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Nucleic Acids Research 2005 33(7):2078-2089; doi:10.1093/nar/gki338
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Published online 11 April 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
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Article

Tissue-dependent isoforms of mammalian Fox-1 homologs are associated with tissue-specific splicing activities

Shingo Nakahata and Sachiyo Kawamoto*

Laboratory of Molecular Cardiology, National Heart, Lung, and Blood Institute, National Institutes of Health Bethesda, MD 20892, USA

*To whom correspondence should be addressed at National Institutes of Health, Building 10, Room 8N202, 10 Center Dr MSC 1762, Bethesda, MD 20892-1762, USA. Tel: +1 301 496 1912; Fax: +1 301 402 1542; Email: KawamotS{at}MAIL.NIH.GOV

Received February 14, 2005. Accepted March 16, 2005.

An intronic hexanucleotide UGCAUG has been shown to play a critical role in the regulation of tissue-specific alternative splicing of pre-mRNAs in a wide range of tissues. Vertebrate Fox-1 has been shown to bind to this element, in a highly sequence-specific manner, through its RNA recognition motif (RRM). In mammals, there are at least two Fox-1-related genes, ataxin-2 binding protein 1 (A2BP1)/Fox-1 and Fxh/Rbm9, which encode an identical RRM. Here, we demonstrate that both mouse Fxh and A2BP1 transcripts undergo tissue-specific alternative splicing, generating protein isoforms specific to brain and muscle. These tissue-specific isoforms are characterized for their abilities to regulate neural cell-specific alternative splicing of a cassette exon, N30, in the non-muscle myosin heavy chain II-B pre-mRNA, previously shown to be regulated through an intronic distal downstream enhancer (IDDE). All Fxh and A2BP1 isoforms with the RRM are capable of binding to the IDDE in vitro through the UGCAUG elements. Each isoform, however, shows quantitative differences in splicing activity and nuclear distribution in transfected cells. All Fxh isoforms and a brain isoform of A2BP1 show a predominant nuclear localization. Brain isoforms of both Fxh and A2BP1 promote N30 splicing much more efficiently than do the muscle-specific isoforms. Skeletal muscles express additional isoforms that lack a part of the RRM. These isoforms are incapable of activating neural cell-specific splicing and, moreover, can inhibit UGCAUG-dependent N30 splicing. These findings suggest that tissue-specific isoforms of Fxh and A2BP1 play an important role in determining tissue specificity of UGCAUG-mediated alternative splicing.

DDBJ/EMBL/GenBank accession nos AY659951–AY659958


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