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 1.6.5 Index]