title: Alternative mRNA splicing and differential promoter utilization determine tissue-specific expression of the apolipoprotein B mRNA-editing protein (Apobec1) gene in mice. Structure and evolution of Apobec1 and related nucleoside/nucleotide deaminases.
abstract: Apolipoprotein (apo) B mRNA editing consists of a C-->U conversion involving the first base of the codon CAA, encoding Gln 2153, to UAA, a stop codon. Editing occurs in the intestine only in most mammals, and in both the liver and intestine in a few mammalian species including mouse. We have cloned the cDNA for the mouse apoB mRNA editing protein, apobec1. Expression of mouse apobec1 cDNA in HepG2 cells results in the editing of the intracellular apoB mRNA. The cDNA predicts a 229-amino acid protein showing 92, 66, and 70% identity to the rat, rabbit, and human proteins, respectively. Based on the estimated values of divergence of apobec1 sequences in terms of the numbers of synonymous and non-synonymous suhstitutions per site, we found that apobec1 is a fairly rapidly evolving protein. Sequence comparison among mammalian apobec1 sequences has permitted the identification of seven conserved regions that may be functionally important for editing activity. We present a phylogenetic tree relating apobec1 sequences to double-stranded RNA adenosine deaminase and other nucleotide/nucleoside deaminases. Northern blot analysis indicates that apobec1 mRNA exists in two different sizes, a approximately 2.2-kilobase (kb) form in small intestine and a approximately 2.4-kb form in liver, spleen, kidney, lung, muscle, and heart. To study the molecular basis for the different sized apobec1 mRNAs, we cloned the apobec1 gene and characterized its exon-intron organization together with the sequences expressed in the hepatic and intestinal mRNA. The mouse apobec1 gene contains 8 exons and spans approximately 25 kb, and is located in chromosome 6. The major hepatic mRNA contains all 8 exons, whereas the major small intestinal mRNA misses the first 3 exons and its transcription is initiated in exon 4. The intestinal mRNA also contains at its 5' end a unique 102-nucleotide piece that is absent in the liver mRNA. We also identified two alternatively spliced hepatic apobec1 mRNAs with different acceptor sites in exon 4. Transient expression studies using promoter-reporter gene constructs in HeLa, Hepa, and Caco-2 cells indicate that the 5'-flanking sequences of the liver mRNA (i.e. upstream of exon 1) have predominantly hepatic promoter activity and the 5'-flanking sequences of the major small intestine mRNA (i.e. upstream of exon 4) have preferential intestinal promoter activity.(ABSTRACT TRUNCATED AT 400 WORDS)
authors.affiliation: Department of Cell Biology, Baylor College of Medicine, Houston, Texas 77030, USA.
authors.forename: M
authors.initials: M
authors.lastname: Nakamuta
authors.forename: K
authors.initials: K
authors.lastname: Oka
authors.forename: J
authors.initials: J
authors.lastname: Krushkal
authors.forename: K
authors.initials: K
authors.lastname: Kobayashi
authors.forename: M
authors.initials: M
authors.lastname: Yamamoto
authors.forename: W H
authors.initials: WH
authors.lastname: Li
authors.forename: L
authors.initials: L
authors.lastname: Chan
mesh_terms: D000071479:APOBEC-1 Deaminase; D017398:Alternative Splicing; D000595:Amino Acid Sequence; D000818:Animals; D001055:Apolipoproteins B; D001483:Base Sequence; D005075:Biological Evolution; D015152:Blotting, Northern; D002460:Cell Line; D002874:Chromosome Mapping; D003001:Cloning, Molecular; D003564:Cytidine Deaminase / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D018076:DNA, Complementary; D005786:Gene Expression Regulation; D006367:HeLa Cells; D006801:Humans; D007421:Intestine, Small / Q000378:metabolism; D008099:Liver / Q000378:metabolism; D051379:Mice; D008969:Molecular Sequence Data; D009700:Nucleoside Deaminases / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D009709:Nucleotide Deaminases / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D011401:Promoter Regions, Genetic; D011487:Protein Conformation; D012333:RNA, Messenger / Q000235:genetics*; D013045:Species Specificity; D014162:Transfection; D000098830:AICDA (Activation-Induced Cytidine Deaminase)
chemical_list: D001055:Apolipoproteins B; D018076:DNA, Complementary; D012333:RNA, Messenger; D000098830:AICDA (Activation-Induced Cytidine Deaminase); D009700:Nucleoside Deaminases; D009709:Nucleotide Deaminases; D000071479:APOBEC-1 Deaminase; C000605089:APOBEC1 protein, human; C000605090:Apobec1 protein, mouse; C000605091:Apobec1 protein, rat; D003564:Cytidine Deaminase