Distribution of HOX genes in the chicken genome reveals a new segment of conservation between human and chicken

Ladjali-Mohammedi, Kafia; Grapin-Botton, Anne; Bonnin, Marie-Ange; Douarin, Nicole M. Le

doi:10.1159/000056889

Cited by 10 publications

(5 citation statements)

References 27 publications

(24 reference statements)

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“…The linkage mapping for the INRA population shows the same association. This result contradicts a previous report based on fluorescent in situ hybridisation (FISH) that indicated that the HOXC cluster is located on chicken chromosome 1 and also the NCBI GenBank description about the position of chicken HOXC8 (Gene ID: 395711, at NW_003778389.1, from 237 bp to 1871 bp) [26]. We have also demonstrated that the Crest phenotype is associated with ectopic expression of HOXC8 in cranial skin during development which appears to be a reasonable explanation for the atypical feather growth on the heads of Crested chickens.…”

Section: Discussioncontrasting

confidence: 99%

The Crest Phenotype in Chicken Is Associated with Ectopic Expression of HOXC8 in Cranial Skin

et al. 2012

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The Crest phenotype is characterised by a tuft of elongated feathers atop the head. A similar phenotype is also seen in several wild bird species. Crest shows an autosomal incompletely dominant mode of inheritance and is associated with cerebral hernia. Here we show, using linkage analysis and genome-wide association, that Crest is located on the E22C19W28 linkage group and that it shows complete association to the HOXC-cluster on this chromosome. Expression analysis of tissues from Crested and non-crested chickens, representing 26 different breeds, revealed that HOXC8, but not HOXC12 or HOXC13, showed ectopic expression in cranial skin during embryonic development. We propose that Crest is caused by a cis-acting regulatory mutation underlying the ectopic expression of HOXC8. However, the identification of the causative mutation(s) has to await until a method becomes available for assembling this chromosomal region. Crest is unfortunately located in a genomic region that has so far defied all attempts to establish a contiguous sequence.

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Section: Discussioncontrasting

confidence: 99%

The Crest Phenotype in Chicken Is Associated with Ectopic Expression of HOXC8 in Cranial Skin

et al. 2012

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“…The genes for these orphan receptors are well conserved in the chicken, although human GPRC5A and GPRC5D may represent a duplication in mammals of GPRC5A/5D that we found in chicken. This scenario is also strengthened by their localization in close proximity on the human Chromosome 12p13.2–p13.1, which is a syntenic region to chicken Chromosome 1 where ggGPRC5A/D is positioned [ 30 ].…”

Section: Resultsmentioning

confidence: 99%

The G Protein–Coupled Receptor Subset of the Chicken Genome

et al. 2006

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G protein–coupled receptors (GPCRs) are one of the largest families of proteins, and here we scan the recently sequenced chicken genome for GPCRs. We use a homology-based approach, utilizing comparisons with all human GPCRs, to detect and verify chicken GPCRs from translated genomic alignments and Genscan predictions. We present 557 manually curated sequences for GPCRs from the chicken genome, of which 455 were previously not annotated. More than 60% of the chicken Genscan gene predictions with a human ortholog needed curation, which drastically changed the average percentage identity between the human–chicken orthologous pairs (from 56.3% to 72.9%). Of the non-olfactory chicken GPCRs, 79% had a one-to-one orthologous relationship to a human GPCR. The Frizzled, Secretin, and subgroups of the Rhodopsin families have high proportions of orthologous pairs, although the percentage of amino acid identity varies. Other groups show large differences, such as the Adhesion family and GPCRs that bind exogenous ligands. The chicken has only three bitter Taste 2 receptors, and it also lacks an ortholog to human TAS1R2 (one of three GPCRs in the human genome in the Taste 1 receptor family [TAS1R]), implying that the chicken's ability and mode of detecting both bitter and sweet taste may differ from the human's. The chicken genome contains at least 229 olfactory receptors, and the majority of these (218) originate from a chicken-specific expansion. To our knowledge, this dataset of chicken GPCRs is the largest curated dataset from a single gene family from a non-mammalian vertebrate. Both the updated human GPCR dataset, as well the chicken GPCR dataset, are available for download.

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“…Moreover, although human/chicken comparative mapping has been well studied so far Ladjali-Mohammedi et al, 2001;Buitenhuis et al, 2002;Jennen et al, 2002Jennen et al, , 2003Nanda et al, 2002a;, RH-mapping data will increase the resolution of the gene maps within the conserved syntenies. It will thus help in refining the synteny breakpoints as well as detecting internal rearrangements, as it has been done in other species (Barbazuk et al, 2000;Goureau et al, 2001;Smith S.F.…”

Section: Construction Of the Gga10 Rh Mapmentioning

confidence: 99%