A systems genetics study of swine illustrates mechanisms underlying human phenotypic traits

BMC Genomics
Jun ZhuLusheng Huang

Abstract

The pig, which shares greater similarities with human than with mouse, is important for agriculture and for studying human diseases. However, similarities in the genetic architecture and molecular regulations underlying phenotypic variations in humans and swine have not been systematically assessed. We systematically surveyed ~500 F2 pigs genetically and phenotypically. By comparing candidates for anemia traits identified in swine genome-wide SNP association and human genome-wide association studies (GWAS), we showed that both sets of candidates are related to the biological process "cellular lipid metabolism" in liver. Human height is a complex heritable trait; by integrating genome-wide SNP data and human adipose Bayesian causal network, which closely represents bone transcriptional regulations, we identified PLAG1 as a causal gene for limb bone length. This finding is consistent with GWAS findings for human height and supports the common genetic architecture between swine and humans. By leveraging a human protein-protein interaction network, we identified two putative candidate causal genes TGFB3 and DAB2IP and the known regulators MESP1 and MESP2 as responsible for the variation in rib number and identified the potential un...Continue Reading

References

Jan 1, 1973·Journal of Nutritional Science and Vitaminology·T Fujii, H Shimizu
Jan 1, 1980·Journal of Nutritional Science and Vitaminology·Y OhiraB Senewiratne
Jan 1, 1994·Acta Haematologica·S Ozsoylu
Apr 3, 1998·Journal of Bone and Mineral Research : the Official Journal of the American Society for Bone and Mineral Research·M E NuttallM Gowen
Jun 24, 2003·Genome Research·Hidemasa BonoUNKNOWN GSL Members
Jan 1, 1961·Journal of Applied Physiology·L C FILLIOSC NAITO
Oct 2, 2003·Genome Biology·Douglas A HosackRichard A Lempicki
Oct 28, 2003·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Frietson Galis, Johan A J Metz
Dec 21, 2004·Development, Growth & Differentiation·Karen HensenWim J M Van de Ven
Jan 6, 2005·American Journal of Veterinary Research·S Anna PesilloJohn E Rush
Aug 29, 2006·Clinica Chimica Acta; International Journal of Clinical Chemistry·Maqusood AhamedM K J Siddiqui
Mar 27, 2007·Bioinformatics·Yurii S AulchenkoCornelia M van Duijn
May 15, 2007·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Jinghu ZhangDequan Xu
Oct 31, 2007·Developmental Biology·Liang-Tung Yang, Vesa Kaartinen
Nov 16, 2007·The American Journal of the Medical Sciences·Ali OzdemirFunda Türkmen
Dec 25, 2007·Nature Cell Biology·Alexander AulehlaOlivier Pourquié
Mar 18, 2008·Nature·Valur EmilssonKari Stefansson
Mar 18, 2008·Nature·Yanqing ChenEric E Schadt
Apr 9, 2008·Nature Genetics·Daniel F GudbjartssonKari Stefansson
May 9, 2008·PLoS Biology·Eric E SchadtRoger Ulrich
Oct 16, 2008·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Zhengzhi ZouLusheng Huang
Jan 31, 2009·Nutrition Reviews·James P McClung, J Philip Karl
Oct 24, 2009·The Journal of Clinical Endocrinology and Metabolism·Emanuele Miraglia del GiudiceLaura Perrone
Oct 29, 2009·Nature Genetics·Santhi K GaneshJing-Ping Lin
Dec 25, 2009·Nature·Maria Stella CarroAntonio Iavarone
Feb 20, 2010·PloS One·Ethan CeramiChris Sander
Jul 22, 2010·Journal of Cellular Physiology·Chien-Ling HuangChing-Ping Tseng
Aug 21, 2010·Trends in Cell Biology·Sarah GibbJ Kim Dale

❮ Previous
Next ❯

Citations

Apr 8, 2016·Nature Reviews. Rheumatology·David KarasikMark L Johnson
Oct 17, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Patiwat KongdangSiriwan Ongchai
Jun 1, 2019·PeerJ·Jianning ChenYanzhi Jiang
Apr 17, 2020·Frontiers in Genetics·Boris LukićVlatka Cubric-Curik
Jul 31, 2016·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Lisheng ZhouJunwu Ma

❮ Previous
Next ❯

Datasets Mentioned

BETA
DRGA0002465

Methods Mentioned

BETA
gene knockout
chip
genotyping
gastric bypass

Software Mentioned

RIMBANet
R
SOAP2
GenABEL

Related Concepts

Related Feeds

Anemia

Anemia develops when your blood lacks enough healthy red blood cells. Anemia of inflammation (AI, also called anemia of chronic disease) is a common, typically normocytic, normochromic anemia that is caused by an underlying inflammatory disease. Here is the latest research on anemia.