Comparative analysis of the mitochondrial genomes of six newly sequenced diatoms reveals group II introns in the barcoding region of cox1
| Autor: | Kyle G. Keepers, Nolan C. Kane, Joshua G. Stepanek, Cloe S. Pogoda, Sarah E. Hamsher, J. Patrick Kociolek |
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| Rok vydání: | 2018 |
| Předmět: |
0106 biological sciences
0301 basic medicine Mitochondrial DNA Lineage (genetic) Retroelements 010603 evolutionary biology 01 natural sciences Genome Electron Transport Complex IV Evolution Molecular 03 medical and health sciences Algae Phylogenetics Genetics Molecular Biology Phylogeny Diatoms Polymorphism Genetic biology fungi Intron Group II intron biology.organism_classification Introns 030104 developmental biology Diatom Evolutionary biology Genome Mitochondrial human activities Sequence Alignment |
| Zdroj: | Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis. 30(1) |
| ISSN: | 2470-1408 |
| Popis: | Diatoms are the most diverse lineage of algae and at the base of most aquatic food webs, but only 11 of their mitochondrial genomes have been described. Herein, we present the mitochondrial genomes of six diatom species, including: Melosira undulata, Nitzschia alba, Surirella sp., Entomoneis sp., Halamphora coffeaeformis, and Halamphora calidilacuna. Comparison of these six genomes to the 11 currently published diatom mitochondrial genomes revealed a novel ubiquitous feature block consisting of tatC-orf157-rps11. The presence of intronic retrotransposable elements in the barcoding region of cox1 in the Halamphora genomes may explain historic difficulty (especially PCR) with cox1 as a universal barcode for diatoms. Our analysis suggests that high rates of variability in number and position of introns, in many commonly used coding sequences, prevent these from being universally viable as barcodes for diatoms. Therefore, we suggest researchers examine the chloroplast and/or nuclear genomes for universal barcoding markers. |
| Databáze: | OpenAIRE |
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