Sorghum, an African grass related to sugar cane and maize, is grown for food, feed, fibre and fuel. We present an initial analysis of the approximately 730-megabase Sorghum bicolor (L.) Moench genome, placing approximately 98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information. Genetic recombination is largely confined to about one-third of the sorghum genome with gene order and density similar to those of rice. Retrotransposon accumulation in recombinationally recalcitrant heterochromatin explains the approximately 75% larger genome size of sorghum compared with rice. Although gene and repetitive DNA distributions have been preserved since palaeopolyploidization approximately 70 million years ago, most duplicated gene sets lost one member before the sorghum-rice divergence. Concerted evolution makes one duplicated chromosomal segment appear to be only a few million years old. About 24% of genes are grass-specific and 7% are sorghum-specific. Recent gene and microRNA duplications may contribute to sorghum's drought tolerance.

Drought stress during the reproductive stage is one of the most important environmental factors reducing the grain yield and yield stability of pearl millet. A QTL mapping approach has been used in this study to understand the genetic and physiological basis of drought tolerance in pearl millet and to provide a more-targeted approach to improving the drought tolerance and yield of this crop in water-limited environments. The aim was to identify specific genomic regions associated with the enhanced tolerance of pearl millet to drought stress during the flowering and grain-filling stages. Testcrosses of a set of mapping-population progenies, derived from a cross of two inbred pollinators that differed in their response to drought, were evaluated in a range of managed terminal drought-stress environments. A number of genomic regions were associated with drought tolerance in terms of both grain yield and its components. For example, a QTL associated with grain yield per se and for the drought tolerance of grain yield mapped on linkage group 2 and explained up to 23% of the phenotypic variation. Some of these QTLs were common across stress environments whereas others were specific to only a particular stress environment. All the QTLs that contributed to increased drought tolerance did so either through better than average maintenance (compared to non-stress environments) of harvest index, or harvest index and biomass productivity. It is concluded that there is considerable potential for marker-assisted backcross transfer of selected QTLs to the elite parent of the mapping population and for their general use in the improvement of pearl millet productivity in water-limited environments.

Yadav, R. S., Hash, C. T., Bidinger, F. R., Devos, K. M., Howarth, C. J. (2004). Genomic regions associated with grain yield and aspects of post-flowering drought tolerance in pearl millet across stress environments and tester background. Euphytica, 136 (3), 265-277. Sponsorship: DfID R7375A pearl millet mapping population from a cross between ICMB841 and 863B was studied for DNA polymorphism to construct a genetic linkage map, and to map genomic regions associated with grain and stover yield, and aspects of drought tolerance. To identify genomic regions associated with these traits, mapping population testcrosses of 79 F3 progenies were evaluated under post-flowering drought stress conditions over 2 years and in the background of two elite testers. A significant genotype ? drought stress treatment interaction was evident in the expression of grain and stover yield in drought environments and in the background of testers over the 2 years. As a result of this, genomic regions associated with grain and stover yield and the aspects of drought tolerance were also affected: some regions were more affected by the changes in the environments (i.e. severity and duration of drought stress) while others were commonly identified across the drought stress environments and tester background used. In most instances, both harvest index and panicle harvest index co-mapped with grain yield suggesting that increased drought tolerance and yield of pearl millet that mapped to these regions was achieved by increased partitioning of dry matter from stover to the grains. Drought stress treatments, years and testers interactions on genomic regions associated with grain and stover yield of pearl millet are discussed, particularly, in reference to genetic improvement of drought tolerance of this crop using marker-assisted selection.Peer reviewe

BackgroundPearl millet [Pennisetum glaucum (L.) R. Br.] is a widely cultivated drought- and high-temperature tolerant C4 cereal grown under dryland, rainfed and irrigated conditions in drought-prone regions of the tropics and sub-tropics of Africa, South Asia and the Americas. It is considered an orphan crop with relatively few genomic and genetic resources. This study was undertaken to increase the EST-based microsatellite marker and genetic resources for this crop to facilitate marker-assisted breeding.ResultsNewly developed EST-SSR markers (99), along with previously mapped EST-SSR (17), genomic SSR (53) and STS (2) markers, were used to construct linkage maps of four F7 recombinant inbred populations (RIP) based on crosses ICMB 841-P3 × 863B-P2 (RIP A), H 77/833-2 × PRLT 2/89-33 (RIP B), 81B-P6 × ICMP 451-P8 (RIP C) and PT 732B-P2 × P1449-2-P1 (RIP D). Mapped loci numbers were greatest for RIP A (104), followed by RIP B (78), RIP C (64) and RIP D (59). Total map lengths (Haldane) were 615 cM, 690 cM, 428 cM and 276 cM, respectively. A total of 176 loci detected by 171 primer pairs were mapped among the four crosses. A consensus map of 174 loci (899 cM) detected by 169 primer pairs was constructed using MergeMap to integrate the individual linkage maps. Locus order in the consensus map was well conserved for nearly all linkage groups. Eighty-nine EST-SSR marker loci from this consensus map had significant BLAST hits (top hits with e-value ≤ 1E-10) on the genome sequences of rice, foxtail millet, sorghum, maize and Brachypodium with 35, 88, 58, 48 and 38 loci, respectively.ConclusionThe consensus map developed in the present study contains the largest set of mapped SSRs reported to date for pearl millet, and represents a major consolidation of existing pearl millet genetic mapping information. This study increased numbers of mapped pearl millet SSR markers by >50%, filling important gaps in previously published SSR-based linkage maps for this species and will greatly facilitate SSR-based QTL mapping and applied marker-assisted selection programs.

