A Comparative Analysis of Mitochondrial Genomes in Eustigmatophyte Algae

0473015 - ÚMG 2017 RIV GB eng J - Journal Article
Ševčíková, T. - Klimeš, V. - Zbránková, V. - Strnad, Hynek - Hroudová, Miluše - Vlček, Čestmír - Eliáš, M.
A Comparative Analysis of Mitochondrial Genomes in Eustigmatophyte Algae.
Genome Biology and Evolution. Roč. 8, č. 3 (2016), s. 705-722. ISSN 1759-6653. E-ISSN 1759-6653
R&D Projects: GA ČR GA13-33039S
Grant - others:GA MŠk(CZ) LO1208; GA MŠk(CZ) ED2.1.00/03.0100
Institutional support: RVO:68378050
Keywords : Eustigmatophyceae * evolution * phylogenomics * split genes * Stramenopiles * suppressor tRNA
Subject RIV: EB - Genetics ; Molecular Biology
Impact factor: 3.979, year: 2016

Eustigmatophyceae (Ochrophyta, Stramenopiles) is a small algal group with species of the genus Nannochloropsis being its best studied representatives. Nuclear and organellar genomes have been recently sequenced for several Nannochloropsis spp., but phylogenetically wider genomic studies are missing for eustigmatophytes. We sequenced mitochondrial genomes (mitogenomes) of three species representing most major eustigmatophyte lineages, Monodopsis sp. MarTras21, Vischeria sp. CAUP Q 202 and Trachydiscus minutus, and carried out their comparative analysis in the context of available data from Nannochloropsis and other stramenopiles, revealing a number of noticeable findings. First, mitogenomes of most eustigmatophytes are highly collinear and similar in the gene content, but extensive rearrangements and loss of three otherwise ubiquitous genes happened in the Vischeria lineage; this correlates with an accelerated evolution of mitochondrial gene sequences in this lineage. Second, eustigmatophytes appear to be the only ochrophyte group with the Atp1 protein encoded by the mitogenome. Third, eustigmatophyte mitogenomes uniquely share a truncated nad11 gene encoding only the C-terminal part of the Nad11 protein, while the N-terminal part is encoded by a separate gene in the nuclear genome. Fourth, UGA as a termination codon and the cognate release factor mRF2 were lost from mitochondria independently by the Nannochloropsis and T. minutus lineages. Finally, the rps3 gene in the mitogenome of Vischeria sp. is interrupted by the UAG codon, but the genome includes a gene for an unusual tRNA with an extended anticodon loop that we speculate may serve as a suppressor tRNA to properly decode the rps3 gene.
Permanent Link: http://hdl.handle.net/11104/0270186