Origin and diversification of pheretimoid megascolecid earthworms in the Japanese Archipelago as revealed by mitogenomic phylogenetics

The data deposited are sequence files, parition files, and tree files used in our phylogenetic study of pheretimoid megascolecid earthworms (Amynthas group) in the Japanese Archipelago. In addition, photographs of earthworm specimens used in the study are deposited. File name and #file type 1. Assembled mitogenome sequences of 197 specimens from Japan mitogenome_assembled_197taxa.fasta #fasta file 2. Aligned sequences of 15 mitochondrial genes for 221 taxa (mitogenome data) mitogenome_221taxa.fasta #fasta file mitogenome_partition #partition file mitogenome_221taxa.treefile.tre #tree file 3. Aligned sequences of nuclear ribosomal DNA sequences of 197 specimens from Japan (18S-28S data) 18S28S_197taxa.fasta #fasta file 18S28S_partition #partition file 18S28S_197taxa.treefile.tre #tree file 4. Concatenated sequences of mitogenome and 18S-28S mtnu_197taxa.fasta #fasta file mtnu_partition #partition file mtnu_197taxa.tre #tree file 5. Aligned data of mitochondrial COI gene sequenes of 319 taxa COI_319taxa.fasta #fasta file COI_319taxa_iqtree.tre #tree file mitogenome_guide_tree.nwk #tree file 6. Aligned sequences of 15 mitochondrial genes for 184 selected taxa used in the divergence time estimation mitogenome_184taxa.fasta #fasta file mitogenome_partition #partition file mitogenome_184taxa_iqtree.tre #tree file mt184taxa_clocked_tree.tre #tree file 7. Aligned sequences of mitochondrial 16S rDNA and nuclear 28S rDNA genes used for the divergence time estimation in Magascolecidae Megascolecidae_16S-28S_v2R.phy #sequence file in phylip format Megascolecidae_16S-28S_v2Rpartition #partition file Megascolecidae_16S-28S_v2R_iqtree.tre #tree file Megascolecidae_16S-28S_clocked_tree.tre #tree file 8. 8. Photographs of the whole body and body parts for the specimens of Amynthas used in the study List_of_photographs.xlsx #Excel file phogographs.zip #compressed JPG files