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Identification of eQTLs for hepatic Xbp1s and Socs3 gene expression in mice fed a high-fat, high-caloric diet.

Pasricha S, Kenney-Hunt J, Anderson K, Jafari N, Hall RA, Lammert F, Cheverud J, Green RM - G3 (Bethesda) (2015)

Bottom Line: We identified two overlapping loci for Xbp1s and Socs3 on Chr 1 (164.0-185.4 Mb and 174.4-190.5 Mb, respectively) and Chr 11 (41.1-73.1 Mb and 44.0-68.6 Mb, respectively), and an additional locus for Socs3 on Chr 12 (109.9-117.4 Mb).In addition, we replicated the eQTLs on Chr 1 and Chr 12 (LOD scores ≥3.5) using mice from the BXD murine reference panel challenged with CCl4 to induce chronic liver injury and fibrosis.Identification of the genes for these eQTLs will lead to a better understanding of the genetic factors responsible for NAFLD and potentially other hepatic diseases.

View Article: PubMed Central - PubMed

Affiliation: Department of Internal Medicine, Northwestern University, Chicago, Illinois Department of Internal Medicine, University of North Carolina, Chapel Hill, North Carolina.

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Whole genome LOD plots of eQTLs identified in A/J and C57BL/6J mice fed a high-fat diet.
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fig2: Whole genome LOD plots of eQTLs identified in A/J and C57BL/6J mice fed a high-fat diet.

Mentions: Xbp1 and Socs3 are both located on mouse chromosome 11 (Xbp1: 5.5 Mb and Socs3: 118.0 Mb). We identified an overlapping eQTL for Xbp1s and Socs3 on chromosome 1 (181.5 Mb), with LOD scores of 4.79 and 6.18, respectively. Additional overlapping eQTLs were also identified on chromosome 11 (56.2 and 58.4 Mb). There was also an eQTL identified for Socs3 on chromosome 12 (113.4 Mb) with a LOD score of 3.53 (Table 1). Figure 2 and Figure 3 show the whole genome LOD plots and the eQTL linkage maps, respectively. Microarray analysis identified eight and nine differentially expressed candidate genes within the overlapping eQTLs on chromosomes 1 and 11, respectively; five differentially expressed genes were identified in the Socs3 eQTL on chromosome 12 (Table 2).


Identification of eQTLs for hepatic Xbp1s and Socs3 gene expression in mice fed a high-fat, high-caloric diet.

Pasricha S, Kenney-Hunt J, Anderson K, Jafari N, Hall RA, Lammert F, Cheverud J, Green RM - G3 (Bethesda) (2015)

Whole genome LOD plots of eQTLs identified in A/J and C57BL/6J mice fed a high-fat diet.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4390565&req=5

fig2: Whole genome LOD plots of eQTLs identified in A/J and C57BL/6J mice fed a high-fat diet.
Mentions: Xbp1 and Socs3 are both located on mouse chromosome 11 (Xbp1: 5.5 Mb and Socs3: 118.0 Mb). We identified an overlapping eQTL for Xbp1s and Socs3 on chromosome 1 (181.5 Mb), with LOD scores of 4.79 and 6.18, respectively. Additional overlapping eQTLs were also identified on chromosome 11 (56.2 and 58.4 Mb). There was also an eQTL identified for Socs3 on chromosome 12 (113.4 Mb) with a LOD score of 3.53 (Table 1). Figure 2 and Figure 3 show the whole genome LOD plots and the eQTL linkage maps, respectively. Microarray analysis identified eight and nine differentially expressed candidate genes within the overlapping eQTLs on chromosomes 1 and 11, respectively; five differentially expressed genes were identified in the Socs3 eQTL on chromosome 12 (Table 2).

Bottom Line: We identified two overlapping loci for Xbp1s and Socs3 on Chr 1 (164.0-185.4 Mb and 174.4-190.5 Mb, respectively) and Chr 11 (41.1-73.1 Mb and 44.0-68.6 Mb, respectively), and an additional locus for Socs3 on Chr 12 (109.9-117.4 Mb).In addition, we replicated the eQTLs on Chr 1 and Chr 12 (LOD scores ≥3.5) using mice from the BXD murine reference panel challenged with CCl4 to induce chronic liver injury and fibrosis.Identification of the genes for these eQTLs will lead to a better understanding of the genetic factors responsible for NAFLD and potentially other hepatic diseases.

View Article: PubMed Central - PubMed

Affiliation: Department of Internal Medicine, Northwestern University, Chicago, Illinois Department of Internal Medicine, University of North Carolina, Chapel Hill, North Carolina.

Show MeSH
Related in: MedlinePlus