Mutational signature in colorectal cancer caused by genotoxic pks
Journal
Nature
ISSN: 1476-4687
Titre abrégé: Nature
Pays: England
ID NLM: 0410462
Informations de publication
Date de publication:
04 2020
04 2020
Historique:
received:
14
09
2019
accepted:
17
02
2020
pubmed:
28
2
2020
medline:
4
6
2020
entrez:
28
2
2020
Statut:
ppublish
Résumé
Various species of the intestinal microbiota have been associated with the development of colorectal cancer
Identifiants
pubmed: 32106218
doi: 10.1038/s41586-020-2080-8
pii: 10.1038/s41586-020-2080-8
pmc: PMC8142898
mid: NIHMS1694473
doi:
Substances chimiques
Peptides
0
Polyketides
0
colibactin
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
269-273Subventions
Organisme : Cancer Research UK
ID : 27140
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_EX_MR/M009203/1
Pays : United Kingdom
Organisme : Howard Hughes Medical Institute
Pays : United States
Organisme : NIDDK NIH HHS
ID : R01 DK115728
Pays : United States
Organisme : NIDDK NIH HHS
ID : R01 DK069989
Pays : United States
Organisme : Medical Research Council
ID : MR/M009203/1
Pays : United Kingdom
Organisme : Wellcome Trust
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_PC_14089
Pays : United Kingdom
Organisme : NIH HHS
ID : 1R01DK115728-01A1
Pays : United States
Investigateurs
J C Ambrose
(JC)
P Arumugam
(P)
E L Baple
(EL)
M Bleda
(M)
F Boardman-Pretty
(F)
J M Boissiere
(JM)
C R Boustred
(CR)
H Brittain
(H)
M J Caulfield
(MJ)
G C Chan
(GC)
C E H Craig
(CEH)
L C Daugherty
(LC)
A de Burca
(A)
A Devereau
(A)
G Elgar
(G)
R E Foulger
(RE)
T Fowler
(T)
P Furió-Tarí
(P)
J M Hackett
(JM)
D Halai
(D)
A Hamblin
(A)
S Henderson
(S)
J E Holman
(JE)
T J P Hubbard
(TJP)
K Ibáñez
(K)
R Jackson
(R)
L J Jones
(LJ)
D Kasperaviciute
(D)
M Kayikci
(M)
L Lahnstein
(L)
L Lawson
(L)
S E A Leigh
(SEA)
I U S Leong
(IUS)
F J Lopez
(FJ)
F Maleady-Crowe
(F)
J Mason
(J)
E M McDonagh
(EM)
L Moutsianas
(L)
M Mueller
(M)
N Murugaesu
(N)
A C Need
(AC)
C A Odhams
(CA)
C Patch
(C)
D Perez-Gil
(D)
D Polychronopoulos
(D)
J Pullinger
(J)
T Rahim
(T)
A Rendon
(A)
P Riesgo-Ferreiro
(P)
T Rogers
(T)
M Ryten
(M)
K Savage
(K)
K Sawant
(K)
R H Scott
(RH)
A Siddiq
(A)
A Sieghart
(A)
D Smedley
(D)
K R Smith
(KR)
A Sosinsky
(A)
W Spooner
(W)
H E Stevens
(HE)
A Stuckey
(A)
R Sultana
(R)
E R A Thomas
(ERA)
S R Thompson
(SR)
C Tregidgo
(C)
A Tucci
(A)
E Walsh
(E)
S A Watters
(SA)
M J Welland
(MJ)
E Williams
(E)
K Witkowska
(K)
S M Wood
(SM)
M Zarowiecki
(M)
Commentaires et corrections
Type : CommentIn
Type : CommentIn
Type : CommentIn
Type : CommentIn
Type : CommentIn
Références
Allen, J. & Sears, C. L. Impact of the gut microbiome on the genome and epigenome of colon epithelial cells: contributions to colorectal cancer development. Genome Med. 11, 11 (2019).
doi: 10.1186/s13073-019-0621-2
Gagnaire, A., Nadel, B., Raoult, D., Neefjes, J. & Gorvel, J.-P. Collateral damage: insights into bacterial mechanisms that predispose host cells to cancer. Nat. Rev. Microbiol. 15, 109–128 (2017).
