ANALYSIS OF MICROBIOME DIVERSITY IN CANCER

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Published Dec 31, 2021
https://doi.org/10.11594/bbrj.04.02.03
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Vol. 4 No. 2 (2021): Volume 4 Issue 2

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Norma Nur Azizah
Universitas Indonesia

Abstract

There have been many studies linking the microbiome to a disease, including cancer. The microbiome is all the genetic material in the form of bacteria, fungi or viruses that exist in parts of the human body. The microbiome is reported to trigger cancer due to the presence of certain pathogenic microbes or the presence of dysbiosis. Therefore, it is necessary to analyse the diversity of the microbiome to see the relationship. Metagenomics is the latest technology that can be used to analyse the diversity of the microbiome in cancer. There are two approaches in metagenomic analysis, namely targeted sequencing and sequencing of the entire metagenome. This paper will discuss a targeted sequencing metagenomic approach for the identification of microbial diversity in cancer.

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This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.

How to Cite
Azizah, N. N. (2021) “ANALYSIS OF MICROBIOME DIVERSITY IN CANCER”, Bioinformatics and Biomedical Research Journal, 4(2), pp. 57–69. doi: 10.11594/bbrj.04.02.03.

References

  1. WHO. Cancer [Internet]. Geneva: WHO. 2017. [dikunjungi pada 2021 Feb 17]. Tersedia dari: http://www.who.int/mediacentre/factsheets/fs297/en/.
  2. KEMENKES.Jenis Kanker Rentan Menyerang Manusia. [Internet]. Jakarta: Kemenkes.2020. [dikunjungi pada 2021 Feb 17]. Tersedia dari https://www.kemkes.go.id/article/view/20011400002/jenis-kanker-ini-rentan-menyerang-manusia.html
  3. Lee KA, Luong MK, Shaw H, Nathan P, Bataille V, Spector TD. The gut microbiome: what the oncologist ought to know. British Journal of Cancer [Internet]. 2021; Available from: https://doi.org/10.1038/s41416-021-01467-x
  4. Mukesh Verma. Mechanistic and Technical Challenges in Studying the Human Microbiome and Cancer Epidemiology. SAGE Journal [Internet].2016: Available from: https://doi.org: 10.1177/1533034616645219
  5. Riesenfeld CS, Schloss P, Handelsman J (2004) Metagenomics: Genomic analysis of microbial communities. Annu Rev Genet 38: 525–552.
  6. Consortium, H. M. P. Structure, function and diversity of the healthy human microbiome. Nature 486, 207–214 (2012).
  7. O’Hara, A. M. & Shanahan, F. The gut flora as a forgotten organ. EMBO Rep. 7, 688–693 (2006).
  8. Dapito, D. H. et al. Promotion of hepatocellular carcinoma by the intestinal microbiota and TLR4. Cancer Cell 21, 504–516 (2012)
  9. Yoshimoto, S. et al. Obesity-induced gut microbial metabolite promotes liver cancer through senescence secretome. Nature 499, 97–101 (2013).
  10. Li, Y. et al. Gut microbiota accelerate tumor growth via c?jun and STAT3 phosphorylation in APCMin/+ mice. Carcinogenesis 33, 1231–1238 (2012)
  11. Robert F. Schwabe and Christian Jobin. The Microbiome and Cancer. Nature Reviews Cancer.[Internet].2013. available from: doi:10.1038/nrc3610
  12. Fox, J. G. & Wang, T. C. Inflammation, atrophy, and gastric cancer. J. Clin. Invest. 117, 60–69 (2007).
  13. Wang T., Cai G., Qiu Y., Fei N., Zhang M., Pang X., Jia W., Cai S., Zhao L. Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers. ISME J. 2011; 6 :320–329. doi: 10.1038/ismej.2011.109.
  14. Urbaniak C, Gloor GB, Brackstone M, Scott L, Tangney M, Reid G. The Microbiota of Breast Tissue and Its Association with Breast Cancer. Environmental Microbiology Appl . (2016) 82:5039–48. doi: 10.1128/AEM.01235-16
  15. Zahra Eslami, Keivan MAzidjadeh, Sina Halvaei, Fatemeh Babapirali, Rezvan Esmaeili. Microbiome and Breast Cancer: New Role and for Ancient Population. Fron Oncol.2020.10(120).
  16. Hieken TJ, Chen J, Hoskin TL, Walther-Antonio M, Johnson S, Ramaker S, et al. The microbiome of aseptically collected human breast tissue in benign and malignant disease. Sci Rep. (2016) 6:30751. doi: 10.1038/srep30751
  17. Gencore. Metagenomic.[Internet].[dikunjungi pada 2021 Nov 15]. Dapat di akses pada: https://learn.gencore.bio.nyu.edu/metgenomics/
  18. Unterseher, Martin, Jumpponen, Ari, Öpik, Maarja, Tedersoo, Leho, Moora, Mari, Dormann, Carsten F., et al. Species abundance distributions and richness estimations in fungal metagenomics - Lessons learned from community ecology. Molecular Ecology. 2011. 20(2), p. 275–285.
  19. EzbioCloud. 16S RRNA and 16S RRNA.[Internet].2017. [dikunjungi pada 2021 Nov 15]. Dapat diakses pada: https://help.ezbiocloud.net/16s-rrna-and-16s-rrna-gene/
  20. Karel Sedlar. Methods For Comparative Analysis Of Metagenomik Data. Research gate. 2019. DOI: 10.13140/RG.2.2.12388.42882
  21. Bolger, Anthony M, Lohse, Marc and Usadel, Bjoern. Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics. 2014. 30(15), p. 2114–2120
  22. Esling, Philippe, Lejzerowicz, Franck and Pawlowski, Jan. Accurate multiplexing and filtering for high-throughput amplicon-sequencing. Nucleic Acids Research. 2015. 43(5), p. 2513– 2524
  23. Navas-molina, José A., Peralta-Sánchez, Juan M., González, Antonio, Mcmurdie, Paul J., Vázquez-Baeza, Yoshiki, XU, Zhenjiang, et al. Advancing our understanding of the human microbiome using QIIME. In : Methods in Enzymology. 2013. P. 371–444. ISBN 9780124078635.
  24. BIOMCARE. Key term in microbiome projects [Internet]. 2019. [dikunjungi pada 2021 Nov 22]. dapat diakses pada: https://biomcare.com/info/key-terms-in-microbiome-projects/
  25. Alan Smith, at al. Distinct microbial communities that difer by race, stage, or breasttumor subtype in breast tissues of non-Hispanic Black and nonHispanic White women. Nature. 2019. 9:11940.