Department of Biological Science and Engineering, Key Laboratory of Biomedical Information Engineering of Ministry of Education, School of Life Science and Technology, Xi'an Jiaotong University, China.
Anim Genet. 2011 Aug;42(4):440-4. doi: 10.1111/j.1365-2052.2010.02140.x. Epub 2010 Dec 1.
We used the IMNpRH2(12,000-rad) RH and IMpRH(7,000-rad) panels to integrate 2019 transcriptome (RNA-seq)-generated contigs with markers from the porcine genetic and radiation hybrid (RH) maps and bacterial artificial chromosome finger-printed contigs, into 1) parallel framework maps (LOD ≥ 10) on both panels for swine chromosome (SSC) 4, and 2) a high-resolution comparative map of SSC4, thus and human chromosomes (HSA) 1 and 8. A total of 573 loci were anchored and ordered on SSC4 closing gaps identified in the porcine sequence assembly Sscrofa9. Alignment of the SSC4 RH with the genetic map identified five microsatellites incorrectly mapped around the centromeric region in the genetic map. Further alignment of the RH and comparative maps with the genome sequence identified four additional regions of discrepancy that are also suggestive of errors in assembly, three of which were resolved through conserved synteny with blocks on HSA1 and HSA8.
我们使用 IMNpRH2（12000 拉德）RH 和 IMpRH（7000 拉德）面板，将 2019 年转录组（RNA-seq）生成的图谱与来自猪遗传和辐射杂种（RH）图谱和细菌人工染色体指纹图谱的标记整合到 1）两个面板上的猪染色体（SSC）4 的平行框架图谱（LOD≥10）中，以及 2）SSC4 的高分辨率比较图谱，从而与人类染色体（HSA）1 和 8 进行比较。总共将 573 个基因座锚定并排列在 SSC4 上，缩小了猪序列组装 Sscrofa9 中确定的缺口。SSC4 RH 与遗传图谱的比对确定了五个微卫星在遗传图谱的着丝粒区域周围错误映射。RH 和比较图谱与基因组序列的进一步比对确定了另外四个差异区域，这也表明组装存在错误，其中三个通过与 HSA1 和 HSA8 上的块的保守同线性得到解决。
