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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ftinstcancerres:oai:repository.icr.ac.uk:internal/1867 2023-05-15T15:34:32+02:00 Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis Robertson, Lindsay 2018-06-13T15:14:31Z application/pdf http://www.biomedcentral.com/1471-2164/10/357 https://repository.icr.ac.uk/handle/internal/1867 eng eng BIOMED CENTRAL LTD http://www.biomedcentral.com/1471-2164/10/357 BMC GENOMICS, 2009, 10 1471-2164 https://repository.icr.ac.uk/handle/internal/1867 https://creativecommons.org/licenses/by/4.0 CC-BY COPY NUMBER VARIATION ANAS-PLATYRHYNCHOS SEGMENTAL DUPLICATIONS GALLUS-DOMESTICUS AVIAN GENOME EVOLUTION CHROMOSOMES CONSERVATION DIVERGENCE GENES Journal Article 2018 ftinstcancerres 2022-12-18T08:57:58Z 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 The Institute of Cancer Research (ICR): Publications Repository |
institution |
Open Polar |
collection |
The Institute of Cancer Research (ICR): Publications Repository |
op_collection_id |
ftinstcancerres |
language |
English |
topic |
COPY NUMBER VARIATION ANAS-PLATYRHYNCHOS SEGMENTAL DUPLICATIONS GALLUS-DOMESTICUS AVIAN GENOME EVOLUTION CHROMOSOMES CONSERVATION DIVERGENCE GENES |
spellingShingle |
COPY NUMBER VARIATION ANAS-PLATYRHYNCHOS SEGMENTAL DUPLICATIONS GALLUS-DOMESTICUS AVIAN GENOME EVOLUTION CHROMOSOMES CONSERVATION DIVERGENCE GENES Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis |
topic_facet |
COPY NUMBER VARIATION ANAS-PLATYRHYNCHOS SEGMENTAL DUPLICATIONS GALLUS-DOMESTICUS AVIAN GENOME EVOLUTION CHROMOSOMES CONSERVATION DIVERGENCE GENES |
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. |
author2 |
Robertson, Lindsay |
format |
Article in Journal/Newspaper |
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 |
BIOMED CENTRAL LTD |
publishDate |
2018 |
url |
http://www.biomedcentral.com/1471-2164/10/357 https://repository.icr.ac.uk/handle/internal/1867 |
genre |
Avian flu |
genre_facet |
Avian flu |
op_relation |
http://www.biomedcentral.com/1471-2164/10/357 BMC GENOMICS, 2009, 10 1471-2164 https://repository.icr.ac.uk/handle/internal/1867 |
op_rights |
https://creativecommons.org/licenses/by/4.0 |
op_rightsnorm |
CC-BY |
_version_ |
1766364889167691776 |