Assignment of 64 genes expressed in 28-day-old pig embryo to radiation hybrid map

Abstract

A swine resource family was constructed at the National Institute of Animal Industry, Japan, in order to determine the genetic regions responsible for economically important traits, including fetus development. To identify genes expressed in the early stage of embryo development, we cataloged and mapped genes expressed in a 28-day-old normal pig embryo. In this effort, we have mapped 64 genes, which have map information in human genome onto a swine radiation hybrid (RH) map, IMpRH. These mappings provided additional chromosomal homologies between swine and human to improve the comparative map between the two species. The distribution of the genes assigned to swine chromosomes are as follows: 9 genes were assigned on SSC6; 6 genes each assigned on SSC5 and SSC14; 5 genes each assigned on SSC3, SSC4, and SSC8; 4 genes each assigned on SSC1, SSC7, SSC9, and SSC15; 3 genes each assigned on SSC2, SSC13 and SSCX; and 1 gene each assigned on SSC10, SSC11, and SSC16. Moreover, the present findings revealed 18 new chromosomal homologies between pig and human. Briefly, SSC3 regions were indicated to correspond with HSA1 and HSA10; SSC4 with HSA6; SSC5 with HSA2, HSA15, and HSA16; SSC6 with HSA3, HSA6, and HSA20; SSC7 with HSA11; SSC8 with HSA3, HSA6, and HSA7; SSC9 with HSA8; SSC13 with HSA1; SSC14 with HSA13; SSC15 with HSA19; SSC16 with HSA9.

Assignment of 101 genes localized in HSA10 to a swine RH (IMpRH) map to generate a dense human-swine comparative map

“…As shown in Supplementary Table 1 (www.karger.com/doi/ 10.1159/000087523), ITIH2 was mapped to SSC10, which was consistent with both the somatic-hybrid assignment and the genetic-linkage analysis (Ponsuksili et al, 2001;Nonneman and Rohrer, 2003), but inconsistent with the mapping results of Karnuah et al (2001). Therefore, to confirm the results of this study, the fragment amplified with the primer pair in the study of Karnuah et al (2001) was sequenced, revealing that the sequence of that fragment, though of the expected size, differed from the sequence used for the primer design.…”

“…ITIH2 was shown to reside on SSC10 by somatic hybrid assignment and genetic-linkage analysis (Ponsuksili et al, 2001;Nonneman and Rohrer, 2003), whereas Karnuah et al (2001) mapped it on SSC3 using the IMpRH panel. Therefore, in order to investigate the discrepancy in its chromosomal position, a primer pair was redesigned for ITIH2 in the present study.…”

Construction of a dense comparative map between human chromosome 1p36→p35 and swine chromosome 6 by using human sequence-tagged sites

“…When this observation is combined with the findings of Karnuah et al (2001), in which many breaks were found in the "conserved synteny" regions between human and swine chromosomes demonstrated by a recent extensive study (Pinton et al, 2000), it is predicted that synteny conservation between human and swine chromosomes would be much more fragmentary than that reported by Pinton et al (2000).…”

“…inra.fr/lgc/pig/compare/HSA.htm). As a result, a number of breaks in conservation of synteny between human and swine chromosomes have been demonstrated (Pinton et al, 2000;Karnuah et al, 2001), which could not be predicted from the correspondence revealed by ZOO-FISH (Goureau et al, 1996). In the present study, using 910 sequence-tagged sites (STSs) from human chromosome (HSA) 1p36 → p35 (35 Mbp) (Chen et al, 2001), we have attempted to construct a more detailed comparative map between this human chromosome and its corresponding swine chromosome (SSC) 6 region, which appears to harbor QTLs (Quantitative Trait Loci) for backfat thickness (Rohrer, 2000) and average daily gain (Bidanel et al, 2001).…”

A new contribution to the integration of human and porcine genome maps: 623 new points of homology

“…Moreover mapping on the radiation hybrid panel IMpRH is in full swing (Hawken et al, 1999;Karnuah et al, 2001;Korwin-Kossakowska et al, 2002;Krause et al, 2002;Rink et al, 2002;Lahbib-Mansais et al, 2003) and 6000 markers are already mapped. A first generation RH comparative map of the porcine and human genome has already been published (Rink et al, 2002;Lahbib-Mansais et al, 2003) but this map includes only EST markers.…”