Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis
Background: The availability of the complete chicken (Gallus gallus) genome sequence as well as a large number of chicken probes for fluorescent in-situ hybridization (FISH) and microarray resources facilitate comparative genomic studies between chicken and other bird species. In a previous study, w...
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ftunivwagenin:oai:library.wur.nl:wurpubs/388235 2024-02-04T09:59:02+01:00 Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis Skinner, M. Robertson, L.B. Tempest, H.G. Langley, E.J. Ioannou, D. Fowler, K.E. Crooijmans, R.P.M.A. 2009 application/pdf https://research.wur.nl/en/publications/comparative-genomics-in-chicken-and-pekin-duck-using-fish-mapping https://doi.org/10.1186/1471-2164-10-357 en eng https://edepot.wur.nl/50623 https://research.wur.nl/en/publications/comparative-genomics-in-chicken-and-pekin-duck-using-fish-mapping doi:10.1186/1471-2164-10-357 info:eu-repo/semantics/openAccess Wageningen University & Research BMC Genomics 10 (2009) ISSN: 1471-2164 anas-platyrhynchos avian genome chromosomes conservation copy number variation divergence evolution gallus-domesticus genes segmental duplications info:eu-repo/semantics/article Article/Letter to editor info:eu-repo/semantics/publishedVersion 2009 ftunivwagenin https://doi.org/10.1186/1471-2164-10-357 2024-01-10T23:23:39Z Background: The availability of the complete chicken (Gallus gallus) genome sequence as well as a large number of chicken probes for fluorescent in-situ hybridization (FISH) and microarray resources facilitate comparative genomic studies between chicken and other bird species. In a previous study, we provided a comprehensive cytogenetic map for the turkey (Meleagris gallopavo) and the first analysis of copy number variants (CNVs) in birds. Here, we extend this approach to the Pekin duck (Anas platyrhynchos), an obvious target for comparative genomic studies due to its agricultural importance and resistance to avian flu. Results: We provide a detailed molecular cytogenetic map of the duck genome through FISH assignment of 155 chicken clones. We identified one inter- and six intrachromosomal rearrangements between chicken and duck macrochromosomes and demonstrated conserved synteny among all microchromosomes analysed. Array comparative genomic hybridisation revealed 32 CNVs, of which 5 overlap previously designated "hotspot" regions between chicken and turkey. Conclusion: Our results suggest extensive conservation of avian genomes across 90 million years of evolution in both macro- and microchromosomes. The data on CNVs between chicken and duck extends previous analyses in chicken and turkey and supports the hypotheses that avian genomes contain fewer CNVs than mammalian genomes and that genomes of evolutionarily distant species share regions of copy number variation ("CNV hotspots"). Our results will expedite duck genomics, assist marker development and highlight areas of interest for future evolutionary and functional studies Article in Journal/Newspaper Avian flu Wageningen UR (University & Research Centre): Digital Library BMC Genomics 10 1 357 |
institution |
Open Polar |
collection |
Wageningen UR (University & Research Centre): Digital Library |
op_collection_id |
ftunivwagenin |
language |
English |
topic |
anas-platyrhynchos avian genome chromosomes conservation copy number variation divergence evolution gallus-domesticus genes segmental duplications |
spellingShingle |
anas-platyrhynchos avian genome chromosomes conservation copy number variation divergence evolution gallus-domesticus genes segmental duplications Skinner, M. Robertson, L.B. Tempest, H.G. Langley, E.J. Ioannou, D. Fowler, K.E. Crooijmans, R.P.M.A. Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
topic_facet |
anas-platyrhynchos avian genome chromosomes conservation copy number variation divergence evolution gallus-domesticus genes segmental duplications |
description |
Background: The availability of the complete chicken (Gallus gallus) genome sequence as well as a large number of chicken probes for fluorescent in-situ hybridization (FISH) and microarray resources facilitate comparative genomic studies between chicken and other bird species. In a previous study, we provided a comprehensive cytogenetic map for the turkey (Meleagris gallopavo) and the first analysis of copy number variants (CNVs) in birds. Here, we extend this approach to the Pekin duck (Anas platyrhynchos), an obvious target for comparative genomic studies due to its agricultural importance and resistance to avian flu. Results: We provide a detailed molecular cytogenetic map of the duck genome through FISH assignment of 155 chicken clones. We identified one inter- and six intrachromosomal rearrangements between chicken and duck macrochromosomes and demonstrated conserved synteny among all microchromosomes analysed. Array comparative genomic hybridisation revealed 32 CNVs, of which 5 overlap previously designated "hotspot" regions between chicken and turkey. Conclusion: Our results suggest extensive conservation of avian genomes across 90 million years of evolution in both macro- and microchromosomes. The data on CNVs between chicken and duck extends previous analyses in chicken and turkey and supports the hypotheses that avian genomes contain fewer CNVs than mammalian genomes and that genomes of evolutionarily distant species share regions of copy number variation ("CNV hotspots"). Our results will expedite duck genomics, assist marker development and highlight areas of interest for future evolutionary and functional studies |
format |
Article in Journal/Newspaper |
author |
Skinner, M. Robertson, L.B. Tempest, H.G. Langley, E.J. Ioannou, D. Fowler, K.E. Crooijmans, R.P.M.A. |
author_facet |
Skinner, M. Robertson, L.B. Tempest, H.G. Langley, E.J. Ioannou, D. Fowler, K.E. Crooijmans, R.P.M.A. |
author_sort |
Skinner, M. |
title |
Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
title_short |
Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
title_full |
Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
title_fullStr |
Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
title_full_unstemmed |
Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
title_sort |
comparative genomics in chicken and pekin duck using fish mapping and microarray analysis |
publishDate |
2009 |
url |
https://research.wur.nl/en/publications/comparative-genomics-in-chicken-and-pekin-duck-using-fish-mapping https://doi.org/10.1186/1471-2164-10-357 |
genre |
Avian flu |
genre_facet |
Avian flu |
op_source |
BMC Genomics 10 (2009) ISSN: 1471-2164 |
op_relation |
https://edepot.wur.nl/50623 https://research.wur.nl/en/publications/comparative-genomics-in-chicken-and-pekin-duck-using-fish-mapping doi:10.1186/1471-2164-10-357 |
op_rights |
info:eu-repo/semantics/openAccess Wageningen University & Research |
op_doi |
https://doi.org/10.1186/1471-2164-10-357 |
container_title |
BMC Genomics |
container_volume |
10 |
container_issue |
1 |
container_start_page |
357 |
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1789963661963427840 |