Abstract
We have analyzed the evolution of fibroblast growth factor receptor (FGFR) tyrosine kinase genes throughout a wide range of animal phyla. No evidence for an FGFR gene was found in Porifera, but we tentatively identified an FGFR gene in the placozoan Trichoplax adhaerens. The gene encodes a protein with three immunoglobulin-like domains, a single-pass transmembrane, and a split tyrosine kinase domain. By superimposing intron positions of 20 FGFR genes from Placozoa, Cnidaria, Protostomia, and Deuterostomia over the respective protein domain structure, we identified ten ancestral introns and three conserved intron groups. Our analysis shows (1) that the position of ancestral introns correlates to the modular structure of FGFRs, (2) that the acidic domain very likely evolved in the last common ancestor of triploblasts, (3) that splicing of IgIII was enabled by a triploblast-specific insertion, and (4) that IgI is subject to substantial loss or duplication particularly in quickly evolving genomes. Moreover, intron positions in the catalytic domain of FGFRs map to the borders of protein subdomains highly conserved in other serine/threonine kinases. Nevertheless, these introns were introduced in metazoan receptor tyrosine kinases exclusively. Our data support the view that protein evolution dating back to the Cambrian explosion took place in such a short time window that only subtle changes in the domain structure are detectable in extant representatives of animal phyla. We propose that the first multidomain FGFR originated in the last common ancestor of Placozoa, Cnidaria, and Bilateria. Additional domains were introduced mainly in the ancestor of triploblasts and in the Ecdysozoa.
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Acknowledgements
We thank Gabriele Petersen for critical reading of the manuscript and Torsten Rentrop for help with the initial bioinformatic work on the Hydra FGFR gene. We are indebted to Dan Rokhsar and Jarrod Chapman, JGI, for generous access to the unpublished Hydra genome project. We thank the Acorn Worm Genome Sequencing Consortium and the Capitella community for making their data available, which were produced by the US Department of Energy Joint Genome Institute http://www.jgi.doe.gov/ in collaboration with the user community, and the BCM-HGSC for providing the scaffold covering the FGFRs. Anke Beermann and Reinhardt Schröder kindly provided unpublished information concerning Tribolium FGFR. Last but not least, we thank Katja Gessner, our skillful secretary wizardess.
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Communicated by D.A. Weisblat
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Supplement 1
Alignment of all used FGFRs and their intron positions superimposed to the protein sequence and domain annotation (PPT 231 kb)
Supplement 2
Assembled and annotated sequences from Trichoplax, Hydra, Nematostella, Lottia Capitella, Tribolium, and Saccoglossus used in the present study (DOC 880 kb)
Supplement 3
Intron size of the three cnidarian FGFRs in comparison to FGFR1 (human) (DOC 61 kb)
Supplement 4
Matrix representation of constitutively spliced introns in FGFR genes across the animal kingdom (DOC 97 kb)
Supplement 5
Intron positions in the highly conserved kinase domains of metazoan receptor tyrosine kinases are not related to intron positions in the choanoflagellate RTK nor in the serine–threonine kinase, PKC (PPT 139 kb)
Supplement 6
Evolutionary relationships of 27 kinases used in this study (PPT 90 kb)
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Rebscher, N., Deichmann, C., Sudhop, S. et al. Conserved intron positions in FGFR genes reflect the modular structure of FGFR and reveal stepwise addition of domains to an already complex ancestral FGFR. Dev Genes Evol 219, 455–468 (2009). https://doi.org/10.1007/s00427-009-0309-5
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DOI: https://doi.org/10.1007/s00427-009-0309-5