Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3
The Forkhead box transcription factor FoxP3 is pivotal to the development and function of regulatory T cells (Tregs), which make a major contribution to peripheral tolerance. FoxP3 is believed to perform a regulatory role in all the vertebrate species in which it has been detected. The prevailing vi...
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ftbirkbeckcoll:oai:eprints.bbk.ac.uk.oai2:14635 2023-05-15T16:09:57+02:00 Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 Denyer, Michael P. Pinheiro, D.Y. Garden, O.A. Shepherd, Adrian J. 2016-03-03 text https://eprints.bbk.ac.uk/id/eprint/14635/ https://eprints.bbk.ac.uk/id/eprint/14635/1/14635.PDF https://doi.org/10.1371/journal.pone.0150988 en eng Public Library of Science https://eprints.bbk.ac.uk/id/eprint/14635/1/14635.PDF Denyer, Michael P. and Pinheiro, D.Y. and Garden, O.A. and Shepherd, Adrian J. (2016) Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3. PLoS One 11 (3), e0150988. ISSN 1932-6203. cc_by CC-BY Biological Sciences Article PeerReviewed 2016 ftbirkbeckcoll https://doi.org/10.1371/journal.pone.0150988 2022-01-09T08:57:39Z The Forkhead box transcription factor FoxP3 is pivotal to the development and function of regulatory T cells (Tregs), which make a major contribution to peripheral tolerance. FoxP3 is believed to perform a regulatory role in all the vertebrate species in which it has been detected. The prevailing view is that FoxP3 is absent in birds and that avian Tregs rely on alternative developmental and suppressive pathways. Prompted by the automated annotation of foxp3 in the ground tit (Parus humilis) genome, we have questioned this assumption. Our analysis of all available avian genomes has revealed that the foxp3 locus is missing, incomplete or of poor quality in the relevant genomic assemblies for nearly all avian species. Nevertheless, in two species, the peregrine falcon (Falco peregrinus) and the saker falcon (F. cherrug), there is compelling evidence for the existence of exons showing synteny with foxp3 in the ground tit. A broader phylogenomic analysis has shown that FoxP3 sequences from these three species are similar to crocodilian sequences, the closest living relatives of birds. In both birds and crocodilians, we have also identified a highly proline-enriched region at the N terminus of FoxP3, a region previously identified only in mammals. Article in Journal/Newspaper Falco peregrinus peregrine falcon BIROn - Birkbeck Institutional Research Online (Birkbeck University of London) Parus ENVELOPE(3.950,3.950,-71.983,-71.983) PLOS ONE 11 3 e0150988 |
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Open Polar |
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BIROn - Birkbeck Institutional Research Online (Birkbeck University of London) |
op_collection_id |
ftbirkbeckcoll |
language |
English |
topic |
Biological Sciences |
spellingShingle |
Biological Sciences Denyer, Michael P. Pinheiro, D.Y. Garden, O.A. Shepherd, Adrian J. Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
topic_facet |
Biological Sciences |
description |
The Forkhead box transcription factor FoxP3 is pivotal to the development and function of regulatory T cells (Tregs), which make a major contribution to peripheral tolerance. FoxP3 is believed to perform a regulatory role in all the vertebrate species in which it has been detected. The prevailing view is that FoxP3 is absent in birds and that avian Tregs rely on alternative developmental and suppressive pathways. Prompted by the automated annotation of foxp3 in the ground tit (Parus humilis) genome, we have questioned this assumption. Our analysis of all available avian genomes has revealed that the foxp3 locus is missing, incomplete or of poor quality in the relevant genomic assemblies for nearly all avian species. Nevertheless, in two species, the peregrine falcon (Falco peregrinus) and the saker falcon (F. cherrug), there is compelling evidence for the existence of exons showing synteny with foxp3 in the ground tit. A broader phylogenomic analysis has shown that FoxP3 sequences from these three species are similar to crocodilian sequences, the closest living relatives of birds. In both birds and crocodilians, we have also identified a highly proline-enriched region at the N terminus of FoxP3, a region previously identified only in mammals. |
format |
Article in Journal/Newspaper |
author |
Denyer, Michael P. Pinheiro, D.Y. Garden, O.A. Shepherd, Adrian J. |
author_facet |
Denyer, Michael P. Pinheiro, D.Y. Garden, O.A. Shepherd, Adrian J. |
author_sort |
Denyer, Michael P. |
title |
Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
title_short |
Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
title_full |
Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
title_fullStr |
Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
title_full_unstemmed |
Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3 |
title_sort |
missed, not missing: phylogenomic evidence for the existence of avian foxp3 |
publisher |
Public Library of Science |
publishDate |
2016 |
url |
https://eprints.bbk.ac.uk/id/eprint/14635/ https://eprints.bbk.ac.uk/id/eprint/14635/1/14635.PDF https://doi.org/10.1371/journal.pone.0150988 |
long_lat |
ENVELOPE(3.950,3.950,-71.983,-71.983) |
geographic |
Parus |
geographic_facet |
Parus |
genre |
Falco peregrinus peregrine falcon |
genre_facet |
Falco peregrinus peregrine falcon |
op_relation |
https://eprints.bbk.ac.uk/id/eprint/14635/1/14635.PDF Denyer, Michael P. and Pinheiro, D.Y. and Garden, O.A. and Shepherd, Adrian J. (2016) Missed, not missing: Phylogenomic evidence for the existence of Avian FoxP3. PLoS One 11 (3), e0150988. ISSN 1932-6203. |
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cc_by |
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CC-BY |
op_doi |
https://doi.org/10.1371/journal.pone.0150988 |
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PLOS ONE |
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11 |
container_issue |
3 |
container_start_page |
e0150988 |
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1765995209417555968 |