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Open AccessArticle

A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation

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Department of Pathology, Department of Medicine, Department of Biochemistry & Molecular Biology, Department of Microbiology and Cancer Center, College of Medicine, Howard University, 2041 Georgia Avenue, Washington, DC 20060, USA
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J. Craig Venter Institute, La Jolla, CA 92037, USA
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HiThru Analytics, Laurel, MD 20877, USA
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MRDNA/Molecular Research LP, Shallowater, TX 79363, USA
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J. Craig Venter Institute, Rockville, MD 20850, USA
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Systems and Translational Sciences, RTI International, NC 27709, USA
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Laboratory of Microbiology, Department of Agrotechnology and Food Sciences, Wageningen University, 6708 PB Wageningen, The Netherlands
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Institute of Digestive Disease and Department of Medicine and Therapeutics, State Key Laboratory of Digestive Disease, Li Ka Shing Institute of Health Sciences, CUHK Shenzhen Research Institute, The Chinese University of Hong Kong, Hong Kong, China
*
Author to whom correspondence should be addressed.
Present address: University of North Carolina at Chapel Hill, Common Fund Eastern Regional Comprehensive Metabolomics Resource Core, Chapel Hill, NC 27599, USA
Genes 2017, 8(11), 314; https://doi.org/10.3390/genes8110314
Received: 30 August 2017 / Revised: 19 October 2017 / Accepted: 26 October 2017 / Published: 9 November 2017
(This article belongs to the Special Issue Intestinal Microbes and Cancer)
Increasing evidence suggests a role of the gut microbiota in colorectal carcinogenesis (CRC). To detect bacterial markers of colorectal cancer in African Americans a metabolomic analysis was performed on fecal water extracts. DNA from stool samples of adenoma and healthy subjects and from colon cancer and matched normal tissues was analyzed to determine the microbiota composition (using 16S rDNA) and genomic content (metagenomics). Metagenomic functions with discriminative power between healthy and neoplastic specimens were established. Quantitative Polymerase Chain Reaction (q-PCR) using primers and probes specific to Streptococcus sp. VT_162 were used to validate this bacterium association with neoplastic transformation in stool samples from two independent cohorts of African Americans and Chinese patients with colorectal lesions. The metabolomic analysis of adenomas revealed low amino acids content. The microbiota in both cancer vs. normal tissues and adenoma vs. normal stool samples were different at the 16S rRNA gene level. Cross-mapping of metagenomic data led to 9 markers with significant discriminative power between normal and diseased specimens. These markers identified with Streptococcus sp. VT_162. Q-PCR data showed a statistically significant presence of this bacterium in advanced adenoma and cancer samples in an independent cohort of CRC patients. We defined metagenomic functions from Streptococcus sp. VT_162 with discriminative power among cancers vs. matched normal and adenomas vs. healthy subjects’ stools. Streptococcus sp. VT_162 specific 16S rDNA was validated in an independent cohort. These findings might facilitate non-invasive screening for colorectal cancer. View Full-Text
Keywords: colorectal cancer; microbiota; African Americans; metabolomics; metagenomic linkage groups colorectal cancer; microbiota; African Americans; metabolomics; metagenomic linkage groups
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MDPI and ACS Style

Brim, H.; Yooseph, S.; Lee, E.; Sherif, Z.A.; Abbas, M.; Laiyemo, A.O.; Varma, S.; Torralba, M.; Dowd, S.E.; Nelson, K.E.; Pathmasiri, W.; Sumner, S.; De Vos, W.; Liang, Q.; Yu, J.; Zoetendal, E.; Ashktorab, H. A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation. Genes 2017, 8, 314.

AMA Style

Brim H, Yooseph S, Lee E, Sherif ZA, Abbas M, Laiyemo AO, Varma S, Torralba M, Dowd SE, Nelson KE, Pathmasiri W, Sumner S, De Vos W, Liang Q, Yu J, Zoetendal E, Ashktorab H. A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation. Genes. 2017; 8(11):314.

Chicago/Turabian Style

Brim, Hassan; Yooseph, Shibu; Lee, Edward; Sherif, Zaki A.; Abbas, Muneer; Laiyemo, Adeyinka O.; Varma, Sudhir; Torralba, Manolito; Dowd, Scot E.; Nelson, Karen E.; Pathmasiri, Wimal; Sumner, Susan; De Vos, Willem; Liang, Qiaoyi; Yu, Jun; Zoetendal, Erwin; Ashktorab, Hassan. 2017. "A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation" Genes 8, no. 11: 314.

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