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      Colorectal cancer, Vitamin D and microbiota: A double-blind Phase II randomized trial (ColoViD) in colorectal cancer patients

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          Abstract

          Background

          Several studies suggest a role of gut microbiota in colorectal cancer (CRC) initiation and progression. Vitamin D (vitD) blood levels are also inversely correlated with CRC risk and prognosis. However, these factors’ interplay remains unknown.

          Methods

          74 CRC patients after standard treatment were randomized to 1-year 2000 IU/day vitD or placebo.  Baseline and post-treatment fecal microbiota for shotgun metagenomics sequencing was collected. Coda-lasso and Principal Component Analysis were used to select and summarize treatment-associated taxa and pathways. Associations between vitD and taxa/pathways were investigated with logistic regression. Mediation analysis was performed to study if treatment-associated taxa mediated the effect of supplementation on 25(OH)D levels. Cox proportional-hazards model was used for disease-free survival (DFS).

          Results

          60 patients were analyzed. Change in alpha diversity (Shannon: p = 0.77; Simpson: p = 0.63) and post-treatment beta diversity ( p = 0.70) were comparable between arms. Post-treatment abundances of 63 taxa and 32 pathways differed between arms. The 63 taxa also mediated the effect of supplementation on 25(OH)D ( p = 0.02). There were sex differences in vitD levels, microbiota and pathways. Pathways of essential amino acids’ biosynthesis were more abundant in supplemented women. Fusobacterium nucleatum presence at baseline was associated with worse DFS ( p = 0.02). Those achieving vitD sufficiency (25(OH)D≥30 ng/ml) had lower post-treatment abundances ( p = 0.05). Women were more likely to have F. nucleatum post-treatment ( p = 0.02).

          Conclusions

          VitD supplementation may contribute shaping the gut microbiota and the microbiota may partially mediate the effect of supplementation on 25(OH)D. The observed sex-specific differences highlight the necessity of including sex/gender as a variable in microbiome studies.

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          Most cited references44

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          Short Chain Fatty Acids (SCFAs)-Mediated Gut Epithelial and Immune Regulation and Its Relevance for Inflammatory Bowel Diseases

          Ulcerative colitis (UC) and Crohn's disease (CD), collectively known as Inflammatory Bowel Diseases (IBD), are caused by a complex interplay between genetic, immunologic, microbial and environmental factors. Dysbiosis of the gut microbiome is increasingly considered to be causatively related to IBD and is strongly affected by components of a Western life style. Bacteria that ferment fibers and produce short chain fatty acids (SCFAs) are typically reduced in mucosa and feces of patients with IBD, as compared to healthy individuals. SCFAs, such as acetate, propionate and butyrate, are important metabolites in maintaining intestinal homeostasis. Several studies have indeed shown that fecal SCFAs levels are reduced in active IBD. SCFAs are an important fuel for intestinal epithelial cells and are known to strengthen the gut barrier function. Recent findings, however, show that SCFAs, and in particular butyrate, also have important immunomodulatory functions. Absorption of SCFAs is facilitated by substrate transporters like MCT1 and SMCT1 to promote cellular metabolism. Moreover, SCFAs may signal through cell surface G-protein coupled receptors (GPCRs), like GPR41, GPR43, and GPR109A, to activate signaling cascades that control immune functions. Transgenic mouse models support the key role of these GPCRs in controlling intestinal inflammation. Here, we present an overview of microbial SCFAs production and their effects on the intestinal mucosa with specific emphasis on their relevance for IBD. Moreover, we discuss the therapeutic potential of SCFAs for IBD, either applied directly or by stimulating SCFAs-producing bacteria through pre- or probiotic approaches.
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            Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

            Culture-independent analyses of microbial communities have progressed dramatically in the last decade, particularly due to advances in methods for biological profiling via shotgun metagenomics. Opportunities for improvement continue to accelerate, with greater access to multi-omics, microbial reference genomes, and strain-level diversity. To leverage these, we present bioBakery 3, a set of integrated, improved methods for taxonomic, strain-level, functional, and phylogenetic profiling of metagenomes newly developed to build on the largest set of reference sequences now available. Compared to current alternatives, MetaPhlAn 3 increases the accuracy of taxonomic profiling, and HUMAnN 3 improves that of functional potential and activity. These methods detected novel disease-microbiome links in applications to CRC (1262 metagenomes) and IBD (1635 metagenomes and 817 metatranscriptomes). Strain-level profiling of an additional 4077 metagenomes with StrainPhlAn 3 and PanPhlAn 3 unraveled the phylogenetic and functional structure of the common gut microbe Ruminococcus bromii , previously described by only 15 isolate genomes. With open-source implementations and cloud-deployable reproducible workflows, the bioBakery 3 platform can help researchers deepen the resolution, scale, and accuracy of multi-omic profiling for microbial community studies.
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              Shotgun metagenomics, from sampling to analysis

              The promises and potential pitfalls of shotgun metagenomics, from experimental design to computational analyses, are reviewed.
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                Author and article information

                Contributors
                Journal
                Neoplasia
                Neoplasia
                Neoplasia (New York, N.Y.)
                Neoplasia Press
                1522-8002
                1476-5586
                22 October 2022
                December 2022
                22 October 2022
                : 34
                : 100842
                Affiliations
                [a ]Department of Experimental Oncology, European Institute of Oncology IRCCS, Milan, Italy
                [b ]Division of Cancer Prevention and Genetics, European Institute of Oncology IRCCS, Milan, Italy
                [c ]IRCCS Humanitas Research Hospital, Milan, Italy
                [d ]Department CIBIO, University of Trento, Trento, Italy
                [e ]Division of Epidemiology and Biostatistics, European Institute of Oncology IRCCS, Milan, Italy
                [f ]Unit of Surgery of Peritoneal tumors, European Institute of Oncology IRCCS, Milan, Italy
                [g ]Division of Pathology, European Institute of Oncology IRCCS, Milan, Italy
                [h ]Division of Endoscopy, European Institute of Oncology IRCCS, Milan, Italy
                [i ]Division of Medical Oncology Gastrointestinal and Neuroendocrine tumors, European Institute of Oncology (IEO) IRCCS, Milan, Italy
                [j ]Department of Mathematics (DMAT), Politecnico di Milano, Milan, Italy
                [k ]Centre for Health Data Science (CHDS), Human Techonopole, Milan, Italy
                [l ]Department of Statistics and Quantitative Methods, University of Milano-Bicocca, Milan, Italy
                [m ]Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden
                [n ]Department of Biomedical Sciences, Humanitas University, Milan, Italy
                Author notes
                [* ]Corresponding author at: Division of Cancer Prevention and Genetics, European Institute of Oncology IRCCS, Via Giuseppe Ripamonti 435, 20141, Milan, Italy. davide.serrano@ 123456ieo.it
                Article
                S1476-5586(22)00068-9 100842
                10.1016/j.neo.2022.100842
                9594107
                36279751
                197c19be-3683-443b-a2db-33963833bd6e
                © 2022 The Authors. Published by Elsevier Inc.

                This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

                History
                : 31 July 2022
                : 3 October 2022
                : 5 October 2022
                Categories
                Original Research

                colorectal cancer,microbiome,microbiota,vitamin d,sex,gender
                colorectal cancer, microbiome, microbiota, vitamin d, sex, gender

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