ICARDA's Research Portfolio


ICARDA's Research Portfolio

Theme 1. Crop Germplasm Enhancement
Project 1.2. Durum Wheat Germplasm Improvement for Increased Productivity, Yield Stability and Grain Quality in West Asia and North Africa
 

Over the years, the CIMMYT/ICARDA durum project has made steady progress in breeding durum wheat for increased productivity, yield stability and grain quality. In 2002, major advances were made in identifying and genetically mapping both the quantitative trait loci (QTLs) which control two traits influencing the milling quality of durum wheat, and the QTLs that control protein content. In total, 13 QTLs were identified, and strong QTL x environment interactions were detected for protein content in particular. These QTLs will be used in marker-assisted selection for these traits, a process that is more efficient than conventional selection.

New QTLs for milling-quality traits identified and mapped

The grain of durum wheat (Triticum turgidum L. var durum) is used to produce economically important foods (such as pasta, couscous, and burghul). Therefore, grain qualities which aid in milling and processing are being selected for. To increase the efficiency of conventional empirical breeding efforts, the CIMMYT/ICARDA durum project has produced a genetic linkage map of durum wheat. In 2002, scientists focused on identifying and mapping quantitative trait loci (QTLs) for the milling-quality traits of test weight (TW, hecto-liter weight) and 1000-kernel weight (TKW). A high TKW is desirable for easy processing and milling; and, high TKWs and TWs are both associated with the production of high quality semolina.


CIMMYT/ICARDA Durum Wheat Breeder, Dr Miloudi Nachit (pointing to the screen) and his colleague score molecular markers linked to durum grain quality for use in the marker-assisted breeding program.

     A special mapping population (Omrabi5/ Triticum dicoccoides600545//Omrabi5, referred to as MDM), derived from an improved durum variety ('Omrabi5') and a wild relative of wheat (Triticum dicoccoides), was developed in order to study grain quality. The backcross made with the durum variety resulted in recombinant inbred lines (RILs) which were agronomically suitable for multilocational testing, i.e. the 18 environments in which the population was subsequently grown. The markers used in mapping were microsatellites, amplified fragment length polymorphisms (AFLPs), and seed storage proteins. The mapping analysis identified 14 chromosomal groups and an un-assigned group referred to here as g15.

     Researchers found that the mean TKW of the RILs was, over all environments, 29.9 g, while the means for the parents ('Omrabi5' and T. dicoccoides600545) were 32.1 and 28.6 g, respectively. The chromosomal regions that control kernel weight were found to be on chromosomes 3B, 4B, and 6B; these regions showed QTL x environment interactions (QTL x E; Fig. 4). The major contribution to the kernel weight was made by two areas on chromosome 6B, linked to the markers Xgwm518 on the short arm and Xgwm582a on the long arm. The locus identified on chromosome 4B corresponded with the marker XMcttEagg213. Using regression models on the interaction peaks in 3B, two markers were selected as being the best contributors (XMctcEaag350 on the short arm and XMctcEagg84 on the long arm).


Fig. 4. Kernel weight scan for QTL main effect (top axis) and QTL x environment interaction (bottom axis). The 14 MDM chromosomes and g15 are shown from left to right (starting with short arm). Horizontal lines show thresholds with 5000 permutations. Arrows show positions of QTLs.

     The five kernel-weight QTLs detected explained 32% of the total variation in kernel weight, 25% of it was due to genetic variation. The major QTLs were located around the centromeric region of 6B (28% due to genetic variation), whereas the other QTLs (on 3BS, 3BL, and 4BL) showed additive minor effects (Table 3). These findings agree with earlier studies which reported an intermediate to high heritability rate for TKW and indicated a high additive genetic effect.
     'Omrabi5' alleles had a significant positive effect on the TKW trait (Fig. 4). In general, this positive effect was consistent across environments, especially through the QTLs on 6B. The QTL x E interaction effects of Xgwm582a and Xgwm518 were mainly due to changes in TKW values in different environments, whilst the QTL x E interactions of XMctcEaag350, XMctcEagg84, and XMcttEagg213 were due to crossover interactions.
Table 3. Detected QTLs for 1000-kernel weight (TKW) and test weight (TW).
Trait
Chromosomal
Localization
QTL marker
cM
Vg/Vph
Vg + VQTLxE / Vph
TKW
3BS
XmctcEaag350
0
 3
 5
3BL
XmctcEagg84
0
 3
 5
4BL
XMcttEagg213
5
 2
 3
6BS
Xgwm518
0
12
13
6BL
Xgwm582a
5
20
22
Total exp.*
   25%
   32%
TW
6BS
Xgwm88a
0
 9
 9
7AS
Xgwm60c
0
17
17
Total*
   29%
   30%
Vg = genetic variance; VQTLxE = QTLxE variance; Vph = phenotypic variance. *Total explained variation.