doi: 10.1038/nrmicro.2016.171
Nougayrède, J.-P. et al. Escherichia coli induces DNA double-strand breaks in eukaryotic cells. Science 313, 848–851 (2006).
doi: 10.1126/science.1127059
Wilson, M. R. et al. The human gut bacterial genotoxin colibactin alkylates DNA. Science 363, eaar7785 (2019).
doi: 10.1126/science.aar7785
Xue, M. et al. Structure elucidation of colibactin and its DNA cross-links. Science 365, eaax2685 (2019).
doi: 10.1126/science.aax2685
Dejea, C. M. et al. Patients with familial adenomatous polyposis harbor colonic biofilms containing tumorigenic bacteria. Science 359, 592–597 (2018).
doi: 10.1126/science.aah3648
Bullman, S. et al. Analysis of Fusobacterium persistence and antibiotic response in colorectal cancer. Science 358, 1443–1448 (2017).
doi: 10.1126/science.aal5240
Kostic, A. D. et al. Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment. Cell Host Microbe 14, 207–215 (2013).
doi: 10.1016/j.chom.2013.07.007
Wirbel, J. et al. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nat. Med. 25, 679–689 (2019).
doi: 10.1038/s41591-019-0406-6
Buc, E. et al. High prevalence of mucosa-associated E. coli producing cyclomodulin and genotoxin in colon cancer. PLoS One 8, e56964 (2013).
doi: 10.1371/journal.pone.0056964
Arthur, J. C. et al. Intestinal inflammation targets cancer-inducing activity of the microbiota. Science 338, 120–123 (2012).
doi: 10.1126/science.1224820
Bossuet-Greif, N. et al. The colibactin genotoxin generates DNA interstrand cross-links in infected cells. mBio 9, e02393-17 (2018).
doi: 10.1128/mBio.02393-17
Alexandrov, L. B. et al. The repertoire of mutational signatures in human cancer. Nature 578, 94–101 (2020).
doi: 10.1038/s41586-020-1943-3
Alexandrov, L. B. et al. Signatures of mutational processes in human cancer. Nature 500, 415–421 (2013).
doi: 10.1038/nature12477
Nik-Zainal, S. et al. Mutational processes molding the genomes of 21 breast cancers. Cell 149, 979–993 (2012).
doi: 10.1016/j.cell.2012.04.024
Drost, J. et al. Use of CRISPR-modified human stem cell organoids to study the origin of mutational signatures in cancer. Science 358, 234–238 (2017).
doi: 10.1126/science.aao3130
Sato, T. et al. Long-term expansion of epithelial organoids from human colon, adenoma, adenocarcinoma, and Barrett’s epithelium. Gastroenterology 141, 1762–1772 (2011).
doi: 10.1053/j.gastro.2011.07.050
Tuveson, D. & Clevers, H. Cancer modeling meets human organoid technology. Science 364, 952–955 (2019).
doi: 10.1126/science.aaw6985
Kucab, J. E. et al. A compendium of mutational signatures of environmental agents. Cell 177, 821–836.e16 (2019).
doi: 10.1016/j.cell.2019.03.001
Jager, M. et al. Measuring mutation accumulation in single human adult stem cells by whole-genome sequencing of organoid cultures. Nat. Protocols 13, 59–78 (2018).
doi: 10.1038/nprot.2017.111
Cougnoux, A. et al. Bacterial genotoxin colibactin promotes colon tumour growth by inducing a senescence-associated secretory phenotype. Gut 63, 1932–1942 (2014).
doi: 10.1136/gutjnl-2013-305257
Bartfeld, S. et al. In vitro expansion of human gastric epithelial stem cells and their responses to bacterial infection. Gastroenterology 148, 126–136.e6 (2015).
doi: 10.1053/j.gastro.2014.09.042
Li, Z.-R. et al. Divergent biosynthesis yields a cytotoxic aminomalonate-containing precolibactin. Nat. Chem. Biol. 12, 773–775 (2016).
doi: 10.1038/nchembio.2157
Priestley, P. et al. Pan-cancer whole-genome analyses of metastatic solid tumours. Nature 575, 210–216 (2019).
