Alignments and phylogenetic trees presented in the article - Lightella neohaematopini: a new lineage of highly reduced endosymbionts coevolving with chipmunk lice of the genus Neohaematopinus

Published: 27 April 2022| Version 2 | DOI: 10.17632/cks86467mv.2
Contributor:
Jana Rihova

Description

Alignments and phylogenetic trees presented in the article - Lightella neohaematopini: a new lineage of highly reduced endosymbionts coevolving with chipmunk lice of the genus Neohaematopinus 1. Phylogenetic matrix - concatenated matrix of 14 ortholog sequences (AA) extracted from representative set of available proteomes for each major lineage of Enterobacteriales (analyzed by PhyML, MrBayes and PhyloBayes) in a fasta format 2. Coevolutionary matrix - concatenated matrix of 5 ortholog sequences (AA) extracted from 12 assemblies of L. neohaematopini (analyzed by PhyML and MrBayes) in a fasta format 3. Neisseriales matrix - concatenated matrix of 30 ortholog sequences (AA) extracted from representative set of available proteomes for Neisseriales (analyzed by PhyML and MrBayes) in a fasta format 4. Host matrices - individual matrices for 1,107 nuclear loci from Bell et al. 2021 (analyzed by IQ-TREE) in a fasta format 5. Phylogenetic trees - phylogenetic trees generated by PhyML, MrBayes and PhyloBayes in a newick format Detailed description of used methods can be found in the Materials and Methods section.

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1. Phylogenetic matrix - concatenated matrix of 14 ortholog sequences (AA) extracted from representative set of available proteomes for each major lineage of Enterobacteriales (analyzed by PhyML, MrBayes and PhyloBayes) in a fasta format 2. Coevolutionary matrix - concatenated matrix of 5 ortholog sequences (AA) extracted from 12 assemblies of L. neohaematopini (analyzed by PhyML and MrBayes) in a fasta format 3. Neisseriales matrix - concatenated matrix of 30 ortholog sequences (AA) extracted from representative set of available proteomes for Neisseriales (analyzed by PhyML and MrBayes) in a fasta format 4. Host matrices - individual matrices for 1,107 nuclear loci from Bell et al. 2021 (analyzed by IQ-TREE) in a fasta format 5. Phylogenetic trees - phylogenetic trees generated by PhyML, MrBayes and PhyloBayes in a newick format Detailed description of used methods can be found in the Materials and Methods section.

Institutions

Jihoceska Univerzita v Ceskych Budejovicich

Categories

Molecular Phylogenetics

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