Email Alert RSS
Volume 13 Issue 5
Sep.  2022
Turn off MathJax
Article Contents
Article Navigation >  Medical Journal of Peking Union Medical College Hospital  > 2022  >  13(5): 713-718
FANG Yuan, PAN Yuanlong, ZHU Baoli. Human Gut Microbiome and Diseases: Current Status, Opportunity and Challenges[J]. Medical Journal of Peking Union Medical College Hospital, 2022, 13(5): 713-718. doi: 10.12290/xhyxzz.2022-0288
Citation: FANG Yuan, PAN Yuanlong, ZHU Baoli. Human Gut Microbiome and Diseases: Current Status, Opportunity and Challenges[J]. Medical Journal of Peking Union Medical College Hospital, 2022, 13(5): 713-718. doi: 10.12290/xhyxzz.2022-0288
shu

Human Gut Microbiome and Diseases: Current Status, Opportunity and Challenges

doi: 10.12290/xhyxzz.2022-0288
  • 1.

    Department of General Surgery, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100730, China

  • 2.

    Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China

Funds:

National Key Research and Development Program 2021YFA1301000

National Natural Science Foundation of China 32170068

Research Project of Jinan Microecological Biomedicine Shandong Laboratory JNL-2022013B

More Information
  • Corresponding author: ZHU Baoli, E-mail: zhubaoli@im.ac.cn
  • Received Date: 2022-05-24
  • Accepted Date: 2022-07-21
    • Available Online: 2022-07-28
  • Publish Date: 2022-09-30
    Abstract
  • The human microbiome, the second genome of the human body, can determine human health status. Microbiome research has prompted humans to re-understand the relationship between microbiota and individuals, as well as microbiota and the ecological environment. A comprehensive and systematic study of the structure and function of human gut microbiome and an analysis of the interaction and regulation mechanism of the relevant core bacteria will bring revolutionary theoretical innovations to solve the health problems of humans, and the resulting disruptive technological innovation has the potential to provide better solutions for microbiome research.
    • FullText(HTML)
  • loading
    • References(48)
  • [1] Berg G, Rybakova D, Fischer D, et al. Microbiome definition re-visited: old concepts and new challenges[J]. Microbiome, 2020, 8: 103. doi:  10.1186/s40168-020-00875-0
    [2] 段云峰, 王升跃, 陈禹保, 等. 微生物组测序与分析专家共识[J]. 生物工程学报, 2020, 36: 2516-2524. https://www.cnki.com.cn/Article/CJFDTOTAL-SHWU202012003.htm
    [3] Zhao L. Genomics: The tale of our other genome[J]. Nature, 2010, 465: 879-880. doi:  10.1038/465879a
    [4] Riesenfeld CS, Schloss PD, Handelsman J. Metagenomics: genomic analysis of microbial communities[J]. Annu Rev Genet, 2004, 38: 525-552. doi:  10.1146/annurev.genet.38.072902.091216
    [5] Integrative HMPRNC. The Integrative Human Microbiome Project: dynamic analysis of microbiome-host omics profiles during periods of human health and disease[J]. Cell Host Microbe, 2014, 16: 276-289. doi:  10.1016/j.chom.2014.08.014
    [6] Integrative HMPRNC. The Integrative Human Microbiome Project[J]. Nature, 2019, 569: 641-648. doi:  10.1038/s41586-019-1238-8
    [7] Li J, Jia H, Cai X, et al. An integrated catalog of reference genes in the human gut microbiome[J]. Nat Biotechnol, 2014, 32: 834-841. doi:  10.1038/nbt.2942
    [8] Qin J, Li R, Raes J, et al. A human gut microbial gene catalogue established by metagenomic sequencing[J]. Nature, 2010, 464: 59-65. doi:  10.1038/nature08821
    [9] Sinha R, Abu-Ali G, Vogtmann E, et al. Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium[J]. Nat Biotechnol, 2017, 35: 1077-1086. doi:  10.1038/nbt.3981
    [10] Relman DA. The human microbiome: ecosystem resilience and health[J]. Nutr Rev, 2012, 70: S2-S9. doi:  10.1111/j.1753-4887.2012.00489.x
    [11] Eckburg PB, Bik EM, Bernstein CN, et al. Diversity of the human intestinal microbial flora[J]. Science, 2005, 308: 1635-1638. doi:  10.1126/science.1110591
    [12] Turnbaugh PJ, Ley RE, Mahowald MA, et al. An obesity-associated gut microbiome with increased capacity for energy harvest[J]. Nature, 2006, 444: 1027-1031. doi:  10.1038/nature05414
