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Coevolution of group II intron RNA structures with their intron-encoded reverse transcriptases.
A new model is proposed, designated the retroelement ancestor hypothesis, which predicts that the major RNA structural forms of group II introns developed through coevolution with the intron-encoded protein rather than as independent catalytic RNAs, and that most OrF-less introns are derivatives of ORF-containing introns. Expand
Phylogenetic relationships among group II intron ORFs.
Differences in domain structures suggest that the oldest ORFs were concise, while the ORF in the mitochondrial lineage subsequently expanded in three locations, consistent with a bacterial origin for mobile group II introns. Expand
The evolutionary history of mitochondrial porins
Preliminary data support the notion that introns usually do not interrupt structural protein motifs, namely the predicted β-strands, and concur with the concept of exon shuffling, wherein exons encode structural modules of proteins and the loss and gain of introns and the shuffling of exons via recombination events contribute to the complexity of modern day proteomes. Expand
On the subdivision of Ceratocystis s.l., based on partial ribosomal DNA sequences
Analyses of partial rDNA sequences from both the small and large subunit genes of species of Ceratocystis s.l. support the contention that species that lack Chalara anamorphs, are resistant to cycl...
6 - Fungal Mitochondrial Genomes, Plasmids and Introns
Within the fungi mitochondrial genomes, mitochondrial genomes can exist as either linear or circular molecules, whose size variation is mostly due to the presence or absence of optional introns, and size variation in the intergenic regions. Expand
Evolution of rDNA ITS1 and ITS2 sequences and RNA secondary structures within members of the fungal genera Grosmannia and Leptographium.
The results demonstrate that structural conservation of GC-rich helical regions is facilitated primarily through compensatory base changes (CBCs), hemi-CBCs, and compensating insertions/deletions (indels), although slippage of the RNA strand is potentially an additional mechanism for maintaining basepairing interactions. Expand
Unusual compact rDNA gene arrangements within some members of the Ascomycota: evidence for molecular co-evolution between ITS1 and ITS2.
Correlation analysis revealed that the sizes of ITS1 and ITS2 show a strong positive correlation, suggesting that the 2 rDNA regions have co-evolved, and supports biochemical evidence indicating that the ITS2 segments interact to facilitate the maturation of the rRNA precursor. Expand
Origin and evolution of the chloroplast trnK (matK) intron: a model for evolution of group II intron RNA structures.
The data support a model in which plant organellar group II introns were derived from bacterial-like introns that had "standard" RNA structures and were competent for self-splicing and mobility and that subsequently the ribozyme structures degenerated to ultimately become dependent upon host- Splicing factors. Expand
Isolation of high molecular weight DNA and double-stranded RNAs from fungi.
An efficient method for the extraction of DNA and RNA from fungi is described and a method is also described for RNase digestion of single-stranded and double-Stranded RNA in agarose gels. Expand
Programmable Genome Editing Tools and their Regulation for Efficient Genome Engineering
This review will outline the various genome editing tools that are currently available and describe the strategies that have so far been employed for regulating these editing reagents, and examine potential regulatory switches/strategies that can be employed in the future in order to provide temporal control for these reagents. Expand