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Gene order and recombination rate in homologous chromosome regions of the chicken and a passerine bird

Dawson, Deborah A.; Åkesson, Mikael LU ; Burke, Terry; Pemberton, Josephine M.; Slate, Jon and Hansson, Bengt LU (2007) In Molecular Biology and Evolution 24(7). p.1537-1552
Abstract
Genome structure has been found to be highly conserved between distantly related birds and recent data for a limited part of the genome suggest that this is true also for the gene order (synteny) within chromosomes. Here, we confirm that synteny is maintained for large chromosomal regions in chicken and a passerine bird, the great reed warbler Acrocephalus arundinaceus, with few rearrangements, but in contrast show that the recombination-based linkage map distances differ substantially between these species. We assigned a chromosomal location based on sequence similarity to the chicken genome sequence to a set of inicrosatellite loci mapped in a pedigree of great reed warblers. We detected homologous loci on 14 different chromosomes... (More)
Genome structure has been found to be highly conserved between distantly related birds and recent data for a limited part of the genome suggest that this is true also for the gene order (synteny) within chromosomes. Here, we confirm that synteny is maintained for large chromosomal regions in chicken and a passerine bird, the great reed warbler Acrocephalus arundinaceus, with few rearrangements, but in contrast show that the recombination-based linkage map distances differ substantially between these species. We assigned a chromosomal location based on sequence similarity to the chicken genome sequence to a set of inicrosatellite loci mapped in a pedigree of great reed warblers. We detected homologous loci on 14 different chromosomes corresponding to chicken chromosomes Gga1-5, 7-9, 13, 19, 20, 24, 25, and Z. It is known that 2 passerine macrochromosomes correspond to the chicken chromosome Gga1. Homology of 2 different great reed warbler linkage groups (LG13 and LG5) to Gga1 allowed us to locate the split to a position between 20.8 and 84.8 Mb on Gga1. Data from the 5 chromosomal regions (on Gga1, 2, 3, 5, and Z) with 3 or more homologous loci showed that synteny was conserved with the exception of 2 large previously unreported inversions on Gga1/LG5 and Gga2/LG3, respectively. Recombination data from the 9 chromosomal regions in which we identified 2 or more homologous loci (accounting for the inversions) showed that the linkage map distances in great reed warblers were only 6.3% and 13.3% of those in chickens for males and females, respectively. This is likely to reflect the true interspecific difference in recombination rate because our markers were not located in potentially low-recombining regions: several linkage groups covered a substantial part of their corresponding chicken chromosomes and were not restricted to centromeres. We conclude that recombination rates may differ strongly between bird species with highly conserved genome structure and synteny and that the chicken linkage map may not be suitable, in terms of genetic distances, as a model for all bird species. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
synteny, passerine, genome mapping, recombination, microsatellite, linkage
in
Molecular Biology and Evolution
volume
24
issue
7
pages
1537 - 1552
publisher
Oxford University Press
external identifiers
  • wos:000247943100011
  • scopus:34547662977
ISSN
0737-4038
DOI
10.1093/molbev/msm071
language
English
LU publication?
yes
id
22bc5c48-71a1-4cd5-9ebb-a3d88a864147 (old id 691549)
date added to LUP
2007-12-06 14:52:30
date last changed
2017-07-23 03:49:41
@article{22bc5c48-71a1-4cd5-9ebb-a3d88a864147,
  abstract     = {Genome structure has been found to be highly conserved between distantly related birds and recent data for a limited part of the genome suggest that this is true also for the gene order (synteny) within chromosomes. Here, we confirm that synteny is maintained for large chromosomal regions in chicken and a passerine bird, the great reed warbler Acrocephalus arundinaceus, with few rearrangements, but in contrast show that the recombination-based linkage map distances differ substantially between these species. We assigned a chromosomal location based on sequence similarity to the chicken genome sequence to a set of inicrosatellite loci mapped in a pedigree of great reed warblers. We detected homologous loci on 14 different chromosomes corresponding to chicken chromosomes Gga1-5, 7-9, 13, 19, 20, 24, 25, and Z. It is known that 2 passerine macrochromosomes correspond to the chicken chromosome Gga1. Homology of 2 different great reed warbler linkage groups (LG13 and LG5) to Gga1 allowed us to locate the split to a position between 20.8 and 84.8 Mb on Gga1. Data from the 5 chromosomal regions (on Gga1, 2, 3, 5, and Z) with 3 or more homologous loci showed that synteny was conserved with the exception of 2 large previously unreported inversions on Gga1/LG5 and Gga2/LG3, respectively. Recombination data from the 9 chromosomal regions in which we identified 2 or more homologous loci (accounting for the inversions) showed that the linkage map distances in great reed warblers were only 6.3% and 13.3% of those in chickens for males and females, respectively. This is likely to reflect the true interspecific difference in recombination rate because our markers were not located in potentially low-recombining regions: several linkage groups covered a substantial part of their corresponding chicken chromosomes and were not restricted to centromeres. We conclude that recombination rates may differ strongly between bird species with highly conserved genome structure and synteny and that the chicken linkage map may not be suitable, in terms of genetic distances, as a model for all bird species.},
  author       = {Dawson, Deborah A. and Åkesson, Mikael and Burke, Terry and Pemberton, Josephine M. and Slate, Jon and Hansson, Bengt},
  issn         = {0737-4038},
  keyword      = {synteny,passerine,genome mapping,recombination,microsatellite,linkage},
  language     = {eng},
  number       = {7},
  pages        = {1537--1552},
  publisher    = {Oxford University Press},
  series       = {Molecular Biology and Evolution},
  title        = {Gene order and recombination rate in homologous chromosome regions of the chicken and a passerine bird},
  url          = {http://dx.doi.org/10.1093/molbev/msm071},
  volume       = {24},
  year         = {2007},
}