Abstract. A stay-green phenotype enhances the adaptation of sorghum to terminal drought conditions, although the underlying physiological mechanisms leading to the expression of stay-green remain unclear. Differences in tillering and leaf area at anthesis, transpiration efficiency (TE), water extraction, harvest index (HI) and yield under both terminal drought and fully-irrigated conditions were assessed in 29 introgression lines (IL) developed targeting stay-green QTLs Stg1, Stg2, Stg3, Stg4, StgA, and StgB in S35 background, and 16 IL developed targeting Stg1, Stg3, Stg4, and StgB in R16

Background and aim Intuitively, access to water from the soil at key phenological stages is important for adaptation to drought. This study aimed to assess the temporal pattern of water extraction under terminal drought stress. Methods Pearl millet genotypes with varying levels of terminal drought tolerance were grown in a lysimetric system with a soil volume and plant spacing similar to field conditions. Water extraction was monitored until maturity under differing water regimes. Results The yield did not differ among genotypes under well-watered (WW) conditions, and the water extraction profile of WW plants was similar across all genotypes. In contrast, the yield of sensitive genotypes was 30-100 % lower than that of tolerant lines under water stress (WS). The total volumes of water extracted by tolerant and sensitive genotypes were similar under WS; however, tolerant genotypes extracted less water prior to anthesis, and more water after anthesis. Grain yield was positively related to the amount of water extracted during week three after panicle emergence. Increased water extraction after anthesis benefitted the tillers more than the main culm and was correlated with higher staygreen scores. Conclusion Increased water uptake after anthesis, which results from earlier water conservation during pre-anthesis, increases yield under terminal drought in pearl millet.

Reduced leaf senescence (stay-green) has been demonstrated to improve tolerance of post-Xowering moisture stress in grain sorghum. A number of quantitative trait loci (QTLs) associated with staygreen have been identiWed in sorghum, to facilitate transfer of this trait into adapted genetic backgrounds. This study reports initial evaluations, in both well watered and post-Xowering stress environments, following partial introgression (BC 2 F 3 /BC 1 F 4 generations) of four stable stay-green QTLs (StgB, Stg1, Stg3 and Stg4) from donor parent B35 to senescent variety R 16. The majority of the introgression lines had higher leaf chlorophyll levels at Xowering (a distinctive trait of the donor parent) and a greater percentage green leaf area during the latter part of grain Wlling, than did R 16, indicating that the stay-green QTLs were expressed phenotypically in the R 16 background. None of the QTL introgression lines achieved the same level of stay-green as B35, however.Maintenance of a greater relative green leaf area during the latter half of grain Wlling was related to a greater relative grain yield in two of three post-Xowering moisture deWcit environments in which the materials were evaluated (r 2 = 0.34 in 2004-2005 and r 2 = 0.76 in [2005][2006], as was a direct measure of leaf chlorophyll in one of the post-Xowering stress environments in which this was measured (r 2 = 0.42, P < 0.05). Thus the study provided useful evidence that the marker-assisted backcross transfer of staygreen QTLs from B35 into an adapted, but senescent background has the potential to enhance tolerance of post-Xowering drought stress in sorghum.

Sorghum is well adapted to water-limited conditions, but the traits responsible for this enhanced adaptation under drought conditions remain unclear. In this study, yield, transpiration efficiency (TE) and water extraction were assessed in 149 germplasm entries from the sorghum reference set (plus three control cultivars) using a lysimetric system under terminal water stress and fully irrigated conditions outdoors. A 10-fold range for grain yield and harvest index (HI), 2-fold range for TE and a 1.25-fold variation for water extraction were observed under terminal water stress conditions. Transpiration efficiency and water extraction under water stress related poorly to that under fully irrigated conditions, reflecting a large genotype-by-water treatment interaction. Under drought stress, total water extraction varied by ~3 L plant–1 among germplasm. Entries from the Durra race had highest water extraction capacity, whereas Caudatum-Bicolor and Caudatum-Durra intermediate races had poor water extraction. Durra, Caudatum and Caudatum-Guinea races had highest TE, whereas the Guinea race had the lowest. Although yield was closely related to HI, at any level of HI there were substantial yield differences that remained unexplained, and these residual yield variations were closely related to TE (R2 = 0.60). Similarly, substantial yield variations that were still not explained by HI or TE were closely related to the total water extracted under water stress (R2 = 0.35). A multilinear regression analysis confirmed these results and showed the importance of water extraction during grain filling. Therefore, next to HI, the yield differences under terminal drought in sorghum were driven by TE, and then next by water extraction. The large genetic variation for TE and water extraction offer great breeding opportunities and in particular, highlight the Durra race as a critical source of variation.