A myelopoiesis-associated regulatory intergenic noncoding RNA transcript within the human HOXA cluster

Zhang, X., Lian, Z., Padden, C., Gerstein, M. B., Rozowsky, J., Snyder, M., Gingeras, T. R., Kapranov, P., Weissman, S. M., Newburger, P. E. (March 2009) A myelopoiesis-associated regulatory intergenic noncoding RNA transcript within the human HOXA cluster. Blood, 113 (11). pp. 2526-34. ISSN 1528-0020 (Electronic)

URL: http://www.ncbi.nlm.nih.gov/pubmed/19144990
DOI: 10.1182/blood-2008-06-162164

Abstract

We have identified an intergenic transcriptional activity that is located between the human HOXA1 and HOXA2 genes, shows myeloid-specific expression, and is up-regulated during granulocytic differentiation. The novel gene, termed HOTAIRM1 (HOX antisense intergenic RNA myeloid 1), is transcribed antisense to the HOXA genes and originates from the same CpG island that embeds the start site of HOXA1. The transcript appears to be a noncoding RNA containing no long open-reading frame; sucrose gradient analysis shows no association with polyribosomal fractions. HOTAIRM1 is the most prominent intergenic transcript expressed and up-regulated during induced granulocytic differentiation of NB4 promyelocytic leukemia and normal human hematopoietic cells; its expression is specific to the myeloid lineage. Its induction during retinoic acid (RA)-driven granulocytic differentiation is through RA receptor and may depend on the expression of myeloid cell development factors targeted by RA signaling. Knockdown of HOTAIRM1 quantitatively blunted RA-induced expression of HOXA1 and HOXA4 during the myeloid differentiation of NB4 cells, and selectively attenuated induction of transcripts for the myeloid differentiation genes CD11b and CD18, but did not noticeably impact the more distal HOXA genes. These findings suggest that HOTAIRM1 plays a role in the myelopoiesis through modulation of gene expression in the HOXA cluster.

Item Type: Paper
Additional Information:
Uncontrolled Keywords: Cells Cultured DNA Intergenic genetics Gene Expression Profiling HL-60 Cells Hela Cells Homeodomain Proteins genetics Humans Jurkat Cells K562 Cells Multigene Family genetics Myelopoiesis genetics Oligonucleotide Array Sequence Analysis RNA Polymerase II metabolism physiology RNA, Messenger genetics RNA, Untranslated analysis genetics Regulatory Sequences Ribonucleic Acid genetics Transcription Factors genetics
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription
CSHL Authors:
Communities: CSHL labs > Gingeras lab
Depositing User: CSHL Librarian
Date: 12 March 2009
Date Deposited: 08 Mar 2012 14:38
Last Modified: 12 Jul 2013 18:24
PMCID: PMC2656274
Related URLs:
URI: http://repository.cshl.edu/id/eprint/25339

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