon, France [11]United StatesDepartment of Agriculture, Agricultural Research Service, Southern Regional Research Center, New Orleans, LA, USA [12]State Key Laboratory of GeneticEngineering, Human Phenome Institute and School of Life Sciences, Fudan University, Shanghai, China [13]Fudan University Taizhou Institute of HealthSciences, Taizhou, China
出处：
DOI： 10.1038/s41564-021-01030-7
ISSN：

摘要：
Despite recent progress in our understanding of the association between the gut microbiome and colorectal cancer (CRC), multi-kingdom gut microbiome dysbiosis in CRC across cohorts is unexplored. We investigated four-kingdom microbiota alterations using CRC metagenomic datasets of 1,368 samples from 8 distinct geographical cohorts. Integrated analysis identified 20 archaeal, 27 bacterial, 20 fungal and 21 viral species for each single-kingdom diagnostic model. However, our data revealed superior diagnostic accuracy for models constructed with multi-kingdom markers, in particular the addition of fungal species. Specifically, 16 multi-kingdom markers including 11 bacterial, 4 fungal and 1 archaeal feature, achieved good performance in diagnosing patients with CRC (area under the receiver operating characteristic curve (AUROC) = 0.83) and maintained accuracy across 3 independent cohorts. Coabundance analysis of the ecological network revealed associations between bacterial and fungal species, such as Talaromyces islandicus and Clostridium saccharobutylicum. Using metagenome shotgun sequencing data, the predictive power of the microbial functional potential was explored and elevated D-amino acid metabolism and butanoate metabolism were observed in CRC. Interestingly, the diagnostic model based on functional EggNOG genes achieved high accuracy (AUROC = 0.86). Collectively, our findings uncovered CRC-associated microbiota common across cohorts and demonstrate the applicability of multi-kingdom and functional markers as CRC diagnostic tools and, potentially, as therapeutic targets for the treatment of CRC.© 2022. The Author(s).

基金：
MOST Key R&D Program of China (no. 2020YFA0907200 to N.-N.L.; no. 2018YFC2000700 to H.W.; no. 2017YFC0907500 to X.C.), National Natural Science Foundation (nos. 82030099 and 81630086 to H.W.; no. 31900129 to N.-N.L.; no. 82073637 to X.C.; no. 81774152 to R.Z.; no. 81770571 to L.Z.; no. 82000536 to N.J.), Shanghai Public Health System Construction Three-Year Action Plan (no. GWV10.1-XK15), the Program for Young Eastern Scholar at the Shanghai Institutions of Higher Learning program (no. QD2018016 to N.-N.L.), Innovative research team of high-level local universities in Shanghai, Medicine and Engineering Interdisciplinary Research Fund of Shanghai Jiao Tong University (no. YG2020YQ06 to H.W.; no. YG2020YQ19 to N.-N.L.), Innovative research team of high-level local universities in Shanghai (no. SSMU-ZLCX20180302 to H.W.),Guangdong Province ‘Pearl River Talent Plan’ Innovation and Entrepreneurship Team Project no. 2019ZT08Y464 (to L.Z.), Shanghai Municipal Science and Technology Major Project no. 2017SHZDZX01 (to X.C.), National Postdoctoral Program for Innovative Talents of China no. BX20190393 (to N.J.) and China Postdoctoral Science Foundation (no. 2019M651568 to D.W.; no. 2019M663252 to N.J.).
语种：
外文
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出版当年[2021]版：
大类 | 1 区 生物学
小类 | 1 区 微生物学
最新[2025]版：
大类 | 1 区 生物学
小类 | 1 区 微生物学
JCR分区：
出版当年[2020]版：
Q1 MICROBIOLOGY
最新[2023]版：
Q1 MICROBIOLOGY

影响因子： 最新[2023版] 最新五年平均 出版当年[2020版] 出版当年五年平均 出版前一年[2019版] 出版后一年[2021版]

第一作者：
第一作者机构： [1]State Key Laboratory of Oncogenes and Related Genes, Center for Single-Cell Omics, School of Public Health, Shanghai Jiao Tong University Schoolof Medicine, Shanghai, China
共同第一作者：
通讯作者：
通讯机构： [4]Research Institute, GloriousMed Clinical Laboratory Co.,Ltd.,Shanghai, China [6]Department of Gastroenterology, The Shanghai Tenth People’sHospital, Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China [7]Bioinformatics Division, GloriousMedClinical Laboratory Co.,Ltd, Shanghai, China [12]State Key Laboratory of GeneticEngineering, Human Phenome Institute and School of Life Sciences, Fudan University, Shanghai, China [13]Fudan University Taizhou Institute of HealthSciences, Taizhou, China
推荐引用方式(GB/T 7714)：
Liu Ning-Ning,Jiao Na,Tan Jing-Cong,et al.Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts.[J].NATURE MICROBIOLOGY.2022,7(2):238-+.doi:10.1038/s41564-021-01030-7.
APA：
Liu Ning-Ning,Jiao Na,Tan Jing-Cong,Wang Ziliang,Wu Dingfeng...&Wang Hui.(2022).Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts..NATURE MICROBIOLOGY,7,(2)
MLA：
Liu Ning-Ning,et al."Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts.".NATURE MICROBIOLOGY 7..2(2022):238-+

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