ArticleGenome research2007
Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions.
Article in Genome research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
29 citing papers in PubMed, 49 citations in OpenAlex.
- Chromosomal Instability at Fragile Sites in Blue Foxes, Silver Foxes, and Their Interspecific Hybrids.Animals : an open access journal from MDPI · 2021Article
- Evolutionary and Functional Analysis of Korean Native Pig Using Single Nucleotide Polymorphisms.Molecules and cells · 2020Article
- Evolutionary stability of topologically associating domains is associated with conserved gene regulation.BMC biology · 2018Article
- Avian genomics lends insights into endocrine function in birds.General and comparative endocrinology · 2018Review
- A New Chicken Genome Assembly Provides Insight into Avian Genome Structure.G3 (Bethesda, Md.) · 2017Article
- Organization and function of the 3D genome.Nature reviews. Genetics · 2016Review
- Spot the difference: Solving the puzzle of hidden pictures in the lizard genome for identification of regeneration factors.BMB reports · 2016Review
- Incorporation of protein binding effects into likelihood ratio test for exome sequencing data.BMC proceedings · 2016Article
- A high resolution map of mammalian X chromosome fragile regions assessed by large-scale comparative genomics.Mammalian genome : official journal of the International Mammalian Genome Society · 2014Article
- Extensive pericentric rearrangements in the bread wheat (Triticum aestivum L.) genotype "Chinese Spring" revealed from chromosome shotgun sequence data.Genome biology and evolution · 2014Article
- Segmental duplication, microinversion, and gene loss associated with a complex inversion breakpoint region in Drosophila.Molecular biology and evolution · 2012Article
- A comparative physical map reveals the pattern of chromosomal evolution between the turkey (Meleagris gallopavo) and chicken (Gallus gallus) genomes.BMC genomics · 2011Article
- Comparative BAC-based mapping in the white-throated sparrow, a novel behavioral genomics model, using interspecies overgo hybridization.BMC research notes · 2011Article
- Testing chromosomal phylogenies and inversion breakpoint reuse in Drosophila. The martensis cluster revisited.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2011Article
- Integrative mapping analysis of chicken microchromosome 16 organization.BMC genomics · 2010Article
- Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.PLoS biology · 2010Article
- Article
- Comparative genomics reveals birth and death of fragile regions in mammalian evolution.Genome biology · 2010Article
- Analysis of fine-scale mammalian evolutionary breakpoints provides new insight into their relation to genome organisation.BMC genomics · 2009Article
- Genetic analysis of an F(2) intercross between two chicken lines divergently selected for body-weight.BMC genomics · 2009Article
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Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
Abstract
The chicken genome draft sequence has provided a valuable resource for studies of an important agricultural and experimental model species and an important data set for comparative analysis. However, some of the most gene-rich segments are missing from chicken genome draft assemblies, limiting the analysis of a substantial number of genes and preventing a closer look at regions that are especially prone to syntenic rearrangements. To facilitate the functional and evolutionary analysis of one especially gene-rich, rearrangement-prone genomic region, we analyzed sequence from BAC clones spanning chicken microchromosome GGA28; as a complement we also analyzed a gene-sparse, stable region from GGA11. In these two regions we documented the conservation and lineage-specific gain and loss of protein-coding genes and precisely mapped the locations of 31 major human-chicken syntenic breakpoints. Altogether, we identified 72 lineage-specific genes, many of which are found at or near syntenic breaks, implicating evolutionary breakpoint regions as major sites of genetic innovation and change. Twenty-two of the 31 breakpoint regions have been reused repeatedly as rearrangement breakpoints in vertebrate evolution. Compared with stable GC-matched regions, GGA28 is highly enriched in CpG islands, as are break-prone intervals identified elsewhere in the chicken genome; evolutionary breakpoints are further enriched in GC content and CpG islands, highlighting a potential role for these features in genome instability. These data support the hypothesis that chromosome rearrangements have not occurred randomly over the course of vertebrate evolution but are focused preferentially within "fragile" regions with unusual DNA sequence characteristics.
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