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Data generated and analyzed in the work entitled: Signs of the plastid: Enzymes involved in plastid-localized metabolic pathways in a eugregarine species

Citation

Inagaki, Yuji et al. (2021), Data generated and analyzed in the work entitled: Signs of the plastid: Enzymes involved in plastid-localized metabolic pathways in a eugregarine species, Dryad, Dataset, https://doi.org/10.5061/dryad.6m905qfz6

Abstract

The data were generated and analyzed in the manuscript entitled "Signs of the plastid: Enzymes involved in plastid-localized metabolic pathways in a eugregarine species". This work is currently accepted to be published in Parasitology International. As of April 17, 2021, we have no detail about the manuscript (e.g., issue, volume, page number, DOI number).

We generated the transcriptome data from the apicomplexan parasites/symbionts isolated from three terrestrial arthropods, namely the centipede Scolopocryptops rubiginosus and two millipedes Parafontaria laminata armigera and Orthomorpha sp. Based on the phylogenetic analyses based on 73 nucleus-encoded genes identified in the transcriptome data generated in this study, we resolved the phylogenetic positions of the three apicomplexans as eugregarines.

As apicomplexans were most likely derived from the ancestral cell bearing a non-photosynthetic (cryptic) plastid, we then searched for the transcripts encoding potent enzymes localized in the cryptic plastid in the transcriptome data of the three eugregarine species. As the results, the transcripts encoding four enzymes involved in plastid-localized metabolic pathways were identified from the data of the eugregarine species isolated from the centipede, albeit none in those of the other two eugregarine species examined here. We concluded that the eugregarine species isolated from the centipede possesses the cryptic plastid while the eugregarine species in the millipedes lost their plastids secondarily.

We here provide the contigs reconstructed from the transcriptome data of the three eugregarine species and phylogenetic alignments used in this study.

Methods

Please refer to the article for the details of the methods.

Usage Notes

This entry includes the following items:

73-gene alignment; GLP_51taxa_73genes.fasta

Individual single-gene alignments comprising 73-gene alignment; Single_gene_alignments.tar.gz

Alignments of four plastid-localized proteins (i.e. DXS, DXR, IspF & PBGD); 4plastid_protein_alignments.tar.gz

Putative DXS, DXR, IspF & PBGD amino acid sequences of Eugregarine sp. ex Scolopocryptops rubiginosus; GLP_plastid_protein_aa.fasta

Assemble data of the transcriptomes from the eugregarine species isolated from Scolopocryptos rubiginosus; GLP_Srubi_Tsukuba_Trinity.fasta

Assemble data of the transcriptomes from the eugregarine species isolated from Parafontaria laminata armigera; GLP_Plami_Nagano_Trinity.fasta

Assemble data of the transcriptomes from the eugregarine species isolated from Orthomorpha sp.; GLP_Orthomorpha_Palau_Trinity.fasta

We also provide the three assemble data mentioned above after the exclusion of the potential sequences that originated from the hosts, namely GLP_Orthomorpha_Palau_exHOST_Trinity.fasta, GLP_Plami_Nagano_exHOST_Trinity.fasta, and GLP_Srubi_Tsukuba_exHOST_Trinity.fasta