High quality genome assembly of the amitochondriate eukaryote Monocercomonoides exilis
| Autor: | Treitli, Sebastian Cristian, Peña-Diaz, Priscila, Hałakuc, Paweł, Karnkowska, Anna, Hampl, Vladimír |
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| Jazyk: | angličtina |
| Předmět: |
Genomic Methodologies
Base Composition amitochondriate Oxymonadida Whole Genome Sequencing Gene Expression Profiling Monocercomonoides Protozoan Proteins High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Nanopore Sequencing Gene Expression Regulation Genome Size nanopore genome Research Articles |
| Zdroj: | Microbial Genomics |
| ISSN: | 2057-5858 |
| DOI: | 10.1099/mgen.0.000745 |
| Popis: | Monocercomonoides exilisis considered the first known eukaryote to completely lack mitochondria. This conclusion is based primarily on a genomic and transcriptomic study which failed to identify any mitochondrial hallmark proteins. However, the available genome assembly has limited contiguity and around 1.5 % of the genome sequence is represented by unknown bases. To improve the contiguity, we re-sequenced the genome and transcriptome ofM. exilisusing Oxford Nanopore Technology (ONT). The resulting draft genome is assembled in 101 contigs with an N50 value of 1.38 Mbp, almost 20 times higher than the previously published assembly. Using a newly generated ONT transcriptome, we further improve the gene prediction and add high quality untranslated region (UTR) annotations, in which we identify two putative polyadenylation signals present in the 3′UTR regions and characterise the Kozak sequence in the 5′UTR regions. All these improvements are reflected by higher BUSCO genome completeness values. Regardless of an overall more complete genome assembly without missing bases and a better gene prediction, we still failed to identify any mitochondrial hallmark genes, thus further supporting the hypothesis on the absence of mitochondrion. |
| Databáze: | OpenAIRE |
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