USDA ARS VCRU Data Server This web site, https://www.vcru.wisc.edu/sdata, contains data from the laboratory of Philipp W. Simon, USDA-ARS Vegetable Crops Research Unit [Click here for our web page] |
Return to B493×QAL v.3 map main page
The data used in making this map is in the following files:
The most complete single file for 493×QAL, a consolidated copy with ALL data for ALL markers up to Darek's map, is 493xQAL-Complete.xls
(Note that the marker GGGCAA097-Q was still in this file twice, but now it contains two copies of GGGCAA097-Q[1])
This version created Nov 2007 has some errors in Darek's names indicated in red 493xQAL-MoreComplete.xls
Text files with the linkage map data.
March 17, 2010: These files have notations added for the 6 errors
in names as listed in the errata,
and have been flipped when necessary to match the published map orientation:
(From the publication)
Polymorphic DcMTD products were used to saturate the existing genetic linkage map of the F2 population QAL × B493 (Santos and Simon, 2002; Just, 2004). Separate maps were constructed for each parent to avoid problems related to the use of repulsion phase dominant markers, as described previously (Santos and Simon, 2004). The maps were constructed with MAPMAKER 3.0 (Lander et al., 1987). Dominant markers from a single parent linked in coupling were used in conjunction with all codominant markers. The ‘two point’ command was used to establish linkage groups at LOD=4.0. Three point analysis was then performed for each linkage group followed by the ‘order’ command. Remaining markers were added using the ‘try’ command. To test whether the mapped DcMTD markers were evenly distributed among the nine linkage groups, we used a χ2 test for goodness of fit,where the expected number ofmarkers per linkage group was estimated from the proportion of the linkage group length related to the total length of the corresponding map.
Marker Information for AFLPs and some other previously mapped markers is here
Carotenoid genes and Y2mark are here
The Rs marker is described in procol MK000012
Table 1. Number of products amplified using the DcMaster Transposon Display system from the wild x cultivated F2 (QALxB493) carrot population with primers carrying different combinations of selective nucleotides
Selective nucleotides | Number of amplicons | Number of sequenced products | ||
Total | Polymorphic | Total | Specific | |
ACA | 8 | 8 | 7 | 6 |
ACT | 9 | 9 | 8 | 6 |
AGT | 10 | 7 | 4 | 3 |
CTA | 5 | 4 | 5 | 4 |
GTA | 10 | 7 | 4 | 4 |
CAT | 7 | 7 | 7 | 7 |
GAT | 12 | 7 | 6 | 5 |
CTT | 8 | 8 | 4 | 4 |
GTT | 10 | 7 | 5 | 5 |
CAA | 9 | 7 | 6 | 5 |
GAA | 12 | 9 | 5 | 5 |
AGA | 9 | 7 | - | - |
CAG | 8 | 6 | - | - |
TCA | 13 | 8 | - | - |
TGT | 8 | 5 | - | - |
Total | 138 | 106 | 61 | 54 |