Geographical genomics of human leukocyte gene expression variation in southern Morocco

Youssef Idaghdhour, Wendy Czika, Kevin V. Shianna, Sang H. Lee, Peter M. Visscher, Hilary C. Martin, Kelci Miclaus, Sami J. Jadallah, David B. Goldstein, Russell D. Wolfinger, Greg Gibson

Research output: Contribution to journalArticle

Abstract

Studies of the genetics of gene expression can identify expression SNPs (eSNPs) that explain variation in transcript abundance. Here we address the robustness of eSNP associations to environmental geography and population structure in a comparison of 194 Arab and Amazigh individuals from a city and two villages in southern Morocco. Gene expression differed between pairs of locations for up to a third of all transcripts, with notable enrichment of transcripts involved in ribosomal biosynthesis and oxidative phosphorylation. Robust associations were observed in the leukocyte samples: cis eSNPs (P <10 -08) were identified for 346 genes, and trans eSNPs (P <10 -11) for 10 genes. All of these associations were consistent both across the three sample locations and after controlling for ancestry and relatedness. No evidence of large-effect trans-acting mediators of the pervasive environmental influence was found; instead, genetic and environmental factors acted in a largely additive manner.

Original languageEnglish (US)
Pages (from-to)62-67
Number of pages6
JournalNature Genetics
Volume42
Issue number1
DOIs
StatePublished - Jan 1 2010

Fingerprint

Morocco
Genomics
Single Nucleotide Polymorphism
Leukocytes
Gene Expression
Geography
Oxidative Phosphorylation
Population
Genes

ASJC Scopus subject areas

  • Genetics

Cite this

Idaghdhour, Y., Czika, W., Shianna, K. V., Lee, S. H., Visscher, P. M., Martin, H. C., ... Gibson, G. (2010). Geographical genomics of human leukocyte gene expression variation in southern Morocco. Nature Genetics, 42(1), 62-67. https://doi.org/10.1038/ng.495

Geographical genomics of human leukocyte gene expression variation in southern Morocco. / Idaghdhour, Youssef; Czika, Wendy; Shianna, Kevin V.; Lee, Sang H.; Visscher, Peter M.; Martin, Hilary C.; Miclaus, Kelci; Jadallah, Sami J.; Goldstein, David B.; Wolfinger, Russell D.; Gibson, Greg.

In: Nature Genetics, Vol. 42, No. 1, 01.01.2010, p. 62-67.

Research output: Contribution to journalArticle

Idaghdhour, Y, Czika, W, Shianna, KV, Lee, SH, Visscher, PM, Martin, HC, Miclaus, K, Jadallah, SJ, Goldstein, DB, Wolfinger, RD & Gibson, G 2010, 'Geographical genomics of human leukocyte gene expression variation in southern Morocco', Nature Genetics, vol. 42, no. 1, pp. 62-67. https://doi.org/10.1038/ng.495
Idaghdhour, Youssef ; Czika, Wendy ; Shianna, Kevin V. ; Lee, Sang H. ; Visscher, Peter M. ; Martin, Hilary C. ; Miclaus, Kelci ; Jadallah, Sami J. ; Goldstein, David B. ; Wolfinger, Russell D. ; Gibson, Greg. / Geographical genomics of human leukocyte gene expression variation in southern Morocco. In: Nature Genetics. 2010 ; Vol. 42, No. 1. pp. 62-67.
@article{006b54b0e4484bfa922648b2552e5bb9,
title = "Geographical genomics of human leukocyte gene expression variation in southern Morocco",
abstract = "Studies of the genetics of gene expression can identify expression SNPs (eSNPs) that explain variation in transcript abundance. Here we address the robustness of eSNP associations to environmental geography and population structure in a comparison of 194 Arab and Amazigh individuals from a city and two villages in southern Morocco. Gene expression differed between pairs of locations for up to a third of all transcripts, with notable enrichment of transcripts involved in ribosomal biosynthesis and oxidative phosphorylation. Robust associations were observed in the leukocyte samples: cis eSNPs (P <10 -08) were identified for 346 genes, and trans eSNPs (P <10 -11) for 10 genes. All of these associations were consistent both across the three sample locations and after controlling for ancestry and relatedness. No evidence of large-effect trans-acting mediators of the pervasive environmental influence was found; instead, genetic and environmental factors acted in a largely additive manner.",
author = "Youssef Idaghdhour and Wendy Czika and Shianna, {Kevin V.} and Lee, {Sang H.} and Visscher, {Peter M.} and Martin, {Hilary C.} and Kelci Miclaus and Jadallah, {Sami J.} and Goldstein, {David B.} and Wolfinger, {Russell D.} and Greg Gibson",
year = "2010",
month = "1",
day = "1",
doi = "10.1038/ng.495",
language = "English (US)",
volume = "42",
pages = "62--67",
journal = "Nature Genetics",
issn = "1061-4036",
publisher = "Nature Publishing Group",
number = "1",

}

TY - JOUR

T1 - Geographical genomics of human leukocyte gene expression variation in southern Morocco

AU - Idaghdhour, Youssef

AU - Czika, Wendy

AU - Shianna, Kevin V.

AU - Lee, Sang H.

AU - Visscher, Peter M.

AU - Martin, Hilary C.

AU - Miclaus, Kelci

AU - Jadallah, Sami J.

AU - Goldstein, David B.

AU - Wolfinger, Russell D.

AU - Gibson, Greg

PY - 2010/1/1

Y1 - 2010/1/1

N2 - Studies of the genetics of gene expression can identify expression SNPs (eSNPs) that explain variation in transcript abundance. Here we address the robustness of eSNP associations to environmental geography and population structure in a comparison of 194 Arab and Amazigh individuals from a city and two villages in southern Morocco. Gene expression differed between pairs of locations for up to a third of all transcripts, with notable enrichment of transcripts involved in ribosomal biosynthesis and oxidative phosphorylation. Robust associations were observed in the leukocyte samples: cis eSNPs (P <10 -08) were identified for 346 genes, and trans eSNPs (P <10 -11) for 10 genes. All of these associations were consistent both across the three sample locations and after controlling for ancestry and relatedness. No evidence of large-effect trans-acting mediators of the pervasive environmental influence was found; instead, genetic and environmental factors acted in a largely additive manner.

AB - Studies of the genetics of gene expression can identify expression SNPs (eSNPs) that explain variation in transcript abundance. Here we address the robustness of eSNP associations to environmental geography and population structure in a comparison of 194 Arab and Amazigh individuals from a city and two villages in southern Morocco. Gene expression differed between pairs of locations for up to a third of all transcripts, with notable enrichment of transcripts involved in ribosomal biosynthesis and oxidative phosphorylation. Robust associations were observed in the leukocyte samples: cis eSNPs (P <10 -08) were identified for 346 genes, and trans eSNPs (P <10 -11) for 10 genes. All of these associations were consistent both across the three sample locations and after controlling for ancestry and relatedness. No evidence of large-effect trans-acting mediators of the pervasive environmental influence was found; instead, genetic and environmental factors acted in a largely additive manner.

UR - http://www.scopus.com/inward/record.url?scp=73349126396&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=73349126396&partnerID=8YFLogxK

U2 - 10.1038/ng.495

DO - 10.1038/ng.495

M3 - Article

VL - 42

SP - 62

EP - 67

JO - Nature Genetics

JF - Nature Genetics

SN - 1061-4036

IS - 1

ER -