Fragmentation of the Large Subunit Ribosomal RNA Gene in Oyster Mitochondrial Genomes

dc.contributor.utaustinauthorLee, Jung C.en_US
dc.contributor.utaustinauthorCannone, Jamie J.en_US
dc.contributor.utaustinauthorGutell, Robin R.en_US
dc.creatorMilbury, Coren A.en_US
dc.creatorLee, Jung C.en_US
dc.creatorCannone, Jamie J.en_US
dc.creatorGaffney, Patrick M.en_US
dc.creatorGutell, Robin R.en_US
dc.description.abstractDiscontinuous genes have been observed in bacteria, archaea, and eukaryotic nuclei, mitochondria and chloroplasts. Gene discontinuity occurs in multiple forms: the two most frequent forms result from introns that are spliced out of the RNA and the resulting exons are spliced together to form a single transcript, and fragmented gene transcripts that are not covalently attached post-transcriptionally. Within the past few years, fragmented ribosomal RNA (rRNA) genes have been discovered in bilateral metazoan mitochondria, all within a group of related oysters. Results: In this study, we have characterized this fragmentation with comparative analysis and experimentation. We present secondary structures, modeled using comparative sequence analysis of the discontinuous mitochondrial large subunit rRNA genes of the cupped oysters C. virginica, C. gigas, and C. hongkongensis. Comparative structure models for the large subunit rRNA in each of the three oyster species are generally similar to those for other bilateral metazoans. We also used RT-PCR and analyzed ESTs to determine if the two fragmented LSU rRNAs are spliced together. The two segments are transcribed separately, and not spliced together although they still form functional rRNAs and ribosomes. Conclusions: Although many examples of discontinuous ribosomal genes have been documented in bacteria and archaea, as well as the nuclei, chloroplasts, and mitochondria of eukaryotes, oysters are some of the first characterized examples of fragmented bilateral animal mitochondrial rRNA genes. The secondary structures of the oyster LSU rRNA fragments have been predicted on the basis of previous comparative metazoan mitochondrial LSU rRNA structure models.en_US
dc.description.departmentCenter for Computational Biology and Bioinformaticsen_US
dc.description.sponsorshipNational Institutes of Health GM067317en_US
dc.description.sponsorshipWelch Foundation F-1427en_US
dc.identifier.citationMilbury, Coren A., Jung C. Lee, Jamie J. Cannone, Patrick M. Gaffney, and Robin R. Gutell. "Fragmentation of the large subunit ribosomal RNA gene in oyster mitochondrial genomes." BMC genomics, Vol. 11, No. 1 (Sep., 2010): 485.en_US
dc.relation.ispartofserialBMC Genomicsen_US
dc.rightsAdministrative deposit of works to Texas ScholarWorks: This works author(s) is or was a University faculty member, student or staff member; this article is already available through open access or the publisher allows a PDF version of the article to be freely posted online. The library makes the deposit as a matter of fair use (for scholarly, educational, and research purposes), and to preserve the work and further secure public access to the works of the University.en_US
dc.subjecttetrahymena-pyriformis mitochondriaen_US
dc.subjectcomparative sequence-analysisen_US
dc.subjectphenylalanine transfer-rnaen_US
dc.subjectsecondary structure modelen_US
dc.subjectdna sequenceen_US
dc.subjectdiscontinuous mitochondrialen_US
dc.subjectbiotechnology & applied microbiologyen_US
dc.subjectgenetics & heredityen_US
dc.titleFragmentation of the Large Subunit Ribosomal RNA Gene in Oyster Mitochondrial Genomesen_US

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