    [13] Human Microbiome Project C. Structure, function and diversity of the healthy human microbiome[J]. Nature, 2012, 486: 207-214. doi:  10.1038/nature11234
    [14] Lloyd-Price J, Mahurkar A, Rahnavard G, et al. Strains, functions and dynamics in the expanded Human Microbiome Project[J]. Nature, 2017, 550: 61-66. doi:  10.1038/nature23889
    [15] Ruhlemann MC, Hermes BM, Bang C, et al. Genome-wide association study in 8, 956 German individuals identifies influence of ABO histo-blood groups on gut microbiome[J]. Nat Genet, 2021, 53: 147-155. doi:  10.1038/s41588-020-00747-1
    [16] Qin Y, Havulinna AS, Liu Y, et al. Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort[J]. Nat Genet, 2022, 54: 134-142. doi:  10.1038/s41588-021-00991-z
    [17] De Filippis F, Pellegrini N, Vannini L, et al. High-level adherence to a Mediterranean diet beneficially impacts the gut microbiota and associated metabolome[J]. Gut, 2016, 65: 1812-1821. doi:  10.1136/gutjnl-2015-309957
    [18] Meslier V, Laiola M, Roager HM, et al. Mediterranean diet intervention in overweight and obese subjects lowers plasma cholesterol and causes changes in the gut microbiome and metabolome independently of energy intake[J]. Gut, 2020, 69: 1258-1268. doi:  10.1136/gutjnl-2019-320438
    [19] Rinott E, Meir AY, Tsaban G, et al. The effects of the Green-Mediterranean diet on cardiometabolic health are linked to gut microbiome modifications: a randomized controlled trial[J]. Genome Med, 2022, 14: 29. doi:  10.1186/s13073-022-01015-z
    [20] Zeevi D, Korem T, Zmora N, et al. Personalized Nutrition by Prediction of Glycemic Responses[J]. Cell, 2015, 163: 1079-1094. doi:  10.1016/j.cell.2015.11.001
    [21] Rosario D, Bidkhori G, Lee S, et al. Systematic analysis of gut microbiome reveals the role of bacterial folate and homocysteine metabolism in Parkinson's disease[J]. Cell Rep, 2021, 34: 108807. doi:  10.1016/j.celrep.2021.108807
    [22] Moreno-Indias I, Lahti L, Nedyalkova M, et al. Statistical and Machine Learning Techniques in Human Microbiome Studies: Contemporary Challenges and Solutions[J]. Front Microbiol, 2021, 12: 635781. doi:  10.3389/fmicb.2021.635781
    [23] Gacesa R, Kurilshikov A, Vich Vila A, et al. Environ-mental factors shaping the gut microbiome in a Dutch population[J]. Nature, 2022, 604: 732-739. doi:  10.1038/s41586-022-04567-7
    [24] Qin N, Yang F, Li A, et al. Alterations of the human gut microbiome in liver cirrhosis[J]. Nature, 2014, 513: 59-64. doi:  10.1038/nature13568
    [25] Zhang X, Zhang D, Jia H, et al. The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment[J]. Nat Med, 2015, 21: 895-905. doi:  10.1038/nm.3914
    [26] Ramos A, Hemann MT. Drugs, Bugs, and Cancer: Fusobacterium nucleatum Promotes Chemoresistance in Colorectal Cancer[J]. Cell, 2017, 170: 411-413. doi:  10.1016/j.cell.2017.07.018
    [27] Tsoi H, Chu ESH, Zhang X, et al. Peptostreptococcus anaerobius Induces Intracellular Cholesterol Biosynthesis in Colon Cells to Induce Proliferation and Causes Dysplasia in Mice[J]. Gastroenterology, 2017, 152: 1419-33. e5. doi:  10.1053/j.gastro.2017.01.009
    [28] Zou Y, Xue W, Luo G, et al. 1, 520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses[J]. Nat Biotechnol, 2019, 37: 179-185. doi:  10.1038/s41587-018-0008-8
    [29] Ji P, Zhang Y, Wang J, et al. MetaSort untangles metagenome assembly by reducing microbial community complexity[J]. Nat Commun, 2017, 8: 14306. doi:  10.1038/ncomms14306
    [30] Peng G, Ji P, Zhao F. A novel codon-based de Bruijn graph algorithm for gene construction from unassembled transcriptomes[J]. Genome Biol, 2016, 17: 232. doi:  10.1186/s13059-016-1094-x
    [31] He S, Huang Z, Wang X, et al. SOAPMetaS: profiling large metagenome datasets efficiently on distributed clusters[J]. Bioinformatics, 2021, 37: 1021-1023. doi:  10.1093/bioinformatics/btaa697
    [32] Hattori N, Yamashiro Y. The Gut-Brain Axis[J]. Ann Nutr Metab, 2021, 77: 1-3.
    [33] Mayer EA, Nance K, Chen S. The Gut-Brain Axis[J]. Annu Rev Med, 2022, 73: 439-453. doi:  10.1146/annurev-med-042320-014032
