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      In vitro cross-talk between metastasis-competent circulating tumor cells and platelets in colon cancer: a malicious association during the harsh journey in the blood

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          Abstract

          Background: Platelets are active players in hemostasis, coagulation and also tumorigenesis. The cross-talk between platelets and circulating tumor cells (CTCs) may have various pro-cancer effects, including promoting tumor growth, epithelial-mesenchymal transition (EMT), metastatic cell survival, adhesion, arrest and also pre-metastatic niche and metastasis formation . Interaction with CTCs might alter the platelet transcriptome. However, as CTCs are rare events, the cross-talk between CTCs and platelets is poorly understood. Here, we used our established colon CTC lines to investigate the colon CTC-platelet cross-talk in vitro and its impact on the behavior/phenotype of both cell types.

          Methods: We exposed platelets isolated from healthy donors to thrombin (positive control) or to conditioned medium from three CTC lines from one patient with colon cancer and then we monitored the morphological and protein expression changes by microscopy and flow cytometry. We then analyzed the transcriptome by RNA-sequencing of platelets indirectly (presence of a Transwell insert) co-cultured with the three CTC lines. We also quantified by reverse transcription-quantitative PCR the expression of genes related to EMT and cancer development in CTCs after direct co-culture (no Transwell insert) with platelets.

          Results: We observed morphological and transcriptomic changes in platelets upon exposure to CTC conditioned medium and indirect co-culture (secretome). Moreover, the expression levels of genes involved in EMT ( p < 0.05) were decreased in CTCs co-cultured with platelets, but not of genes encoding mesenchymal markers ( FN1 and SNAI2). The expression levels of genes involved in cancer invasiveness ( MYC, VEGFB, IL33, PTGS2, and PTGER2) were increased.

          Conclusion: For the first time, we studied the CTC-platelet cross-talk using our unique colon CTC lines. Incubation with CTC conditioned medium led to platelet aggregation and activation, supporting the hypothesis that their interaction may contribute to preserve CTC integrity during their journey in the bloodstream. Moreover, co-culture with platelets influenced the expression of several genes involved in invasiveness and EMT maintenance in CTCs.

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          Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

          Although genomewide RNA expression analysis has become a routine tool in biomedical research, extracting biological insight from such information remains a major challenge. Here, we describe a powerful analytical method called Gene Set Enrichment Analysis (GSEA) for interpreting gene expression data. The method derives its power by focusing on gene sets, that is, groups of genes that share common biological function, chromosomal location, or regulation. We demonstrate how GSEA yields insights into several cancer-related data sets, including leukemia and lung cancer. Notably, where single-gene analysis finds little similarity between two independent studies of patient survival in lung cancer, GSEA reveals many biological pathways in common. The GSEA method is embodied in a freely available software package, together with an initial database of 1,325 biologically defined gene sets.
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            edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

            Summary: It is expected that emerging digital gene expression (DGE) technologies will overtake microarray technologies in the near future for many functional genomics applications. One of the fundamental data analysis tasks, especially for gene expression studies, involves determining whether there is evidence that counts for a transcript or exon are significantly different across experimental conditions. edgeR is a Bioconductor software package for examining differential expression of replicated count data. An overdispersed Poisson model is used to account for both biological and technical variability. Empirical Bayes methods are used to moderate the degree of overdispersion across transcripts, improving the reliability of inference. The methodology can be used even with the most minimal levels of replication, provided at least one phenotype or experimental condition is replicated. The software may have other applications beyond sequencing data, such as proteome peptide count data. Availability: The package is freely available under the LGPL licence from the Bioconductor web site (http://bioconductor.org). Contact: mrobinson@wehi.edu.au
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              featureCounts: an efficient general purpose program for assigning sequence reads to genomic features.

