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Gene expression profiling of arthritis using a QTL chip reveals a complex gene regulation of the Cia5 region in mice.

Johannesson, Martina LU ; Olsson, Lina LU ; Lindqvist, Anna-Karin LU ; Moller, S; Koczan, D; Wester Rosenlöf, Lena LU ; Thiesen, H-J; Ibrahim, S and Holmdahl, Rikard LU (2005) In Genes and Immunity 6(7). p.575-583
Abstract
One of the major quantitative trait loci (QTLs) associated with arthritis in crosses between B10.RIII and RIIIS/J mice is the Cia5 on chromosome 3. Early in the congenic mapping process it was clear that the locus was complex, consisting of several subloci with small effects. Therefore, we developed two novel strategies to dissect a QTL: the partial advanced intercross (PAI) strategy, with which we recently found the Cia5 region to consist of three loci, Cia5, Cia21 and Cia22, and now we introduce the QTL-chip strategy, where we have combined congenic mapping with a QTL-restricted expression profiling using a novel microarray design. The expression of QTL genes was compared between parental and congenic mice in lymph node, spleen and paw... (More)
One of the major quantitative trait loci (QTLs) associated with arthritis in crosses between B10.RIII and RIIIS/J mice is the Cia5 on chromosome 3. Early in the congenic mapping process it was clear that the locus was complex, consisting of several subloci with small effects. Therefore, we developed two novel strategies to dissect a QTL: the partial advanced intercross (PAI) strategy, with which we recently found the Cia5 region to consist of three loci, Cia5, Cia21 and Cia22, and now we introduce the QTL-chip strategy, where we have combined congenic mapping with a QTL-restricted expression profiling using a novel microarray design. The expression of QTL genes was compared between parental and congenic mice in lymph node, spleen and paw samples in five biological replicates and in dye-swapped experiments at three time points during the induction phase of arthritis. The QTL chip approach revealed 4 genes located in Cia21, differently expressed in lymph nodes, and 14 genes in Cia22, located within two clusters. One cluster contains six genes, differently expressed in spleen, and the second cluster contains eight genes, differently expressed in paws. We conclude the QTL-chip strategy to be valuable in the selection of candidate genes to be prioritized for further investigation. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
microarray, quantitative trait locus, complex trait mapping, collagen-induced arthritis
in
Genes and Immunity
volume
6
issue
7
pages
575 - 583
publisher
Nature Publishing Group
external identifiers
  • pmid:16015370
  • wos:000232881800003
  • scopus:27844524976
ISSN
1476-5470
DOI
10.1038/sj.gene.6364242
language
English
LU publication?
yes
id
d9bc755b-87c6-474a-a95d-d700b42a53c7 (old id 142147)
alternative location
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=16015370&dopt=Abstract
date added to LUP
2007-07-16 09:03:26
date last changed
2017-01-01 04:21:34
@article{d9bc755b-87c6-474a-a95d-d700b42a53c7,
  abstract     = {One of the major quantitative trait loci (QTLs) associated with arthritis in crosses between B10.RIII and RIIIS/J mice is the Cia5 on chromosome 3. Early in the congenic mapping process it was clear that the locus was complex, consisting of several subloci with small effects. Therefore, we developed two novel strategies to dissect a QTL: the partial advanced intercross (PAI) strategy, with which we recently found the Cia5 region to consist of three loci, Cia5, Cia21 and Cia22, and now we introduce the QTL-chip strategy, where we have combined congenic mapping with a QTL-restricted expression profiling using a novel microarray design. The expression of QTL genes was compared between parental and congenic mice in lymph node, spleen and paw samples in five biological replicates and in dye-swapped experiments at three time points during the induction phase of arthritis. The QTL chip approach revealed 4 genes located in Cia21, differently expressed in lymph nodes, and 14 genes in Cia22, located within two clusters. One cluster contains six genes, differently expressed in spleen, and the second cluster contains eight genes, differently expressed in paws. We conclude the QTL-chip strategy to be valuable in the selection of candidate genes to be prioritized for further investigation.},
  author       = {Johannesson, Martina and Olsson, Lina and Lindqvist, Anna-Karin and Moller, S and Koczan, D and Wester Rosenlöf, Lena and Thiesen, H-J and Ibrahim, S and Holmdahl, Rikard},
  issn         = {1476-5470},
  keyword      = {microarray,quantitative trait locus,complex trait mapping,collagen-induced arthritis},
  language     = {eng},
  number       = {7},
  pages        = {575--583},
  publisher    = {Nature Publishing Group},
  series       = {Genes and Immunity},
  title        = {Gene expression profiling of arthritis using a QTL chip reveals a complex gene regulation of the Cia5 region in mice.},
  url          = {http://dx.doi.org/10.1038/sj.gene.6364242},
  volume       = {6},
  year         = {2005},
}