MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization

By Guanliang Meng, Yiyuan Li, Chentao Yang, Shanlin Liu. Nucleic Acids Research, 2019

1,008 citations recorded by the source corpus.

Abstract Mitochondrial genome (mitogenome) plays important roles in evolutionary and ecological studies. It becomes routine to utilize multiple genes on mitogenome or the entire mitogenomes to investigate phylogeny and biodiversity of focal groups with the onset of High Throughput Sequencing (HTS) technologies. We developed a mitogenome toolkit MitoZ, consisting of independent modules of de novo assembly, findMitoScaf (find Mitochondrial Scaffolds), annotation and visualization, that can generate mitogenome assembly together with annotation and visualization results from HTS raw reads. We evaluated its performance using a total of 50 samples of which mitogenomes are publicly available. The results showed that MitoZ can recover more full-length mitogenomes with higher accuracy compared to the other available mitogenome assemblers. Overall, MitoZ provides a one-click solution to construct the annotated mitogenome from HTS raw data and will facilitate large scale ecological and evolutionary studies. MitoZ is free open source software distributed under GPLv3 license and available at https://github.com/linzhi2013/MitoZ.

Subfields: Ecology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/76ecf846a7e86d4c689ea2500d1513745e3ec5f4

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In Molecular Biology

1. Claude W. dePamphilis
2. Jun-bo Yang
3. Wen-bin Yu
4. Yu Song

Citations in the corpus

• GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes (2018, methodology): “samples that were excluded by MitoZ for “mitochondrial derived reads ratios of 0”, although our tests used 1~5 folds bases of the tests in MitoZ paper [14].”