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Genetic dissection of transcriptional regulation by cDNA-AFLP

Marnik Vuylsteke UGent, Hilde Van Den Daele UGent, Annelies Vercauteren UGent, Marc Zabeau and Martin Kuiper UGent (2006) PLANT JOURNAL. 45(3). p.439-446
abstract
This study demonstrates that cDNA-AFLP is a powerful gel-based genome-scale transcript profiling technique to generate quantitative gene expression profiles for eQTL mapping. We used cDNA-AFLP to monitor the relative abundance of 912 transcripts across 50 Arabidopsis thaliana recombinant inbred lines. Estimates for heritability of cDNA-AFLP intensity polymorphisms were high, with a median of 0.30 and an interquartile range of 0.21-0.44. A total of 198 expression polymorphisms were significantly linked to specific chromosomal regions ( P < 0.05). Both cis- and trans-acting loci correlated with the variation in gene expression levels were found. Some of the trans-acting loci correlated to multiple expression polymorphisms, suggesting trans-acting alleles with widespread transcriptional effects. Here, we have illustrated that cDNA-AFLP constitutes a powerful transcript profiling method that can be utilized for 'multifactorial genomics' analysis of any plant or animal species for which segregating populations and molecular marker maps are available.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
Arabidopsis thaliana, cDNA-AFLP, eQTL, expression phenotypes, multifactorial genomics, transcript profiling, GENOME-WIDE EXPRESSION, ARABIDOPSIS-THALIANA, FUNCTIONAL GENOMICS, CONSTRUCTION, MARKERS, SYSTEM, PLANTS, MAPS
journal title
PLANT JOURNAL
Plant J.
volume
45
issue
3
pages
439 - 446
Web of Science type
Article
Web of Science id
000234521400010
JCR category
PLANT SCIENCES
JCR impact factor
6.565 (2006)
JCR rank
6/145 (2006)
JCR quartile
1 (2006)
ISSN
0960-7412
DOI
10.1111/j.1365-313X.2005.02630.x
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
371683
handle
http://hdl.handle.net/1854/LU-371683
date created
2007-07-03 18:23:00
date last changed
2016-12-19 15:44:09
@article{371683,
  abstract     = {This study demonstrates that cDNA-AFLP is a powerful gel-based genome-scale transcript profiling technique to generate quantitative gene expression profiles for eQTL mapping. We used cDNA-AFLP to monitor the relative abundance of 912 transcripts across 50 Arabidopsis thaliana recombinant inbred lines. Estimates for heritability of cDNA-AFLP intensity polymorphisms were high, with a median of 0.30 and an interquartile range of 0.21-0.44. A total of 198 expression polymorphisms were significantly linked to specific chromosomal regions ( P {\textlangle} 0.05). Both cis- and trans-acting loci correlated with the variation in gene expression levels were found. Some of the trans-acting loci correlated to multiple expression polymorphisms, suggesting trans-acting alleles with widespread transcriptional effects. Here, we have illustrated that cDNA-AFLP constitutes a powerful transcript profiling method that can be utilized for 'multifactorial genomics' analysis of any plant or animal species for which segregating populations and molecular marker maps are available.},
  author       = {Vuylsteke, Marnik and Van Den Daele, Hilde and Vercauteren, Annelies and Zabeau, Marc and Kuiper, Martin},
  issn         = {0960-7412},
  journal      = {PLANT JOURNAL},
  keyword      = {Arabidopsis thaliana,cDNA-AFLP,eQTL,expression phenotypes,multifactorial genomics,transcript profiling,GENOME-WIDE EXPRESSION,ARABIDOPSIS-THALIANA,FUNCTIONAL GENOMICS,CONSTRUCTION,MARKERS,SYSTEM,PLANTS,MAPS},
  language     = {eng},
  number       = {3},
  pages        = {439--446},
  title        = {Genetic dissection of transcriptional regulation by cDNA-AFLP},
  url          = {http://dx.doi.org/10.1111/j.1365-313X.2005.02630.x},
  volume       = {45},
  year         = {2006},
}

Chicago
Vuylsteke, Marnik, Hilde Van Den Daele, Annelies Vercauteren, Marc Zabeau, and Martin Kuiper. 2006. “Genetic Dissection of Transcriptional Regulation by cDNA-AFLP.” Plant Journal 45 (3): 439–446.
APA
Vuylsteke, Marnik, Van Den Daele, H., Vercauteren, A., Zabeau, M., & Kuiper, M. (2006). Genetic dissection of transcriptional regulation by cDNA-AFLP. PLANT JOURNAL, 45(3), 439–446.
Vancouver
1.
Vuylsteke M, Van Den Daele H, Vercauteren A, Zabeau M, Kuiper M. Genetic dissection of transcriptional regulation by cDNA-AFLP. PLANT JOURNAL. 2006;45(3):439–46.
MLA
Vuylsteke, Marnik, Hilde Van Den Daele, Annelies Vercauteren, et al. “Genetic Dissection of Transcriptional Regulation by cDNA-AFLP.” PLANT JOURNAL 45.3 (2006): 439–446. Print.