Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis
Abstract 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 previou...
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ftdoajarticles:oai:doaj.org/article:2f92e5c0c4c142e1a2fc8da6223c9ced 2023-05-15T15:34:30+02:00 Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis Fowler Katie E Ioannou Dimitris Langley Elizabeth J Tempest Helen G Robertson Lindsay BW Skinner Benjamin M Crooijmans Richard PMA Hall Anthony D Griffin Darren K Völker Martin 2009-08-01T00:00:00Z https://doi.org/10.1186/1471-2164-10-357 https://doaj.org/article/2f92e5c0c4c142e1a2fc8da6223c9ced EN eng BMC http://www.biomedcentral.com/1471-2164/10/357 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-10-357 1471-2164 https://doaj.org/article/2f92e5c0c4c142e1a2fc8da6223c9ced BMC Genomics, Vol 10, Iss 1, p 357 (2009) Biotechnology TP248.13-248.65 Genetics QH426-470 article 2009 ftdoajarticles https://doi.org/10.1186/1471-2164-10-357 2022-12-31T01:40:34Z Abstract 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 Directory of Open Access Journals: DOAJ Articles BMC Genomics 10 1 357 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
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Biotechnology TP248.13-248.65 Genetics QH426-470 |
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Biotechnology TP248.13-248.65 Genetics QH426-470 Fowler Katie E Ioannou Dimitris Langley Elizabeth J Tempest Helen G Robertson Lindsay BW Skinner Benjamin M Crooijmans Richard PMA Hall Anthony D Griffin Darren K Völker Martin Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
topic_facet |
Biotechnology TP248.13-248.65 Genetics QH426-470 |
description |
Abstract 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 |
Fowler Katie E Ioannou Dimitris Langley Elizabeth J Tempest Helen G Robertson Lindsay BW Skinner Benjamin M Crooijmans Richard PMA Hall Anthony D Griffin Darren K Völker Martin |
author_facet |
Fowler Katie E Ioannou Dimitris Langley Elizabeth J Tempest Helen G Robertson Lindsay BW Skinner Benjamin M Crooijmans Richard PMA Hall Anthony D Griffin Darren K Völker Martin |
author_sort |
Fowler Katie E |
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 |
publisher |
BMC |
publishDate |
2009 |
url |
https://doi.org/10.1186/1471-2164-10-357 https://doaj.org/article/2f92e5c0c4c142e1a2fc8da6223c9ced |
genre |
Avian flu |
genre_facet |
Avian flu |
op_source |
BMC Genomics, Vol 10, Iss 1, p 357 (2009) |
op_relation |
http://www.biomedcentral.com/1471-2164/10/357 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-10-357 1471-2164 https://doaj.org/article/2f92e5c0c4c142e1a2fc8da6223c9ced |
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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1766364874317758464 |