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Comment
. 2019 Sep;68(9):1723-1725.
doi: 10.1136/gutjnl-2018-316225. Epub 2018 Sep 21.

A widely used sampling device in colorectal cancer screening programmes allows for large-scale microbiome studies

Dita Gudra #  1 , Saeed Shoaie #  2   3 , Davids Fridmanis  1 , Janis Klovins  1 , Hugo Wefer  2   4 , Ivars Silamikelis  1 , Raitis Peculis  1 , Ineta Kalnina  1 , Ilze Elbere  1 , Ilze Radovica-Spalvina  1 , Rolf Hultcrantz  2 , Ģirts Šķenders  5   6 , Marcis Leja #  5   6 , Lars Engstrand #  2   4
Affiliations
Comment

A widely used sampling device in colorectal cancer screening programmes allows for large-scale microbiome studies

Dita Gudra et al. Gut. 2019 Sep.
No abstract available

Keywords: colonic microflora; epidemiology.

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Conflict of interest statement

Competing interests: None declared.

Figures

Figure 1
Figure 1
Mean Shannon diversity index values by storage conditions of faecal samples sequenced on Ion Torrent Personal Genome Machine and Illumina MiSeq. Error bars represent SEs. FIT, faecal immunochemical test.
Figure 2
Figure 2
Beta diversity (panels A–D) analysis of GI tract bacterial communities between the individuals and storage conditions presented in a form of principal coordinate analysis (PCoA) plot of weighted and unweighted UniFrac distances. Panels A and C are coloured according to the individual, panels B and D are coloured according to the conditions that samples were exposed to. Panels A and B represent the UniFrac metrics obtained from sequencing on the Illumina MiSeq platform, whereas panels C and D represent UniFrac metrics obtained from sequencing on the Ion Torrent PGM platform. The results of the metagenomics analysis at the species level are presented within panel E in a form of the heat-map profile for the most abundant entities in the metagenome samples. According to upper dendrogram, there is a consistency within the samples composition as the samples from the same individual are clustering together. Samples WO1, WO2.1, WO2.2, WO3.1, WO3.2, WO4 were without faecal immunochemical test (woFIT) and immediately frozen at −86°C; while samples FIT1, FIT2.1, FIT2.2, FIT3.1, FIT3.2 and FIT4 were with FIT (wFIT) and stored at 4°C for 2 days and then at 20°C for additional 2 days. Samples FIT2.2 and FIT4 failed at the sequencing stage and therefore are not presented within the figure. Both sample groups include technical replicates for individuals 2 and 3 (eg, WO2.1. and WO2.2.; WO3.1 and WO3.2.; FIT2.1 and FIT2.2.; FIT3.1. and FIT3.2.).
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References

    1. Passamonti B, Malaspina M, Fraser CG, et al. . A comparative effectiveness trial of two faecal immunochemical tests for haemoglobin (FIT). Assessment of test performance and adherence in a single round of a population-based screening programme for colorectal cancer. Gut 2018;67:485–96. 10.1136/gutjnl-2016-312716 - DOI - PubMed
    1. Directorate-General for Health and Consumers (European Commission) EAfHaC, World Health Organization. European guidelines for quality assurance in colorectal cancer srceening and diagnosis. Luxemborug, 2010.
    1. Young GP, Symonds EL, Allison JE, et al. . Advances in fecal occult blood tests: the FIT revolution. Dig Dis Sci 2015;60:609–22. 10.1007/s10620-014-3445-3 - DOI - PMC - PubMed
    1. Robertson DJ, Lee JK, Boland CR, et al. . Recommendations on fecal immunochemical testing to screen for colorectal neoplasia: a consensus statement by the us multi-society task force on colorectal cancer. Am J Gastroenterol 2017;112:37–53. 10.1038/ajg.2016.492 - DOI - PubMed
    1. Hale VL, Tan CL, Knight R, et al. . Effect of preservation method on spider monkey (Ateles geoffroyi) fecal microbiota over 8 weeks. J Microbiol Methods 2015;113:16–26. 10.1016/j.mimet.2015.03.021 - DOI - PubMed