A whole-genome radiation hybrid panel for bovine gene mapping

Womack, James E.; Johnson, J S; Owens, Elaine; Rexroad, Caird E.; Schläpfer, J.; Yang, Ya Ping

doi:10.1007/s003359900593

Cited by 179 publications

(97 citation statements)

References 29 publications

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“…no. XR_028168) and have been used for RH mapping in a bovine 5 000 rad RH panel (WOMACK et al 1997). A BLAST search within the NCBI genome database (http://www.ncbi.nlm.nih.gov) identified the ovine BAC clone CH243-207O17 as genomic DNA sequence corresponding partially to bovine IL4I1.…”

Section: Methodsmentioning

confidence: 99%

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)

2009

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Abstract. The interleukin 4 induced 1 (IL4I1) gene, also known as FIG1, encodes a lysosomal protein in B cells with L-amino oxidase (EC 1.4.3.2) property and a high preference for aromatic amino acid substrates implicating a fundamental role in antigene processing and presentation (MANSON et al. 2004). In human, IL4I1 has been assigned to chromosome 19q13.3-19q13.4, a hot spot for susceptibility to several autoimmune diseases (CHAVAN et al. 2002). Based on comparative genome data between human and cattle (GOLDAMMER et al. 2002), an assignment of IL4I1 to Bos taurus chromosome 18 (BTA18) has been predicted within a quantitative trait locus for somatic cell score (KÜHN et al. 2003). This prediction is supported by the putative bovine sequence for IL4I1, LOC520692, which has been assigned to BTA18 close to 56.1 megabases within the annotated bovine sequence (NCBI build Btau-4.0). Therefore, we started positional cloning of bovine IL4I1, as a candidate gene related to adaptive immunity, i.e. during udder infections in cattle. Here we present the physical assignment of the bovine IL4I1 gene by fluorescence in situ hybridization (FISH) and radiation hybrid (RH) mapping.

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Section: Methodsmentioning

confidence: 99%

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)

2009

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“…Radiation hybrid (RH) mapping RH mapping was carried out with a 5000-rad RH panel consisting of 90 cell lines and bPL-specific oligonucleotide, the forward and reverse primer sequences were 5 0 -ATC-CATCCCGTCAAAAGC-3 0 and 5 0 -CAGTTCCTGCTATTTGTG-3 0 with an expected PCR product size of 230 bp (Womack et al, 1997). The PCR protocol was 948C for 7 min, followed by 35 cycles of 948C for 30 s, 548C for 45 s, 728C for 30 s and a final extension at 728C for 10 min.…”

Section: Association Analysismentioning

confidence: 99%

Polymorphism identification, RH mapping and association of placental lactogen gene with milk production traits of dairy cows

Zhang

Sun

Womack

et al. 2009

Animal

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Bovine placental lactogen (bPL) is structurally related to prolactin (PRL) and growth hormone (GH). In synergism with steroid and thyroid hormones, bPL is crucial in stimulating the development of the mammary gland, mammary cell differentiation and function. To further explore whether bPL gene is associated with milk production traits, we herein analyzed single-nucleotide polymorphisms (SNPs) within eight regions of bPL gene, which are potentially associated with five milk production traits on 1028 Chinese Holstein cows. Among these, two SNPs, NT7409(T-C) and Nt11246(G-A), were identified. The former is within exon 2; it induces an alteration of amino acid from Val to Ala. The later is within exon 4. It is a synonymous mutation. We found that there were significant associations between NT7409(T-C) and milk and protein yield. Cows of the AA genotype yielded less milk ( P 5 0.001) and less protein ( P 5 0.003) than those of genotypes AB and BB. However, on the NT11246(G-A) locus, no significant association was observed in the five milk production traits studied. In addition, bPL has been localized near markers RM185 and CC549051 with a distance of 23.2 cR on BTA 23. It is at the same position as the region including quantitative trait loci (QTLs) affecting milk and protein yields by previous linkage analysis. In summary, our findings demonstrated that the SNP within exon 2 of bPL (NT7409(T-C)) is associated with two milk production traits, and this provided further evidence that bPL could be a major gene-controlling milk production trait in Holstein dairy cattle.

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“…microsatellites) from recombination based marker maps. Womack and coworkers [25] reported a bovine WG-RH panel, created using 5 000 rad of gamma rays (RH 5 000 ). This panel has been extensively used for the construction of single chromosome specific framework maps (e.g.…”

Section: Introductionmentioning

confidence: 99%

A higher resolution radiation hybrid map of bovine chromosome 13

Schläpfer¹,

Stahlberger-Saitbekova

Comincini

et al. 2002

Genet. Sel. Evol.

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-In this paper, we present a radiation hybrid framework map of BTA13 composed of nine microsatellite loci, six genes and one EST. The map has been developed using a recently constructed 12 000 rad bovine-hamster whole-genome radiation hybrid panel. Moreover, we present a comprehensive map of BTA13 comprising 72 loci, of which 45 are microsatellites, 20 are genes and seven are ESTs. The map has an estimated length of 2694.7 cR 12 000 . The proposed order is in general agreement with published maps of BTA13. Our results only partially support previously published information of five blocks of conserved gene order between cattle and man. We found no evidence for the existence of an HSA20 homologous segment of coding DNA on BTA13 located centromeric of a confirmed HSA10 homologous region. The present map increases the marker density and the marker resolution on BTA13 and enables further insight into the evolutionary development of the chromosome as compared to man. bovine chromosome 13 / radiation hybrid / gene mapping / 12 000 rad / comparative mapping * Correspondence and reprints

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A whole-genome radiation hybrid panel for bovine gene mapping

Cited by 179 publications

References 29 publications

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)

Polymorphism identification, RH mapping and association of placental lactogen gene with milk production traits of dairy cows

A higher resolution radiation hybrid map of bovine chromosome 13

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A whole-genome radiation hybrid panel for bovine gene mapping

Cited by 179 publications

References 29 publications

Cytogenetic and radiation hybrid mapping of the bovine &lt;i&gt;interleukin 4 induced 1 (IL4I1)&lt;/i&gt; gene to cattle chromosome 18 (Brief Report)

Cytogenetic and radiation hybrid mapping of the bovine &lt;i&gt;interleukin 4 induced 1 (IL4I1)&lt;/i&gt; gene to cattle chromosome 18 (Brief Report)

Polymorphism identification, RH mapping and association of placental lactogen gene with milk production traits of dairy cows

A higher resolution radiation hybrid map of bovine chromosome 13

Contact Info

Product

Resources

About

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)

Cytogenetic and radiation hybrid mapping of the bovine <i>interleukin 4 induced 1 (IL4I1)</i> gene to cattle chromosome 18 (Brief Report)