     The mean test weight for the recombinant inbred lines was 72.4 g (ranging from 66.6 g to 77.6 g), whereas the means for the parents ('Omrabi5' and T. dicoccoides600545) were 79.2g and 70.6 g, respectively. Test weights from all environments closely followed the normal distribution. The main chromosomal regions controlling the test weight in durum were found on chromosomes 7A and 6B. Across this 6B genomic region, Xgwm88a on 6BS was selected as the QTL for the test weight trait; this explained 9% of total variation in test weight. The other QTL identified for test weightXgwm60c on 7ASexplained 17% of the total variation observed. These findings are in agreement with earlier studies showing a high genotypic effect on test weight.  

     'Omrabi5' alleles had a consistent, significant and positive effect on the TW trait, with small magnitude changes occurring between different environments (Fig. 5). This positive effect was expected, as the wild relatives of wheat are known to have grains that are smaller and more shriveled than those of cultivated wheat.
     The fairly saturated genetic linkage map of durum, produced by the CIMMYT/ICARDA dryland durum breeding program, has confirmed both the usefulness of the two techniques used (SSRs and AFLPs) and their complementarities. Despite the backcross made to develop the population MDM, a high level of polymorphism was detected between the T. dicoccoides accession and the durum variety used ('Omrabi5'), suggesting a large genetic distance between them. The population Omrabi5/Triticum

Fig. 5. Test weight scan for QTL main effect (top axis) and QTL ´ environment interaction (bottom axis). The 14 MDM chromosomes and g15 are shown from left to right (starting with short arm). Horizontal lines show thresholds with 5000 permutations. Arrows show positions of QTLs.

dicoccoides600545//Omrabi5, and the genetic map constructed by researchers, will be used as the basis for the future detection of QTLs linked to other grain-quality traits, as well as to other agronomic, physiological, and biotic traits. The mapping population may also be of help when assessing environmental impacts on trait expression, as it is already genetically fixed.
     For TW and TKW, the QTLs determined here will be validated using populations with diverse genetic backgrounds and will be used in marker-assisted breeding. Consequently, researchers will be able to conduct selection at the genetic level, rather than having to rely on the phenotypic expression of these traits.

Protein-content QTLs and their inter-actions with different environments

Protein content is a major grain-quality trait controlled by a complex genetic system and strongly influenced by environmental factors. The major influences on grain crude protein concentration are environmental in nature (for example, rainfall and soil nitrogen levels). Triticum dicoccoides, a wild relative of wheat, is used as a source of genes for high protein content, so this species was used to breed a specific mapping population (Omrabi5/ Triticum dicoccoides600545//Omrabi5) for use in recent grain-quality studies. These studiespart of the CIMMYT/ICARDA Mediterranean durum programaimed to determine the QTLs linked to protein content in durum, and to assess the QTL x environment (QTL x E) effect. A genetic linkage map for the mapping population was constructed using three types of markers: microsatellites, AFLPs, and seed storage protein components. The recombinant inbred lines (RILs) derived from the mapping population were planted in 18 different environments; their grain protein contents were measured at harvest.

 
     The mean protein content for the mapping population overall was 17.1%; individual values ranged from 10.6% to 23.5%. The RILs with the highest values exceeded the protein content of the improved durum variety 'Omrabi5,' which indicates the successful introgression of genes for high protein content into durum. With regard to QTLs, researchers identified two markers on 6BS: Xgwm518 and XMcaaEacg560 (close to the centromere). Two more protein-content QTLs were localized on 3BS (XMcttEaag140 and Xgwm154d) and one more on 4BL (Xgwm107). On chromosome 6A, b-gli69 (Gli-A2) was identified as having genetic and interaction effects. The six detected QTLs, in total, explained 27% of the total variation observed in protein
 

Fig. 6. QGene multiplot of protein content in the 18 environments studied, on chromosome 6B, based on a simple regression (LOD = Logarithm of Odds).
content (Table 4). All the QTLs stemmed from T. dicoccoides and had a significant positive effect on protein content. The strong effects of the T. dicoccoides alleles and the different environments were large in magnitude (Fig. 6). The markers Xgwm518 and XMcaaEacg560 on 6BS each explained 14% of total variation, while Xgwm107 on 4BL explained 12%; XMcttEaag140 and Xgwm154d on 3BS explained 6% and 5%, respectively (Table 4). All QTLs showed QTL x E interaction effects.
Table 4. Detected QTLs for protein.
Chromosomal
localization
QTL marker
cM
Vg/Vph
Vg + VQTLxE
/ Vph
3BS XMcttEaag140
0
 5
 6
3BL Xgwm154d
5
 4
 5
4BL Xgwm107
0
11
12
6AS Gli-A2
0
 4
 5
6BS Xgwm518
0
12
14
6BS XMcaaEacg560
0
12
14
Total explanation (R2)
   20%
   27%
Vg = genetic variance; VQTLxE = QTLxE variance; Vph = phenotypic variance.
     Because the most important genomic region controlling protein content was on 6BS, fine mapping is planned to saturate this region. In addition, because protein content is highly affected by environmental fluctuations, marker-assisted selection using protein-content QTLs will be more efficient than empirical selection.
Theme 1 Project 1.3