Table 2 |
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|
QTL mapping results based on Kruskal-Wallis (KW) and Multiple-QTL Model mapping (MQM) analysis |
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|
KW |
MQM |
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|
|
|
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|
Experiment |
QTL |
LG† |
QTL interval |
Consensus LG and map position (cM)† |
Marker closest to QTL peak |
Significance level |
LOD |
LOD threshold |
R2 |
Marker annotation |
|
|
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|
Riverside 2007 |
Mac-1 |
2 |
5.2 - 21.8 |
2 (77.4) |
1_0709 |
0.01 |
1.77 |
2.0 |
14.5 |
MATE efflux family protein |
|
Greenhouse 1 |
Mac-1 |
2 |
6.8 - 21.8 |
2 (75.2) |
1_0551 |
0.005 |
2.74 |
2.0 |
20.9 |
Endo-xyloglucan transferase |
|
Greenhouse 2 |
Mac-1 |
2 |
5.2 - 21.8 |
2 (77.4) |
1_0709 |
0.05 |
1.82 |
2.0 |
14.4 |
MATE efflux family protein |
|
Riverside 2006 |
Mac-2 |
3 |
8.1 - 25.9 |
3 (1.3) |
1_0853 |
0.001 |
3.11 |
2.1 |
26.5 |
Pectin esterase inhibitor |
|
Riverside 2007 |
Mac-2 |
3 |
8.1 - 25.9 |
3 (1.3) |
1_0853 |
0.0001 |
5.76 |
2.1 |
40.0 |
Pectin esterase inhibitor |
|
Riverside 2008 |
Mac-2 |
3 |
8.1 - 25.9 |
3 (1.3) |
1_0853 |
0.005 |
1.73 |
2.1 |
8.0 |
Pectin esterase inhibitor |
|
Greenhouse 1 |
Mac-2 |
3 |
8.1 - 25.9 |
3 (1.3) |
1_0853 |
0.005 |
1.45 |
2.1 |
11.6 |
Pectin esterase inhibitor |
|
Riverside 2006 |
Mac-3 |
3 |
68.3 - 84.2 |
3 (42.3) |
1_0604 |
0.005 |
1.24 |
2.1 |
10.6 |
Pectin acetylesterase precursor |
|
Riverside 2007 |
Mac-3 |
3 |
58.2 - 84.2 |
3 (42.3) |
1_0604 |
0.005 |
1.16 |
2.1 |
9.7 |
Pectin acetylesterase precursor |
|
Riverside 2006 |
Mac-4¶ |
3 |
109.0 - 116.2 |
3 (64.2) |
1_0464 |
0.05 |
1.61 |
2.1 |
13.3 |
Ribosomal protein L7Ae |
|
Riverside 2007 |
Mac-4¶ |
3 |
109.0 - 116.2 |
3 (63.0) |
1_0201 |
0.05 |
1.18 |
2.1 |
9.9 |
Cell growth defect factor 1 |
|
Riverside 2008 |
Mac-4¶ |
3 |
97.9 - 116.2 |
3 (63.0) |
1_0201 |
0.05 |
1.21 |
2.1 |
6.1 |
Cell growth defect factor 1 |
|
Riverside 2006 |
Mac-5 |
11 |
6.1 - 14.4 |
3 (-) |
ACA-CAT13‡ |
0.005 |
2.26 |
1.5 |
18.1 |
- |
|
Riverside 2007 |
Mac-5 |
11 |
6.1 - 14.4 |
3 (70.8) |
1_0079 |
0.01 |
1.22 |
1.5 |
10.3 |
CA2+- binding protein 1 |
|
Riverside 2008 |
Mac-5 |
11 |
9.1 - 13.9 |
3 (74.0) |
1_0496 |
0.1 |
1.40 |
1.5 |
6.7 |
MLP-like protein 423 |
|
Riverside 2006 |
Mac-6 |
5 |
17.2 - 23.2 |
4 (57.5) |
1_0699 |
0.01 |
2.27 |
2.1 |
18.2 |
Tropine dehydrogenase |
|
Riverside 2007 |
Mac-6 |
5 |
8.9 - 23.2 |
4 (59.3) |
1_0804 |
0.005 |
1.99 |
2.1 |
16.2 |
Light harvesting complex PSII |
|
Riverside 2008 |
Mac-6 |
5 |
7.4 - 20.5 |
4 (-) |
ACT-CAT8 |
0.05 |
1.61 |
2.1 |
7.7 |
- |
|
Riverside 2006 |
Mac-7 |
5 |
31.8 - 49.1 |
4 (41.0) |
1_0678 |
0.01 |
2.44 |
2.1 |
19.4 |
UDP-glycosyltransferase |
|
Riverside 2007 |
Mac-7 |
5 |
27.5 - 49.1 |
4 (41.0) |
1_0678 |
0.0005 |
2.44 |
2.1 |
19.4 |
UDP-glycosyltransferase |
|
Riverside 2008 |
Mac-7 |
5 |
41.2 - 53.8 |
4 (34.2) |
1_0153 |
0.0005 |
2.91 |
2.1 |
13.3 |
lipase class 3 family protein |
|
Riverside 2006 |
Mac-8 |
6 |
28.4 - 40.0 |
5 (-) |
AAG-CTC9 |
0.005 |
2.20 |
2.1 |
18.0 |
- |
|
Riverside 2007 |
Mac-8 |
6 |
27.9 - 43.3 |
5 (29.7) |
1_0030 |
0.05 |
1.01 |
2.1 |
8.6 |
60S ribosomal protein L10 |
|
Riverside 2008 |
Mac-8 |
6 |
29.8 - 41.2 |
5 (29.7) |
AAG-CTC9 |
0.005 |
2.64 |
2.1 |
12.1 |
- |
|
Greenhouse 1 |
Mac-8 |
6 |
36.1 - 44.5 |
5 (29.7) |
1_0030 |
0.05 |
1.23 |
2.1 |
9.9 |
60S ribosomal protein L10 |
|
Riverside 2008 |
Mac-9 |
6 |
53.5 - 63.2 |
5 (44.6) |
1_0032 |
0.005 |
2.12 |
2.1 |
12.1 |
Protein transport protein SEC61 |
|
Greenhouse 1 |
Mac-9 |
6 |
53.5 - 71.4 |
5 (40.9) |
1_1533 |
0.05 |
1.29 |
2.1 |
10.4 |
Integral membrane Yip1 family protein |
|
Greenhouse 2 |
Mac-9 |
6 |
53.5 - 70.7 |
5 (40.9) |
1_1533 |
0.05 |
1.01 |
2.1 |
8.3 |
Integral membrane Yip1 family protein |
|
|
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|
† LG = IT93K-503-1 × CB46 RIL population linkage group based on AFLP + SNP map, Consensus LG = corresponding linkage group in the cowpea consensus genetic map, consensus map position represents position of the marker closest to the QTL peak based on mapping in the RIL population ‡ cM position on the consensus map and annotations for AFLP markers were not determined ¶ Mac-4 was included as a suggestive QTL since it did not meet the significance thresholds in either the Kruskal-Wallis or MQM analysis |
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|
Muchero et al. BMC Genomics 2011 12:8 doi:10.1186/1471-2164-12-8 |
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