Journal article
RNA editing of 10 Didymium iridis mitochondrial genes and comparison with the homologous genes in Physarum polycephalum
RNA (Cambridge), Vol.16(4), pp.828-838
04/01/2010
DOI: 10.1261/rna.1989310
PMCID: PMC2844629
PMID: 20159952
Abstract
Regions of the Didymium iridis mitochondrial genome were identified with similarity to typical mitochondrial genes; however, these regions contained numerous stop codons. We used RT-PCR and DNA sequencing to determine whether, through RNA editing, these regions were transcribed into mRNAs that could encode functional proteins. Ten putative gene regions were examined: atp1, atp6, atp8, atp9, cox1, cox2, cytb, nad4L, nad6, and nad7. The cDNA sequences of each gene could encode a functional mitochondrial protein that was highly conserved compared with homologous genes. The type of editing events and editing sequence features were very similar to those observed in the homologous genes of Physarum polycephalum, though the actual editing locations showed a variable degree of conservation. Edited sites were compared with encoded sites in D. iridis and P. polycephalum for all 10 genes. Edited sequence for a portion of the cox1 gene was available for six myxomycetes, which, when compared, showed a high degree of conservation at the protein level. Different types of editing events showed varying degrees of site conservation with C-to-U base changes being the least conserved. Several aspects of single C insertion editing events led to the preferential creation of hydrophobic amino acid codons that may help to minimize adverse effects on the resulting protein structure.
Details
- Title: Subtitle
- RNA editing of 10 Didymium iridis mitochondrial genes and comparison with the homologous genes in Physarum polycephalum
- Creators
- Stephen J. Traphagen - Boston Public SchoolsMichael J. Dimarco - Medical College of WisconsinMargaret E. Silliker - DePaul University
- Resource Type
- Journal article
- Publication Details
- RNA (Cambridge), Vol.16(4), pp.828-838
- Publisher
- Cold Spring Harbor Lab Press, Publications Dept
- DOI
- 10.1261/rna.1989310
- PMID
- 20159952
- PMCID
- PMC2844629
- ISSN
- 1355-8382
- eISSN
- 1469-9001
- Number of pages
- 11
- Grant note
- Undergraduate Research and Development Summer Grant Program DePaul University College of Liberal Arts and Sciences Undergraduate Research Assistant Program DePaul University College of Liberal Arts and Sciences Faculty Development Fund DePaul University Research Council
- Language
- English
- Date published
- 04/01/2010
- Academic Unit
- Family and Community Medicine
- Record Identifier
- 9984658251502771
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