| Bnapus {qtlbim} | R Documentation |
Cross structure for complete Brassica napus data
Description
Contains genotypes and phenotypes for Brassica napus study, including 0-
4- and 8-week vernalization, survival, and 19 chromosomes.
Usage
data(Bnapus)
Format
See read.cross in library(qtl) for format.
Details
Traits included are percent winter survival for 1992-3, 1993-4,
1994-5, 1997-8, and 1999-2000 (surv92, surv93, surv94, surv97, surv99,
respectively), and days to flowering after no vernalization (flower0),
4 weeks vernalization (flower4) or 8 weeks vernalization
(flower8). Percents are of plants alive in the Fall, taken from the
middle of rows (totals unavailable). Days to flowering after
transplant are averages over four replicates from a RCB design (values
by block unavailable). First column has the trait name. The remaining
columns identify individual DH line (302-455).
Marker genotype data for Major x Stellar double haploid (DH)
population. Double haploids have the same relation of recombination to
distance as backcrosses as there is just one meiosis tracked (in
F1). However, DH are homozygous at every locus (usually mapped as RI0
lines). Marker genotypes are coded as M = Major, S = Stellar, - =
missing. Data columns are
chrom = <em>B. napus</em> chromosome (N1, N2, etc.)
order = along chromosome
cM d= istance from proximal end
marker = marker name:
E = AFLP;
*ec, *tg, *wg = RFLP;
*xxx = other markers from Arabidopsis:
Lem, eru1, eru2, fad3, isoDia, isoIdh, isoPgi, isoLap, pr2, slg6, Aca1, cor15
Remaining columns are for individual DH lines (identifier 302-455).
Source
Thomas C. Osborn (mailto:tcosborn@facstaff.wisc.edu), Department of Agronomy,
UW-Madison (http://agronomy.wisc.edu).
References
http://www.stat.wisc.edu/~yandell/qtl/data/osborn/Bnapus
Ferreira ME, Satagopan J, Yandell BS, Williams PH, Osborn TC
(1995) Mapping loci controlling vernalization requirement and
flowering time in Brassica napus. Theor Appl Genet
90: 727-732. [original source and analysis]
JM Satagopan, BS Yandell, MA Newton and TC Osborn (1996)
Markov chain Monte Carlo approach to detect polygene loci
for complex traits. Genetics 144: 805-816.
http://www.genetics.org/cgi/content/abstract/144/2/805
[first MCMC for experimental crosses; analysis of B. napus N2=LG9; see
vern data]
Kole C, Thorman CE, Karlsson BH, Palta JP, Gaffney P, Yandell
BS, Osborn TC (2001)
Comparative mapping of loci controlling winter survival and
related traits in oilseed Brassica rapa and B. napus.
Molecular Breeding 1: 329-339. [refined map and reanalysis]
See Also
read.cross,plot.qb
Examples
data(Bnapus)
summary(Bnapus)
[Package
qtlbim version 1.8.1
Index]