Circular RNAs of the Nucleophosmin (NPM1) Gene in Acute Myeloid Leukemia

Overview

Journal Haematologica

Specialty Hematology

Date 2017 Oct 4

PMID 28971903

Citations 51

Authors

Susanne Hirsch

Tamara J Blatte

Sarah Grasedieck

Sibylle Cocciardi

Arefeh Rouhi

Mojca Jongen-Lavrencic

Peter Paschka

Jan Kronke

Verena I Gaidzik

Hartmut Dohner

Richard F Schlenk

Florian Kuchenbauer

Konstanze Dohner

Anna Dolnik

Lars Bullinger

Affiliations

Soon will be listed here.

Abstract

In acute myeloid leukemia, there is growing evidence for splicing pattern deregulation, including differential expression of linear splice isoforms of the commonly mutated gene (). In this study, we detect circular RNAs of and quantify circRNA hsa_circ_0075001 in a cohort of wild-type and mutated acute myeloid leukemia (n=46). Hsa_circ_0075001 expression correlates positively with total expression, but is independent of the mutational status. High low hsa_circ_0075001 expression defines patient subgroups characterized by distinct gene expression patterns, such as lower expression of components of the Toll-like receptor signaling pathway in high hsa_circ_0075001 expression cases. Global evaluation of circRNA expression in sorted healthy hematopoietic controls (n=10) and acute myeloid leukemia (n=10) reveals circRNA transcripts for 47.9% of all highly expressed genes. While circRNA expression correlates globally with parental gene expression, we identify hematopoietic differentiation-associated as well as acute myeloid leukemia subgroup-specific circRNA signatures.

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References

Subramanian A, Tamayo P, Mootha V, Mukherjee S, Ebert B, Gillette M . Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005; 102(43):15545-50. PMC: 1239896. DOI: 10.1073/pnas.0506580102. View

Nagai Y, Garrett K, Ohta S, Bahrun U, Kouro T, Akira S . Toll-like receptors on hematopoietic progenitor cells stimulate innate immune system replenishment. Immunity. 2006; 24(6):801-812. PMC: 1626529. DOI: 10.1016/j.immuni.2006.04.008. View

Grisendi S, Mecucci C, Falini B, Pandolfi P . Nucleophosmin and cancer. Nat Rev Cancer. 2006; 6(7):493-505. DOI: 10.1038/nrc1885. View

Thierry-Mieg D, Thierry-Mieg J . AceView: a comprehensive cDNA-supported gene and transcripts annotation. Genome Biol. 2006; 7 Suppl 1:S12.1-14. PMC: 1810549. DOI: 10.1186/gb-2006-7-s1-s12. View

Falini B, Nicoletti I, Bolli N, Martelli M, Liso A, Gorello P . Translocations and mutations involving the nucleophosmin (NPM1) gene in lymphomas and leukemias. Haematologica. 2007; 92(4):519-32. DOI: 10.3324/haematol.11007. View

Betel D, Wilson M, Gabow A, Marks D, Sander C . The microRNA.org resource: targets and expression. Nucleic Acids Res. 2007; 36(Database issue):D149-53. PMC: 2238905. DOI: 10.1093/nar/gkm995. View

Johnson M, Zaretskaya I, Raytselis Y, Merezhuk Y, McGinnis S, Madden T . NCBI BLAST: a better web interface. Nucleic Acids Res. 2008; 36(Web Server issue):W5-9. PMC: 2447716. DOI: 10.1093/nar/gkn201. View

Marcucci G, Radmacher M, Maharry K, Mrozek K, Ruppert A, Paschka P . MicroRNA expression in cytogenetically normal acute myeloid leukemia. N Engl J Med. 2008; 358(18):1919-28. DOI: 10.1056/NEJMoa074256. View

Okamoto M, Hirai H, Taniguchi K, Shimura K, Inaba T, Shimazaki C . Toll-like receptors (TLRs) are expressed by myeloid leukaemia cell lines, but fail to trigger differentiation in response to the respective TLR ligands. Br J Haematol. 2009; 147(4):585-7. DOI: 10.1111/j.1365-2141.2009.07858.x. View

10.

Schwind S, Maharry K, Radmacher M, Mrozek K, Holland K, Margeson D . Prognostic significance of expression of a single microRNA, miR-181a, in cytogenetically normal acute myeloid leukemia: a Cancer and Leukemia Group B study. J Clin Oncol. 2010; 28(36):5257-64. PMC: 3018359. DOI: 10.1200/JCO.2010.29.2953. View

11.

Sun S, Dijkstra M, Bijkerk A, Brooimans R, Valk P, Erkeland S . Transition of highly specific microRNA expression patterns in association with discrete maturation stages of human granulopoiesis. Br J Haematol. 2011; 155(3):395-8. DOI: 10.1111/j.1365-2141.2011.08682.x. View

12.

Russ A, Sander S, Luck S, Lang K, Bauer M, Rucker F . Integrative nucleophosmin mutation-associated microRNA and gene expression pattern analysis identifies novel microRNA - target gene interactions in acute myeloid leukemia. Haematologica. 2011; 96(12):1783-91. PMC: 3232260. DOI: 10.3324/haematol.2011.046888. View

13.

Salzman J, Gawad C, Wang P, Lacayo N, Brown P . Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types. PLoS One. 2012; 7(2):e30733. PMC: 3270023. DOI: 10.1371/journal.pone.0030733. View

14.

Rucker F, Russ A, Cocciardi S, Kett H, Schlenk R, Botzenhardt U . Altered miRNA and gene expression in acute myeloid leukemia with complex karyotype identify networks of prognostic relevance. Leukemia. 2012; 27(2):353-61. DOI: 10.1038/leu.2012.208. View

15.

Djebali S, Davis C, Merkel A, Dobin A, Lassmann T, Mortazavi A . Landscape of transcription in human cells. Nature. 2012; 489(7414):101-8. PMC: 3684276. DOI: 10.1038/nature11233. View

16.

Dolnik A, Engelmann J, Scharfenberger-Schmeer M, Mauch J, Kelkenberg-Schade S, Haldemann B . Commonly altered genomic regions in acute myeloid leukemia are enriched for somatic mutations involved in chromatin remodeling and splicing. Blood. 2012; 120(18):e83-92. DOI: 10.1182/blood-2011-12-401471. View

17.

Dobin A, Davis C, Schlesinger F, Drenkow J, Zaleski C, Jha S . STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2012; 29(1):15-21. PMC: 3530905. DOI: 10.1093/bioinformatics/bts635. View

18.

Jeck W, Sorrentino J, Wang K, Slevin M, Burd C, Liu J . Circular RNAs are abundant, conserved, and associated with ALU repeats. RNA. 2012; 19(2):141-57. PMC: 3543092. DOI: 10.1261/rna.035667.112. View

19.

Memczak S, Jens M, Elefsinioti A, Torti F, Krueger J, Rybak A . Circular RNAs are a large class of animal RNAs with regulatory potency. Nature. 2013; 495(7441):333-8. DOI: 10.1038/nature11928. View

20.

Glazar P, Papavasileiou P, Rajewsky N . circBase: a database for circular RNAs. RNA. 2014; 20(11):1666-70. PMC: 4201819. DOI: 10.1261/rna.043687.113. View