    [34] Silveira MAD, Bilodeau S, Greten TF, et al. The gut-liver axis: host microbiota interactions shape hepatocarcinogenesis[J]. Trends Cancer, 2022 8: 583-597. doi:  10.1016/j.trecan.2022.02.009
    [35] He Y, Wen Q, Yao F, et al. Gut-lung axis: The microbial contributions and clinical implications[J]. Crit Rev Microbiol, 2017, 43: 81-95. doi:  10.1080/1040841X.2016.1176988
    [36] Zhao L, Zhang F, Ding X, et al. Gut bacteria selectively promoted by dietary fibers alleviate type 2 diabetes[J]. Science, 2018, 359: 1151-1156. doi:  10.1126/science.aao5774
    [37] Coutzac C, Jouniaux JM, Paci A, et al. Systemic short chain fatty acids limit antitumor effect of CTLA-4 blockade in hosts with cancer[J]. Nat Commun, 2020, 11: 2168. doi:  10.1038/s41467-020-16079-x
    [38] Vetizou M, Pitt JM, Daillere R, et al. Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota[J]. Science, 2015, 350: 1079-1084. doi:  10.1126/science.aad1329
    [39] Routy B, Le Chatelier E, Derosa L, et al. Gut microbiome influences efficacy of PD-1-based immunotherapy against epithelial tumors[J]. Science, 2018, 359: 91-97. doi:  10.1126/science.aan3706
    [40] Mao J, Wang D, Long J, et al. Gut microbiome is associated with the clinical response to anti-PD-1 based immunotherapy in hepatobiliary cancers[J]. J Immunother Cancer, 2021, 9: e003334. doi:  10.1136/jitc-2021-003334
    [41] Mcculloch JA, Davar D, Rodrigues RR, et al. Intestinal microbiota signatures of clinical response and immune-related adverse events in melanoma patients treated with anti-PD-1[J]. Nat Med, 2022, 28: 545-556. doi:  10.1038/s41591-022-01698-2
    [42] Yi Y, Shen L, Shi W, et al. Gut Microbiome Components Predict Response to Neoadjuvant Chemoradiotherapy in Patients with Locally Advanced Rectal Cancer: A Prospective, Longitudinal Study[J]. Clin Cancer Res, 2021, 27: 1329-1340. doi:  10.1158/1078-0432.CCR-20-3445
    [43] Shen S, Lim G, You Z, et al. Gut microbiota is critical for the induction of chemotherapy-induced pain[J]. Nat Neurosci, 2017, 20: 1213-1216. doi:  10.1038/nn.4606
    [44] Tian J, Bai B, Gao Z, et al. Alleviation Effects of GQD, a Traditional Chinese Medicine Formula, on Diabetes Rats Linked to Modulation of the Gut Microbiome[J]. Front Cell Infect Microbiol, 2021, 11: 740236. doi:  10.3389/fcimb.2021.740236
    [45] Juul FE, Garborg K, Bretthauer M, et al. Fecal Microbiota Transplantation for Primary Clostridium difficile Infection[J]. N Engl J Med, 2018, 378: 2535-2536. doi:  10.1056/NEJMc1803103
    [46] Kassam Z, Dubois N, Ramakrishna B, et al. Donor Screening for Fecal Microbiota Transplantation[J]. N Engl J Med, 2019, 381: 2070-2072. doi:  10.1056/NEJMc1913670
    [47] Siegmund B. Is intensity the solution for FMT in ulcerative colitis?[J]. Lancet, 2017, 389: 1170-1172. doi:  10.1016/S0140-6736(17)30313-6
    [48] Van Rossum T, Ferretti P, Maistrenko OM, et al. Diversity within species: interpreting strains in microbiomes[J]. Nat Rev Microbiol, 2020, 18: 491-506. doi:  10.1038/s41579-020-0368-1
    • Relative Articles(0)
    • Supplements(0)
    • Cited By
  • 加载中

Catalog

    通讯作者: 陈斌, bchen63@163.com
    • 1. 

      沈阳化工大学材料科学与工程学院 沈阳 110142

    1. 本站搜索
    2. 百度学术搜索
    3. 万方数据库搜索
    4. CNKI搜索
    Get Citation
    PDF
    XML

    Article Metrics

    Article views (4721) PDF downloads(408) Cited by()
    Proportional views
    Related
    Links: National Health Commission of the People's Republic of China Chinese Academy of Medical Sciences(CAMS) AMLC Check CNKI Database CNKI Term Online Chinese General Practice
    Address：Room 302,Third Floor,Building 7, No. 1 Shuaifuyuan, Wangfujing, Dongcheng District, Beijing 100730, China
    Tel：010-69154261/4262
    E - mail：medj@pumch.cn
    mjpumch@126.com
    Copyright of website：Editorial Office of Medical Journal of Peking Union Medical College Hospital

    Supported by: Beijing Renhe Information Technology Co. Ltd    

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return