Issue |
Parasite
Volume 29, 2022
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Article Number | 51 | |
Number of page(s) | 19 | |
DOI | https://doi.org/10.1051/parasite/2022052 | |
Published online | 09 November 2022 |
Supplementary material
• Supplementary file 1:
Detailed description of the functional annotation process, retrieval of lineage-specific GPCR, and code for the different pipelines used for assembly, annotation, read mapping and quantitative evaluation of the obtained transcriptome using BUSCO.
(Access here)• Supplemental Figures S1–S8:![]() |
– Supplementary Figure S1. Assignment of Gene Ontology (GO) terms for the Rhabdosynochus viridisi and Scutogyrus longicornis ORFs. The number in the graph indicates the percent of ORFs related to Molecular Function terms. |
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– Supplementary Figure S2. Supplementary Figure S2. Assignment of Gene Ontology (GO) terms for the Rhabdosynochus viridisi and Scutogyrus longicornis ORFs. The number in the graph indicates the percent of ORFs related to Biological Process terms. |
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– Supplementary Figure S3. Assignment of Gene Ontology (GO) terms for the Rhabdosynochus viridisi and Scutogyrus longicornis ORFs. The number in the graph indicates the percent of ORFs related to Cellular Component terms. |
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– Supplementary Figure S4. Top 30 most represented KEGG pathways in the Rhabdosynochus viridisi and Scutogyrus longicornis ORFs. The number in the graph indicates the percent of ORFs related to each term |
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– Supplementary Figure S5. Phylogenetic classification of Rhabdosynochus viridisi rhodopsin-subfamily GPCRs. The midpoint-rooted phylogenetic tree was constructed using 1000 replicates of the approximate likelihood ratio test (similar to the Shimodaira-Hasegawa test). The LG+F+R6 model was implemented. |
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– Supplementary Figure S6. Phylogenetic classification of Scutogyrus longicornis GPCRs. The midpoint-rooted phylogenetic tree was constructed using 1000 replicates of the approximate likelihood ratio test (similar to the Shimodaira-Hasegawa test). The LG+F+G4 model was implemented. |
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– Supplementary Figure S7. Phylogenetic analysis of Rhabdosynochus viridisi and Scutogyrus longicornis peptide-receptor GPCRs. The midpoint-rooted phylogenetic tree was constructed using 1000 replicates of the approximate likelihood ratio test (similar to the Shimodaira-Hasegawa test). The LG+F+R10 model was implemented. The colored boxes indicate the log10-transformed e-values obtained from the alignment of the R. viridisi and S. longicornis sequences against sequences of different taxa using the NCBI database (Tre, Trematoda; Ces, Cestoda; Rha, Rhabditophora; Lop, Lophotrochozoa; Spi, Spiralia; Pro, Protostomia; Bil, Bilateria; Ver, Vertebrata); the species to which the sequence belongs (R. viridisi or S. longicornis); and the type of receptor inferred from phylogenetic similarity to reference sequences. |
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– Supplementary Figure S8. Phylogenetic analysis of Rhabdosynochus viridisi and Scutogyrus longicornis orphan GPCRs. The midpoint-rooted phylogenetic tree was constructed using 1000 replicates of the approximate likelihood ratio test (similar to the Shimodaira-Hasegawa test). The LG+F+R3 model was implemented. The colored boxes indicate the log10-transformed e-values obtained from the alignment of the R. viridisi and S. longicornis sequences against sequences of different taxa using the NCBI database (Tre, Trematoda; Ces, Cestoda; Rha, Rhabditophora; Lop, Lophotrochozoa; Spi, Spiralia; Pro, Protostomia; Bil, Bilateria; Ver, Vertebrata); the species to which the sequence belongs (R. viridisi or S. longicornis); and the type of receptor inferred from phylogenetic similarity to reference sequences. |
– Supplementary Table S1.
Annotation of putative proteins of Rhabdosynochus viridisi.
(Access here)
– Supplementary Table S2.
Annotation of putative proteins of Scutogyrus longicornis.
(Access here)
– Supplementary Table S3. UniProt keyword annotation of putative proteins of Rhabdosynochus viridisi and Scutogyrus longicornis.
– Supplementary Table S4. Information on each step of the classification of GPCRs of Rhabdosynochus viridisi and Scutogyrus longicornis.
– Supplementary Table S5. Information on GPCR identification in each platyhelminth species.
– Supplementary Table S6. Information on the e-values of the alignment of GPCRs.
– Supplementary Table S7. UniProt annotation of putative proteins of Rhabdosynochus viridisi and Scutogyrus longicornis.
– Supplementary Table S8. Domain annotation of putative proteins of Rhabdosynochus viridisi and Scutogyrus longicornis.
– Supplementary Table S9. COG annotation of putative proteins of Rhabdosynochus viridisi and Scutogyrus longicornis.
(Access here)© V. Caña-Bozada et al., published by EDP Sciences, 2022
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