Rickettsiales’ deep evolutionary history sheds light on the emergence of intracellular lifestyles

Data description: 1. File name: 1_16S_genomes_silva_format.fna. File description: 85 16S rRNA sequences in FASTA format identified in a database of 129 Rickettsiales genomes/MAGs. 2. File name: 2_SILVA_138_prokarya_Rickettsiales.fasta. File description: modified version of SILVA release 138 database. 3. File name: 3_24_mitocogs_hmm_models.tar.gz. File description: 24 HMM models constructed using the MitoCOGs database. 4. File name: 4_Rickettsiales_phylogeny.fasta. File description: Amino acid concatenated alignment of 53 taxa used for Rickettsiales evolutionary history reconstruction. 5. File name: 5_Mito_Ricket_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa used for the Mitochondrial-centric genome-based phylogeny. 6. File name: 6_Mito_Ricket_2percent_sitestripped_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa used for the Mitochondrial-centric genome-based phylogeny with 2% site stripping. 7. File name: 7_Mito_Ricket_5percent_sitestripped_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa used for the Mitochondrial-centric genome-based phylogeny with 5% site stripping. 8. File name: 8_Mito_Ricket_8percent_sitestripped_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa used for the Mitochondrial-centric genome-based phylogeny with 8% site stripping. 9. File name: 9_Mito_Ricket_No_MarineAlpha9Bin5_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa without MarineAlpha9 Bin5 genome used for the Mitochondrial-centric genome-based phylogeny. 10. File name: 10_Mito_Ricket_No_MarineAlpha9Bin5_2percent_sitestripped_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa without MarineAlpha9 Bin5 genome used for the Mitochondrial-centric genome-based phylogeny with 2% site stripping. 11. File name: 11_Mito_Ricket_No_MarineAlpha9Bin5_5percent_sitestripped_phylogeny.fasta. File description: Amino acid concatenated alignment of 33 taxa without MarineAlpha9 Bin5 genome used for the Mitochondrial-centric genome-based phylogeny with 5% site stripping. 12. File name: 12_LBE_Alphabackbone_phylogeny.fasta. File description: Concatenated amino acid alignment of 32 Alphaproteobacterial slow-evolving genomes used for schematic representation of long-branch extraction approach applied to Rickettsiales and mitochondrial fast-evolving lineages. 13. File name: 13_LBE_Alphabackbone_Mitochondria_phylogeny.fasta. File description: Concatenated amino acid alignment of 37 slow-evolving Alphaproteobacterial genomes and mitochondrial fast-evolving lineages used for schematic representation of long-branch extraction approach applied to Rickettsiales and mitochondrial fast-evolving lineages. 14. File name: 14_LBE_Alphabackbone_Rickettsiales_phylogeny.fasta. File description: Concatenated amino acid alignment of 37 slow-evolving Alphaproteobacterial genomes and Rickettsiales fast-evolving lineages used for schematic representation of long-branch extraction approach applied to Rickettsiales and mitochondrial fast-evolving lineages. 15. File name: 15_LBE_Alphabackbone_Mitochondria_Rickettsiales_phylogeny.fasta. File description: Concatenated amino acid alignment of 42 slow-evolving Alphaproteobacterial genomes and Rickettsiales + mitochondrial fast-evolving lineages used for schematic representation of long-branch extraction approach applied to Rickettsiales and mitochondrial fast-evolving lineages.