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Discovering transgenic elite events: using information from early screening trials for improving experimental design

J De Wolf, Luc Duchateau UGent, G Verbeke and E Schrevens (2010) JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS. 15(3). p.403-415
abstract
The transgenic improvement of a commercial crop requires a suitable transgene as well as a suitable insertion location in the crop's genome. An elite event is a successful insertion of an active transgene, and many events need to be screened to detect such elite events. This is expensive, hence optimization is needed. The screening of events in a commercial crop is usually preceded by the screening of genes in an easily transformable test plant, either a non-commercial variety of the crop or another species. This first phase mainly aims at discovering active genes. The results from the first phase can also be utilized to predict the probability of finding elite events with similar or larger effects in the commercial crop, making use of estimated variance components in the mixed model framework. The theoretical relationship between these variance components and the probability to discover in the second phase an event with an effect of a predefined magnitude is studied. The consequences of having to estimate the variance components from a first phase experiment are studied through simulations. These show that, in order to be useful to assist in the design of the second phase, the first phase should involve a large number of events, typically more than 30. The number of events is much more important than the number of plants within an event. The approach is applied to real data obtained in a commercial screening facility.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
VARIABILITY, Gene screening, Insertion variability, Mixed models, Transgenic crop improvement, Somaclonal variance, Variance components
journal title
JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS
J. Agric. Biol. Environ. Stat.
volume
15
issue
3
pages
403 - 415
Web of Science type
Article
Web of Science id
000284912600008
JCR category
STATISTICS & PROBABILITY
JCR impact factor
0.722 (2010)
JCR rank
67/110 (2010)
JCR quartile
3 (2010)
ISSN
1085-7117
DOI
10.1007/s13253-010-0022-x
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
1235113
handle
http://hdl.handle.net/1854/LU-1235113
date created
2011-05-24 21:27:10
date last changed
2016-12-19 15:44:49
@article{1235113,
  abstract     = {The transgenic improvement of a commercial crop requires a suitable transgene as well as a suitable insertion location in the crop's genome. An elite event is a successful insertion of an active transgene, and many events need to be screened to detect such elite events. This is expensive, hence optimization is needed.
The screening of events in a commercial crop is usually preceded by the screening of genes in an easily transformable test plant, either a non-commercial variety of the crop or another species. This first phase mainly aims at discovering active genes. The results from the first phase can also be utilized to predict the probability of finding elite events with similar or larger effects in the commercial crop, making use of estimated variance components in the mixed model framework. The theoretical relationship between these variance components and the probability to discover in the second phase an event with an effect of a predefined magnitude is studied. The consequences of having to estimate the variance components from a first phase experiment are studied through simulations. These show that, in order to be useful to assist in the design of the second phase, the first phase should involve a large number of events, typically more than 30. The number of events is much more important than the number of plants within an event. The approach is applied to real data obtained in a commercial screening facility.},
  author       = {De Wolf, J and Duchateau, Luc and Verbeke, G and Schrevens, E},
  issn         = {1085-7117},
  journal      = {JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS},
  keyword      = {VARIABILITY,Gene screening,Insertion variability,Mixed models,Transgenic crop improvement,Somaclonal variance,Variance components},
  language     = {eng},
  number       = {3},
  pages        = {403--415},
  title        = {Discovering transgenic elite events: using information from early screening trials for improving experimental design},
  url          = {http://dx.doi.org/10.1007/s13253-010-0022-x},
  volume       = {15},
  year         = {2010},
}

Chicago
De Wolf, J, Luc Duchateau, G Verbeke, and E Schrevens. 2010. “Discovering Transgenic Elite Events: Using Information from Early Screening Trials for Improving Experimental Design.” Journal of Agricultural Biological and Environmental Statistics 15 (3): 403–415.
APA
De Wolf, J, Duchateau, L., Verbeke, G., & Schrevens, E. (2010). Discovering transgenic elite events: using information from early screening trials for improving experimental design. JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS, 15(3), 403–415.
Vancouver
1.
De Wolf J, Duchateau L, Verbeke G, Schrevens E. Discovering transgenic elite events: using information from early screening trials for improving experimental design. JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS. 2010;15(3):403–15.
MLA
De Wolf, J, Luc Duchateau, G Verbeke, et al. “Discovering Transgenic Elite Events: Using Information from Early Screening Trials for Improving Experimental Design.” JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS 15.3 (2010): 403–415. Print.