doi: 10.1038/s41586-019-1689-y
Gonzalez-Perez, A. et al. IntOGen-mutations identifies cancer drivers across tumor types. Nat. Methods 10, 1081–1082 (2013).
doi: 10.1038/nmeth.2642
Lee-Six, H. et al. The landscape of somatic mutation in normal colorectal epithelial cells. Nature 574, 532–537 (2019).
doi: 10.1038/s41586-019-1672-7
McLellan, L. K. & Hunstad, D. A. Urinary tract infection: pathogenesis and outlook. Trends Mol. Med. 22, 946–957 (2016).
doi: 10.1016/j.molmed.2016.09.003
Zawadzki, P. J. et al. Identification of infectious microbiota from oral cavity environment of various population group patients as a preventive approach to human health risk factors. Ann. Agric. Environ. Med. 23, 566–569 (2016).
doi: 10.5604/12321966.1226847
Banerjee, S. et al. Microbial signatures associated with oropharyngeal and oral squamous cell carcinomas. Sci. Rep. 7, 4036 (2017).
doi: 10.1038/s41598-017-03466-6
Boot, A. et al. Identification of novel mutational signatures in Asian oral squamous cell carcinomas associated with bacterial infections Preprint at https://doi.org/10.1101/368753 (2019).
Payros, D. et al. Maternally acquired genotoxic Escherichia coli alters offspring’s intestinal homeostasis. Gut Microbes 5, 313–325 (2014).
doi: 10.4161/gmic.28932
Olier, M. et al. Genotoxicity of Escherichia coli Nissle 1917 strain cannot be dissociated from its probiotic activity. Gut Microbes 3, 501–509 (2012).
doi: 10.4161/gmic.21737
Jacobi, C. A. & Malfertheiner, P. Escherichia coli Nissle 1917 (Mutaflor): new insights into an old probiotic bacterium. Dig. Dis. 29, 600–607 (2011).
doi: 10.1159/000333307
Blokzijl, F. et al. Tissue-specific mutation accumulation in human adult stem cells during life. Nature 538, 260–264 (2016).
doi: 10.1038/nature19768
Heo, I. et al. Modelling Cryptosporidium infection in human small intestinal and lung organoids. Nat. Microbiol. 3, 814–823 (2018).
doi: 10.1038/s41564-018-0177-8
Pace, P. et al. FANCE: the link between Fanconi anaemia complex assembly and activity. EMBO J. 21, 3414–3423 (2002).
doi: 10.1093/emboj/cdf355
Li, H. & Durbin, R. Fast and accurate long-read alignment with Burrows-Wheeler transform. Bioinformatics 26, 589–595 (2010).
doi: 10.1093/bioinformatics/btp698
Osorio, F. G. et al. Somatic mutations reveal lineage relationships and age-related mutagenesis in human hematopoiesis. Cell Rep. 25, 2308–2316.e4 (2018).
doi: 10.1016/j.celrep.2018.11.014
Blokzijl, F., Janssen, R., van Boxtel, R. & Cuppen, E. MutationalPatterns: comprehensive genome-wide analysis of mutational processes. Genome Med. 10, 33 (2018).
doi: 10.1186/s13073-018-0539-0
Cunningham, F. et al. Ensembl 2015. Nucleic Acids Res. 43, D662–D669 (2015).
Cameron, D. L. et al. GRIDSS, PURPLE, LINX: unscrambling the tumor genome via integrated analysis of structural variation and copy number. Preprint at https://doi.org/10.1101/781013 (2019).
Genomics England The National Genomics Research and Healthcare Knowledgebase https://www.genomicsengland.co.uk/the-national-genomics-research-and-healthcare-knowledgebase/ (2017).
Raczy, C. et al. Isaac: ultra-fast whole-genome secondary analysis on Illumina sequencing platforms. Bioinformatics 29, 2041–2043 (2013).
doi: 10.1093/bioinformatics/btt314
Lawrence, M. et al. Software for computing and annotating genomic ranges. PLOS Comput. Biol. 9, e1003118 (2013).
doi: 10.1371/journal.pcbi.1003118