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Transcriptomic analysis of ETV6/RUNX1 KO lymphoid cell line generated by CRISPR/Cas9 showed a distinct expression signature and a deregulation of its downstream signaling genes

ABSTRACT: Transcriptomic analysis of ETV6/RUNX1 KO lymphoid cell line generated by CRISPR/Cas9 showed a distinct expression signature and a deregulation of its downstream signaling genes

PROVIDER: PRJNA591607 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10529688_1.fastq.gz	Fastqsanger.gz
	SRR10529688_2.fastq.gz	Fastqsanger.gz
	SRR10529689_1.fastq.gz	Fastqsanger.gz
	SRR10529689_2.fastq.gz	Fastqsanger.gz
	SRR10529690_1.fastq.gz	Fastqsanger.gz

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Project description:ETV6-RUNX1 is associated with childhood B-cell acute lymphoblastic leukemia (B-ALL), but the consequence of ETV6-RUNX1 expression on cell lineage decision during B-cell leukemogenesis remains largely evasive. Clinically silent ETV6-RUNX1 preleukemic clones are frequently found in neonatal cord blood, but only a few carriers develop B-ALL as a result of the acquisition of secondary postnatal genetic hits, like KDM5C or PAX5 loss. However, understanding the mechanism involved in this transformation would advance the development of non-toxic prophylactic interventions to preleukemic carriers. Using genetic lineage tracing, we have examined the capacity of ETV6-RUNX1 in instructing a B-cell malignant phenotype. Restricted Cre-mediated activation of ETV6-RUNX1 from the endogenous Etv6 locus into B-cell precursors does not trigger B-ALL development. Similarly, concomitant transient ETV6-RUNX1 expression in hematopoietic progenitors close to restricted Cre-mediated introduction of second hit (Kdm5c loss) in B-cells fail to induce B-ALL. In contrast, targeting ETV6-RUNX1 in hematopoietic progenitors was required to induce leukemia. These mice develop either T-ALL or B-ALL, suggesting that the nature of the second hit may define tumor cell identity during ETV6-RUNX1 leukemogenesis. In order to uncover a potential exclusive effect of the second hit in establishing the leukemic phenotype, we next showed that the introduction of the second hit, either Kdm5c or Pax5 loss, to the ETV6-RUNX1 preleukemic clone confers the tumor B-cell identity without need of environmental infection exposure. The resulting B-ALLs clustered according to the second-hit by RNA sequencing (RNA-Seq) analysis. Together these results provide a novel paradigm for the generation of tumor B cells through ETV6-RUNX1 in vivo where the second hit confers the tumor cell-identity to the ETV6-RUNX1 preleukemic clone. These findings could be relevant to develop new therapeutic approaches to prevent disease development.

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Transcriptomic analysis of ETV6/RUNX1 KO lymphoid cell line generated by CRISPR/Cas9 showed a distinct expression signature and a deregulation of its downstream signaling genes

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