Skip to main content

Advertisement

Log in

Respiratory Bacterial Microbiota and Individual Bacterial Variability in Lung Cancer and Bronchiectasis Patients

  • Original research article
  • Published:
Indian Journal of Microbiology Aims and scope Submit manuscript

Abstract

Respiratory bacterial microbiota plays a key role in human health. Lung cancer microbiome is a significant yet an understudied area while bronchiectasis microbiome is often studied. We assessed the bacterial microbiota in the upper and lower respiratory tract of the patients with lung cancer and bronchiectasis against a healthy group and their variations in individuality. 16S rRNA gene based metagenomic sequencing was used to detect entire bacterial community along with conventional aerobic bacterial culturing. In comparison to healthy, increased bacterial diversity was observed in diseased population. Abundance of more than 1% was considered and bacteria were identified in 97% similarity. Only lung cancer patients exhibited bacteria specific to the disease: Corynebacterium tuberculostearicum and Keratinibaculum paraultunense. However, Enterococcus faecalis and Delftia tsuruhatensis were also observed limited to lung cancer and bronchiectasis respectively, in less than 1% but supported with bacterial culturing. In conclusion the disease condition and intra-group variability should be considered in future with larger cohorts to understand individual patient variability highlighting the social habits and gender of the individual.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  1. Lederberg J, McCray JE (2001) ‘Ome Sweet’ Omics—a genealogical treasury of words | The Scientist Magazine®. In: Sci. https://www.the-scientist.com/commentary/ome-sweet-omics—a-genealogical-treasury-of-words-54889. Accessed 7 March 2019

  2. Young RP, Hopkins RJ, Christmas T et al (2009) COPD prevalence is increased in lung cancer, independent of age, sex and smoking history. Eur Respir J 34:380–386. https://doi.org/10.1183/09031936.00144208

    Article  CAS  PubMed  Google Scholar 

  3. Yu Y-H, Liao C-C, Hsu W-H et al (2011) Increased lung cancer risk among patients with pulmonary tuberculosis: a population cohort study. J Thorac Oncol 6:32–37. https://doi.org/10.1097/JTO.0b013e3181fb4fcc

    Article  PubMed  Google Scholar 

  4. Wu BG, Cahaney CF, Tsay JJ et al (2015) C99 genomics and cancer: has it borne scientific and clinical fruit? Evaluation of the microbiome associated with lung cancer. In: American Thoracic Society 2015 international conference

  5. Hosgood HD, Sapkota AR, Rothman N et al (2014) The potential role of lung microbiota in lung cancer attributed to household coal burning exposures. Environ Mol Mutagen 55:643–651. https://doi.org/10.1002/em.21878

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  6. Geller LT, Barzily-Rokni M, Danino T et al (2017) Potential role of intratumor bacteria in mediating tumor resistance to the chemotherapeutic drug gemcitabine. Science 357:1156–1160. https://doi.org/10.1126/science.aah5043

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. King P (2009) The pathophysiology of bronchiectasis. Int J Chron Obstruct Pulmon Dis 4:411. https://doi.org/10.2147/COPD.S6133

    Article  PubMed  PubMed Central  Google Scholar 

  8. Liu JC, Modha DE, Gaillard EA (2013) What is the clinical significance of filamentous fungi positive sputum cultures in patients with cystic fibrosis? J Cyst Fibros 12:187–193. https://doi.org/10.1016/j.jcf.2013.02.003

    Article  PubMed  Google Scholar 

  9. Purcell P, Jary H, Perry A et al (2014) Polymicrobial airway bacterial communities in adult bronchiectasis patients. BMC Microbiol 14:130. https://doi.org/10.1186/1471-2180-14-130

    Article  PubMed  PubMed Central  Google Scholar 

  10. Rogers GB, Zain NMM, Bruce KD et al (2014) A novel microbiota stratification system predicts future exacerbations in bronchiectasis. Ann Am Thorac Soc 11:496–503. https://doi.org/10.1513/AnnalsATS.201310-335OC

    Article  PubMed  Google Scholar 

  11. Boom R, Sol CJ, Salimans MM et al (1990) Rapid and simple method for purification of nucleic acids. J Clin Microbiol 28:495–503

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  12. Tripathi K, Tripathi PC, Nema S et al (2014) Modified Petroff’s method: an excellent simplified decontamination technique in comparison with Petroff’s method. Statperson Publications

  13. Somerville W, Thibert L, Schwartzman K, Behr MA (2005) Extraction of Mycobacterium tuberculosis DNA: a Question of Containment. J Clin Microbiol 43:2996–2997. https://doi.org/10.1128/JCM.43.6.2996-2997.2005

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  14. Lane DJ, Pace B, Olsen GJ et al (1985) Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proc Natl Acad Sci USA 82:6955–6959. https://doi.org/10.1073/pnas.82.20.6955

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Dereeper A, Guignon V, Blanc G et al (2008) Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res 36:W465–W469. https://doi.org/10.1093/nar/gkn180

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  16. Dereeper A, Audic S, Claverie J-M, Blanc G (2010) BLAST-EXPLORER helps you building datasets for phylogenetic analysis. BMC Evol Biol 10:8. https://doi.org/10.1186/1471-2148-10-8

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  17. Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17:540–552. https://doi.org/10.1093/oxfordjournals.molbev.a026334

    Article  CAS  PubMed  Google Scholar 

  18. Chevenet F, Brun C, Bañuls A-L et al (2006) TreeDyn: towards dynamic graphics and annotations for analyses of trees. BMC Bioinformatics 7:439. https://doi.org/10.1186/1471-2105-7-439

