Project description:To investigate mouse intersubspecific divergence of transcriptional regulation between C57BL/6J (B6) and Japanese wild-derived MSM/Ms strains, we performed transcriptome analysis by microarray on liver from B6 and MSM, and B6-ChrNMSM chromosome substitution strain panel, which carries MSM-derived chromosome or chromosomal segment on the B6 host.
Project description:Chromosome substitution strains (CSS or consomic strains) are useful for mapping phenotypes to chromosomes. However, huge efforts are needed to identify the gene(s) responsible for the phenotype in the complex context of the chromosome. Here, we report the identification of candidate disease genes from a CSS using a combination of genetic and genomic approaches as well as by using knowledge about the germ cell tumor disease etiology. We utilized the CSS, 129.MOLF-Chr 19 chromosome substitution strain (or M19), in which males develop germ cell tumors of the testes at an extremely high rate. We are able to identify 3 protein-coding genes and 1 microRNA on chromosome 19 that have previously not been implicated to be testicular tumor susceptibility genes. Our findings suggest that changes in gene expression levels in the gonadal tissues of multiple genes from Chr 19 likely contribute to the high TGCT incidence of the M19 strain. Our data advances the use of CSS to identify disease susceptibility genes and demonstrates that the 129.MOLF-Chr 19 strain serves as a useful model to elucidate the genetics and biology of germ cell transformation and tumor development.
Project description:To investigate the evolutionary divergence of transcriptional regulation between the mouse subspecies, we performed transcriptome analysis by microarray on testes from the X-chromosome substitution strain, which carries different subspecies-derived X chromosome on the host subspecies genome. Transcription profiling showed that large-scale aberrations in gene expression were occurred on the introgressed X chromosome. This improper expression was restored by introducing chromosome 1 from the same donor strain as the X chromosome, suggesting that the genetic incompatibility between trans-acting regulatory gene(s) on chromosome 1 and X-linked downstream genes might be a cause of the misregulation. Testes were collected from 5- and 7-day-old males for RNA extraction and the microarray experiments were performed by using Affymetrix microarrays. Testes from three different males for each strain were tested independently. Tested males are from control C57BL/6J (B6) strain, MSM strain, X-chromosome substitution strain (B6-ChrXMSM), partial X-chromosome substitution strain 1 (B6-ChrXTMSM), partial X-chromosome substitution strain 2 (XS39-tel), and restored (B6-ChrXTMSM X B6-Chr1MSM) F1.
Project description:Purpose:The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) of different resistance to sheath blight in rice chromosome segment substitution lines
