Research
Chætognath transcriptome reveals ancestral and unique features among bilaterians
1 CNRS UMR 6540 DIMAR, Station Marine d'Endoume, Centre d'Océanologie de Marseille, Chemin de la Batterie des Lions, 13007, Marseille, France
2 Université de la Méditerranée Aix-Marseille II, Bd Charles Livon, 13284, Marseille, France
3 Université de Provence Aix-Marseille I, place Victor-Hugo, 13331, Marseille, France
4 CNRS UMR 6116 IMEP, Centre St Charles, place Victor-Hugo, 13331, Marseille, France
5 CNRS UMR 6216, IBDML, Campus de Luminy, Route Léon Lachamp, 13288, Marseille, France
6 Genoscope (CEA), rue Gaston Crémieux, BP5706, 91057 Evry, France
7 CNRS, UMR 8030, rue Gaston Crémieux, BP5706, 91057 Evry, France
8 Université d'Evry, Boulevard François Mitterrand, 91025, Evry, France
Genome Biology 2008, 9:R94 doi:10.1186/gb-2008-9-6-r94
Published: 4 June 2008Additional files
Additional data file 1:
Figure S1: EST library statistics. Figure S2: Gene Ontology annotation. Figure S3: alignment of GAMT in selected taxa. Figure S4: trees illustrating the divergence between copies of nuclear and mitochondrial genes in the library. Figure S5: transition versus transversion ratios for the five targeted genes. Figure S6: mismatch analyses and testing for the five targeted genes.
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Additional data file 2:
Table S1: composition of the composite taxa involved in phylogenomic analyses. Table S2: list of all clusters of transcripts corresponding to alternative forms or not with Ka/Ks ratios. Table S3: list of primers employed for PCR amplifications of alternative forms. Table S4: comparison of molecular evolution trends for four genes retrieved in nine individuals. Table S5: annotation of the BAC 35A21.
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Additional data file 3:
Trans-spliced genes conserved between S. cephaloptera and C. elegans and homologous to a SwissProt entry (Figure S6 in Additional data file 1).
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Additional data file 4:
This dataset was employed for phylogenomic reconstruction.
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Additional data file 5:
Transcript sequences of RP L36 exhibiting the alternative forms corresponding to paralogous copies and the position of primers designed to specifically amplify these forms.
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Additional data file 6:
Transcript sequences of RP L40 exhibiting the alternative forms corresponding to paralogous copies and the position of primers designed to specifically amplify these forms.
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Additional data file 7:
Alignment of amino acid sequences of RUX paralogs and variants from S. cephaloptera and some other eukaryotic taxa.
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Additional data file 8:
Primers employed for the specific amplifications are included.
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Additional data file 9:
Alignment of cytochrome oxydase I transcripts retrieved from the EST library.
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Additional data file 10:
Alignment of cytochrome oxydase III transcripts retrieved from the EST library.
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Additional data file 11:
Sequences were amplified from the body (B) or head (H) of individuals as indicated in the sequence name.
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Additional data file 12:
Sequences were amplified from the body (B) or head (H) of individuals as indicated in the sequence name.
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Additional data file 13:
Sequences were amplified from the body (B) or head (H) of individuals as indicated in the sequence name.
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Additional data file 14:
Sequences were amplified from the body (B) or head (H) of individuals as indicated in the sequence name.
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Additional data file 15:
All the alignments in Additional data files 15, 16, 17 clearly exhibit lack of a SL motif in the genomic sequence.
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Additional data file 16:
All the alignments in Additional data files 15, 16, 17 clearly exhibit lack of a SL motif in the genomic sequence.
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Additional data file 17:
All the alignments in Additional data files 15, 16, 17 clearly exhibit lack of a SL motif in the genomic sequence.
Format: FAST Size: 4KB Download file