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  19. Letunic I, Bork P (2016) Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees. Nucleic Acids Res 44:W242–W245. https://doi.org/10.1093/nar/gkw290

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  20. Liu H-X, Tao L-L, Zhang J et al (2018) Difference of lower airway microbiome in bilateral protected specimen brush between lung cancer patients with unilateral lobar masses and control subjects. Int J Cancer 142:769–778. https://doi.org/10.1002/ijc.31098

    Article  CAS  PubMed  Google Scholar 

  21. Hinic V, Lang C, Weisser M et al (2012) Corynebacterium tuberculostearicum: a potentially misidentified and multiresistant Corynebacterium species isolated from clinical specimens. J Clin Microbiol 50:2561–2567. https://doi.org/10.1128/JCM.00386-12

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  22. Berghmans T, Sculier J-P, Klastersky J (2003) A prospective study of infections in lung cancer patients admitted to the hospital. Chest 124:114–120. https://doi.org/10.1378/chest.124.1.114

    Article  PubMed  Google Scholar 

  23. Boonanantanasarn K, Gill AL, Yap Y et al (2012) Enterococcus faecalis enhances cell proliferation through hydrogen peroxide-mediated epidermal growth factor receptor activation. Infect Immun. https://doi.org/10.1128/IAI.00479-12

    Article  PubMed  PubMed Central  Google Scholar 

  24. Krzymińska S, Mokracka J, Koczura R, Kaznowski A (2009) Cytotoxic activity of Enterobacter cloacae human isolates. FEMS Immunol Med Microbiol 56:248–252. https://doi.org/10.1111/j.1574-695X.2009.00572.x

    Article  CAS  PubMed  Google Scholar 

  25. Merlos A, Rodríguez P, Bárcena-Uribarri I et al (2015) Toxins secreted by bacillus isolated from lung adenocarcinomas favor the penetration of toxic substances. Front Microbiol 6:1301. https://doi.org/10.3389/fmicb.2015.01301

    Article  PubMed  PubMed Central  Google Scholar 

  26. Marsland BJ, Trompette A, Gollwitzer ES (2015) The gut-lung axis in respiratory disease. In: Annals of the American Thoracic Society. American Thoracic Society, pp S150–S156

  27. Metersky ML, Aksamit TR, Barker A et al (2018) The prevalence and significance of staphylococcus aureus in patients with non-cystic fibrosis bronchiectasis. Ann Am Thorac Soc 15:365–370. https://doi.org/10.1513/AnnalsATS.201706-426OC

    Article  PubMed  PubMed Central  Google Scholar 

  28. Hogg JC, van Eeden S (2009) Pulmonary and systemic response to atmospheric pollution. Respirology 14:336–346. https://doi.org/10.1111/j.1440-1843.2009.01497.x

    Article  PubMed  Google Scholar 

  29. Segal LN, Alekseyenko AV, Clemente JC et al (2013) Enrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammation. Microbiome 1:19. https://doi.org/10.1186/2049-2618-1-19

    Article  PubMed  PubMed Central  Google Scholar 

  30. De Escalante Yangüela B, Gracia Gutiérrez A, Gracia Tello B et al (2017) Bilateral bronchopneumonia due to Rothia mucilaginosa. An Sist Sanit Navar 40:479–483. https://doi.org/10.23938/ASSN.0090

    Article  PubMed  Google Scholar 

  31. Org E, Mehrabian M, Parks BW et al (2016) Sex differences and hormonal effects on gut microbiota composition in mice. Gut Microbes 7:313–322. https://doi.org/10.1080/19490976.2016.1203502

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  32. Falagas ME, Mourtzoukou EG, Vardakas KZ (2007) Sex differences in the incidence and severity of respiratory tract infections. Respir Med 101:1845–1863. https://doi.org/10.1016/J.RMED.2007.04.011

    Article  PubMed  Google Scholar 

  33. Fan X, Peters BA, Jacobs EJ et al (2018) Drinking alcohol is associated with variation in the human oral microbiome in a large study of American adults. Microbiome 6:59. https://doi.org/10.1186/s40168-018-0448-x

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgements

The authors would like to acknowledge the support given by the members of the Respiratory Unit 2 at Teaching Hospital, Kandy and financial assistance provided by National Institute of Fundamental Studies, Kandy, Sri Lanka.

Author information

Authors and Affiliations

Authors

Contributions

AE and DNM designed the study. DM did clinically assess the patients and carried out sampling procedures. AE collected the samples, processed and did the experiments with analysis. DNM and NVC supervised the study. AE wrote the manuscript. All authors reviewed the manuscript.

Corresponding author

Correspondence to Dhammika Magana-Arachchi.

Ethics declarations

Conflict of interest

The author(s) declare no competing interests.

Informed Consent

Informed consent was obtained from all individual participants included in the study.

Data Availability

Further data of the research can obtain by contacting the corresponding author. The sequences of the identified organisms were deposited in NCBI GenBank nucleotide database (accession numbers MF498492.1-MF498510.1, MG733159.1-MG733173.1, MG738354.1). 16S rRNA gene sequence trimmed reads are deposited in NCBI Sequence Read Archive (SRA) database under the BioProject ID number PRJNA477678. Further details on the organisms and the metagenomics sequencing is provided in electronic supplementary material.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOCX 16 kb)

Supplementary material 2 (PDF 1644 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Ekanayake, A., Madegedara, D., Chandrasekharan, V. et al. Respiratory Bacterial Microbiota and Individual Bacterial Variability in Lung Cancer and Bronchiectasis Patients. Indian J Microbiol 60, 196–205 (2020). https://doi.org/10.1007/s12088-019-00850-w

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12088-019-00850-w

Keywords

Navigation