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Identification of more than two paternal haplotypes of the ovine fatty acid-binding protein 4 (FABP4) gene in half-sib families: evidence of intragenic meiotic recombination.

Yan W, Zhou H, Luo Y, Hu J, Hickford JG - PLoS ONE (2014)

Bottom Line: Across these regions, fourteen haplotypes have been identified.Between three and four paternally-derived haplotypes were identified in the progeny of six of the seven sires, suggesting that meiotic recombination occurs within ovine FABP4.A number of sequence motifs associated with recombination "hotspots" were detected in the two regions of the gene that were analyzed and these may facilitate the recombination.

View Article: PubMed Central - PubMed

Affiliation: Gansu Key Laboratory of Herbivorous Animal Biotechnology, Faculty of Animal Science and Technology, Gansu Agricultural University, Lanzhou, China.

ABSTRACT
The fatty acid binding protein 4 (FABP4) plays an important role in the regulation of lipid metabolism in mammals. In this study, two regions of ovine FABP4 spanning exon 2-intron 2 and exon 3-intron 3 were investigated in four hundred and twenty lambs derived from seven sires that were previously typed as having heterozygous genotypes in both these regions of the gene. These regions have been shown to be variable, with three SNPs plus one indel and four SNPs respectively constituting five and four allele variants in the two regions. Across these regions, fourteen haplotypes have been identified. The lambs were typed using a Polymerase Chain Reaction Single-Stranded Conformational Polymorphism (PCR-SSCP) method to identify the haplotypes inherited from the sires. Between three and four paternally-derived haplotypes were identified in the progeny of six of the seven sires, suggesting that meiotic recombination occurs within ovine FABP4. A number of sequence motifs associated with recombination "hotspots" were detected in the two regions of the gene that were analyzed and these may facilitate the recombination.

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Polymorphism of ovine FABP4 and sequence homology with other species.Five and four allele variants are respectively identified in region I (exon 2-intron 2) and region II (exon 3-intron 3) by (a) PCR-SSCP and (b) DNA sequencing [11]. The FABP4 sequences from other species used to construct the homology trees (c) are: NC_007312 (cattle), EF061481 (pig), HQ384160 (human), ENSFCAG00000032028 (cat) and ENSMUSG00000062515 (mouse). The nucleotide numbering follows the nomenclature described on www.hgvs.org/mutnomen/.
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pone-0088691-g001: Polymorphism of ovine FABP4 and sequence homology with other species.Five and four allele variants are respectively identified in region I (exon 2-intron 2) and region II (exon 3-intron 3) by (a) PCR-SSCP and (b) DNA sequencing [11]. The FABP4 sequences from other species used to construct the homology trees (c) are: NC_007312 (cattle), EF061481 (pig), HQ384160 (human), ENSFCAG00000032028 (cat) and ENSMUSG00000062515 (mouse). The nucleotide numbering follows the nomenclature described on www.hgvs.org/mutnomen/.

Mentions: We have recently reported five and four sequence variants, containing three SNPs plus one indel and four SNPs respectively, in two separate regions of ovine FABP4 (Figure 1) [11]. Fourteen haplotype sequences were constructed across these two regions [11] and some of them appear to have been created by intragenic recombination events. These regions contain the majority of the FABP4 coding sequence and some of the encoded amino acids appear to be important for the functional domains of the protein in the tertiary structure [12]. Sequence similarity is observed between species in these regions (Figure 1).


Identification of more than two paternal haplotypes of the ovine fatty acid-binding protein 4 (FABP4) gene in half-sib families: evidence of intragenic meiotic recombination.

Yan W, Zhou H, Luo Y, Hu J, Hickford JG - PLoS ONE (2014)

Polymorphism of ovine FABP4 and sequence homology with other species.Five and four allele variants are respectively identified in region I (exon 2-intron 2) and region II (exon 3-intron 3) by (a) PCR-SSCP and (b) DNA sequencing [11]. The FABP4 sequences from other species used to construct the homology trees (c) are: NC_007312 (cattle), EF061481 (pig), HQ384160 (human), ENSFCAG00000032028 (cat) and ENSMUSG00000062515 (mouse). The nucleotide numbering follows the nomenclature described on www.hgvs.org/mutnomen/.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3921221&req=5

pone-0088691-g001: Polymorphism of ovine FABP4 and sequence homology with other species.Five and four allele variants are respectively identified in region I (exon 2-intron 2) and region II (exon 3-intron 3) by (a) PCR-SSCP and (b) DNA sequencing [11]. The FABP4 sequences from other species used to construct the homology trees (c) are: NC_007312 (cattle), EF061481 (pig), HQ384160 (human), ENSFCAG00000032028 (cat) and ENSMUSG00000062515 (mouse). The nucleotide numbering follows the nomenclature described on www.hgvs.org/mutnomen/.
Mentions: We have recently reported five and four sequence variants, containing three SNPs plus one indel and four SNPs respectively, in two separate regions of ovine FABP4 (Figure 1) [11]. Fourteen haplotype sequences were constructed across these two regions [11] and some of them appear to have been created by intragenic recombination events. These regions contain the majority of the FABP4 coding sequence and some of the encoded amino acids appear to be important for the functional domains of the protein in the tertiary structure [12]. Sequence similarity is observed between species in these regions (Figure 1).

Bottom Line: Across these regions, fourteen haplotypes have been identified.Between three and four paternally-derived haplotypes were identified in the progeny of six of the seven sires, suggesting that meiotic recombination occurs within ovine FABP4.A number of sequence motifs associated with recombination "hotspots" were detected in the two regions of the gene that were analyzed and these may facilitate the recombination.

View Article: PubMed Central - PubMed

Affiliation: Gansu Key Laboratory of Herbivorous Animal Biotechnology, Faculty of Animal Science and Technology, Gansu Agricultural University, Lanzhou, China.

ABSTRACT
The fatty acid binding protein 4 (FABP4) plays an important role in the regulation of lipid metabolism in mammals. In this study, two regions of ovine FABP4 spanning exon 2-intron 2 and exon 3-intron 3 were investigated in four hundred and twenty lambs derived from seven sires that were previously typed as having heterozygous genotypes in both these regions of the gene. These regions have been shown to be variable, with three SNPs plus one indel and four SNPs respectively constituting five and four allele variants in the two regions. Across these regions, fourteen haplotypes have been identified. The lambs were typed using a Polymerase Chain Reaction Single-Stranded Conformational Polymorphism (PCR-SSCP) method to identify the haplotypes inherited from the sires. Between three and four paternally-derived haplotypes were identified in the progeny of six of the seven sires, suggesting that meiotic recombination occurs within ovine FABP4. A number of sequence motifs associated with recombination "hotspots" were detected in the two regions of the gene that were analyzed and these may facilitate the recombination.

Show MeSH
Related in: MedlinePlus