Mitochondrial phylogenomics of liverworts

Premise: Liverworts, with approximately 7,300 species worldwide, exhibit remarkable morphological diversity, in terms of growth form, ontogeny and architecture. Based on phylogenetic inferences drawn from DNA data, including recent genomic-scale data, the relationships among families and orders have been constantly revised and refined, although new topological incongruences have emerged. The liverwort mitochondrial genome exhibits lower average substitution rates compared to their nuclear and plastid genomes, and shows less structural variation, suggesting its suitability for inferring relationships at higher taxonomic levels.
Methods: The mitochondrial genomes of 112 liverworts were sequenced, covering 105 species, 52 families and 18 orders. We analysed the structures of the liverwort mitogenomes using Mauve alignment. Maximum likelihood and Bayesian inference methods were used to infer a family-level phylogeny of liverworts.
Results: We assembled the complete mitochondrial genome for ..., , , # Mitochondrial phylogenomics of liverworts

[https://doi.org/10.5061/dryad.0p2ngf289](https://doi.org/10.5061/dryad.0p2ngf289)

**Usage notes**

* captured_genes.zip——Mitochondrial genes captured using Hybpiper pipeline v1.3. 
* complete_assemblies.zip——23 complete liverwort mitochondrial genomes. Files are in .gb format and can be viewed and edited using Geneious Prime.
* 1_MrBayes_trimmed.zip——Trimmed alignment files of 57 complete liverwort mitochondrial and two moss genomes used for Bayesian inference.
* 1_MrBayes.nex.con.zip——The Bayesian inferred tree file of 57 complete liverwort mitochondrial and two moss genomes.
* 1_RAxML_trimmed.zip——Trimmed alignment files of 57 complete liverwort mitochondrial and two moss genomes used for maximum likelihood.
* 1_RAxML_bipartitions.zip——The maximum likelihood tree file of 57 complete liverwort mitochondrial and two moss genomes.
* 3_MrBayes_trimmed.zip——Trimmed alignment files of 178 liverwort mitochondrial and two moss outgr...