              Next-generation sequencing technologies generate millions of short sequence reads, which are usually aligned to a reference genome. In many applications, the key information required for downstream analysis is the number of reads mapping to each genomic feature, for example to each exon or each gene. The process of counting reads is called read summarization. Read summarization is required for a great variety of genomic analyses but has so far received relatively little attention in the literature. We present featureCounts, a read summarization program suitable for counting reads generated from either RNA or genomic DNA sequencing experiments. featureCounts implements highly efficient chromosome hashing and feature blocking techniques. It is considerably faster than existing methods (by an order of magnitude for gene-level summarization) and requires far less computer memory. It works with either single or paired-end reads and provides a wide range of options appropriate for different sequencing applications. featureCounts is available under GNU General Public License as part of the Subread (http://subread.sourceforge.net) or Rsubread (http://www.bioconductor.org) software packages.
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                Author and article information

                Contributors
                Journal
                Front Cell Dev Biol
                Front Cell Dev Biol
                Front. Cell Dev. Biol.
                Frontiers in Cell and Developmental Biology
                Frontiers Media S.A.
                2296-634X
                02 August 2023
                2023
                : 11
                : 1209846
                Affiliations
                [1] 1 Laboratory of Rare Circulating Human Cells—University Medical Center of Montpellier , Montpellier, France
                [2] 2 CREEC/CANECEV , MIVEGEC (CREES) , Université de Montpellier , Centre National de la Recherche Scientifique , Institut de Recherche pour le Développement , Montpellier, France
                [3] 3 European Liquid Biopsy Society (ELBS) , Hamburg, Germany
                [4] 4 Department of Neurosurgery , Amsterdam University Medical Centers , Vrije Universiteit Amsterdam , Amsterdam, Netherlands
                [5] 5 Cancer Center Amsterdam , Amsterdam University Medical Centers , Vrije Universiteit Amsterdam , Amsterdam, Netherlands
                [6] 6 Brain Tumor Center Amsterdam , Amsterdam University Medical Centers , Vrije Universiteit Amsterdam , Amsterdam, Netherlands
                [7] 7 Mathematical Institute , Leiden University , Leiden, Netherlands
                Author notes

                Edited by: Mariana Aris, Centro de Investigaciones Oncológicas (CIO), Argentina

                Reviewed by: Suchandrima Saha, Stony Brook Medicine, United States

                Sharon O Toole, Trinity College Dublin, Ireland

                Serena Lucotti, Weill Cornell Medical Center, United States

                *Correspondence: Catherine Alix-Panabières, c-panabieres@ 123456chu-montpellier.fr
                [ † ]

                These authors have contributed equally to this work

                Article
                1209846
                10.3389/fcell.2023.1209846
                10433913
                37601099
                24cbdadd-713f-4ce9-b788-3c4cb52d6bcf
                Copyright © 2023 Eslami-S, Cortés-Hernández, Glogovitis, Antunes-Ferreira, D’Ambrosi, Kurma, Garima, Cayrefourcq, Best, Koppers-Lalic, Wurdinger and Alix-Panabières.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 21 April 2023
                : 24 July 2023
                Funding
                ZE-S, LC-H, IG, MA-F, SD, DK-L, TW, and CA-P are supported by the ELBA project, which has received funding from the European Union Horizon 2020 Research and Innovation program under the Marie Skłodowska-Curie grant agreement No 765492. ZE-S and LC-H are also supported by SIRIC Montpellier. CA-P is also supported by the National Institute of Cancer (INCa, http://www.e-cancer.fr) INCa_Inserm_DGOS_12553, SIRIC Montpellier, and the ERA-NET TRANSCAN 2 JTC 2016 PROLIPSY, la Fondation ARC pour la Recherche sur le cancer and les Fonds de dotation AFER pour la recherche médicale.
                Categories
                Cell and Developmental Biology
                Original Research
                Custom metadata
                Cancer Cell Biology

                platelets,circulating tumor cells (ctcs),epithelial-to-mesenchymal transition (emt),tumor-educated platelets (teps),cancer,metastasis

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