Cofolding organizes alfalfa mosaic virus RNA and coat protein for replication

Alfalfa mosaic virus genomic RNAs are infectious only when the viral coat protein binds to the RNA 3' termini. The crystal structure of an alfalfa mosaic virus RNA-peptide complex reveals that conserved AUGC repeats and Pro-Thr-x-Arg-Ser-x-x-Tyr coat protein amino acids cofold upon interacting. Alternating AUGC residues have opposite orientation, and they base pair in different adjacent duplexes. Localized RNA backbone reversals stabilized by arginine-guanine interactions place the adenosines and guanines in reverse order in the duplex. The results suggest that a uniform, organized 3' conformation, similar to that found on viral RNAs with transfer RNA-like ends, may be essential for replication.     

Molecular markers for improving control of soil-borne pathogen <Emphasis Type="Italic">Fusarium oxysporum</Emphasis> in sugar beet

Fusarium spp. cause severe damage in many agricultural crops, including sugar beet, with Fusarium oxysporum historically being considered as the most damaging of all species. Sugar beet needs to be protected from this class of soil-borne pathogens in order to ensure an optimal sugar yield in the field. Genetic control of the disease is crucial in managing these pathogens. Identification of single nucleotide polymorphism (SNP) markers linked to resistance can be a powerful tool for the introgression of valuable genes needed to develop Fusarium-resistant varieties. A candidate gene approach was carried out to identify SNP markers linked to putative Fusarium resistance sources in sugar beet. Five resistant analogue genes (RGAs) were screened by means of high resolution melting (HRM) analysis in a set of sugar beet lines, considered as resistant and susceptible to Fusarium oxysporum. HRM polymorphisms were observed in 80% of amplicons. Two HRM polymorphisms were significantly associated with Fusarium resistance (P < 0.05). The amplicons that showed association were sequenced and two SNPs were identified. The association was further validated on 96 susceptible and 96 resistant plants using competitive allele-specific PCR (KASPar) technology. The selected SNPs could be used for marker-assisted breeding of Fusarium resistance in sugar beet.     

Characterizing Submergence Survival Strategy in Rice Via Chlorophyll Fluorescence

Rice plants cope with flash floods using either an ‘escape strategy’ involving rapid shoot elongation or a ‘quiescence strategy’ involving survival underwater with minimal activity. To clarify the differences in the response of leaf photosynthesis properties to conditions during and after submergence, two rice cultivars were compared: a non‐shoot‐elongating cultivar IR 67520‐B‐14‐1‐3‐2‐2 (IR67520) and a shoot‐elongating cultivar IR72442‐6B‐3‐2‐1‐1 (IR72442). Twenty‐three‐day‐old seedlings were submerged in 80‐cm‐deep water for 14 days. During submergence, the chlorophyll contents of the upper fully expanded leaf (5th leaf) and newly developed leaf later (6th leaf) and the maximal quantum yield of photosystem II (F_v/F_m) of the fifth leaf decreased earlier in IR72442 than in IR67520. In the submerged sixth leaf, F_v/F_m was higher in IR72442 than in IR67520 at early measurement. Although F_v/F_m of the sixth leaf in submerged IR67520 increased substantially from 2 days post‐submergence, IR72442 decreased because of leaf chlorosis. Therefore, a non‐shoot‐elongating cultivar coped with submergence by inhibiting photodamage and maintaining high chlorophyll content in the leaves. The shoot‐elongating cultivar was able to maintain the photosynthetic capacity of the newly developed leaf during submergence by prompt reduction of chlorophyll and chlorophyll fluorescence in the leaf that developed before submergence.     

‘Water war’ in the Mekong Basin?

The Mekong River system provides a crucial source of natural resources for riparian nations. However, the increasingly rapid pace of hydro‐development in the Mekong Basin is threatening the integrity of the river system, posing a real concern for Lower Basin states, which are particularly dependent on the basin. This scenario has led to warnings of armed conflict, or even ‘water war’, between riparian states. Certainly, the expanding scale of hydro‐development can be expected to continue increasing interstate tensions in the Mekong region; but are these tensions really likely to escalate to armed conflict? This paper explores this question by drawing on the water and conflict theory of Aaron Wolf. Ultimately, this paper concludes that interstate tensions over Mekong hydro‐development are unlikely to generate armed conflict. This is in part due to the strategic impracticality of such a conflict as well as the presence of a river basin management institution. Most compellingly, though, armed conflict is unlikely because the economic imperative shared by Mekong states is better served by cooperation – or at least non‐interference – than conflict, over regional hydro‐development. In closing, the paper urges that the study of water and conflict in the Mekong Basin be refocused at the intrastate level.     

Effect of 3B, 5A and 3A QTL for Fusarium head blight resistance on agronomic and quality performance of Canadian winter wheat

The objectives of this study were to investigate (i) the correlations between Fusarium head blight (FHB) index, deoxynivalenol (DON) accumulation and percentage of Fusarium‐damaged kernels (FDK) with agronomic and quality traits and (ii) the effect associated with the presence of single QTLs for FHB resistance on agronomic and quality traits in winter wheat. The population was derived from the cross between ‘RCATL33' (FHB resistance derived from ‘Sumai 3’ and ‘Frontana’) and ‘RC Strategy’. Parental lines and recombinant inbred lines (RILs) were genotyped with SSR markers associated with the 3B, 5A and 3A QTLs. The population was planted in FHB‐inoculated nurseries and in agronomy trials. Lines in the 3B QTL class had the lowest FHB index, DON content and FDK level and did not have a significantly lower yield, thousand kernel weight or protein content compared with the lines grouped in other QTL classes (including no QTL class). Marker‐assisted selection of the 3B QTL for FHB resistance into high‐yielding FHB‐susceptible winter wheat is the recommended approach for the development of lines with increased FHB resistance without significant yield and quality penalties.     

Allelic relationships at the pvr1 locus in Capsicum annuum

Diseases caused by members of the Potyviridae family currently threaten pepper crops (Capsicum annuum L.) worldwide. A series of monogenic recessive resistance genes that control potyvirus resistance at the pvr1 locus in Capsicum species are widely known and used in pepper breeding programs, each allele with a differential resistance spectrum affecting a distinct range of viral strains across three viruses, Tobacco etch virus (TEV), Pepper mottle virus and Potato virus Y. In this study, we systematically analyzed the resistant spectra, and the level of the resistance each allele confers using a set of pepper genotypes homozygous or heterozygous for the following alleles; Pvr1 ⁺, pvr1, pvr1 ¹ and pvr1 ². The resistance alleles at the pvr1 locus show recessive inheritance when combined with a susceptible allele in F1 progenies. However, our results show that resistance in this system is, in fact, not always fully recessive and establish a hierarchy of allelic interactions We identified the resistance phenotype in F₁ progenies generated by combining a complete resistant allele with an incomplete resistance allele against TEV strains implying that the resistance alleles at the pvr1 shows dominant inheritance when combined with an incomplete resistance allele. Resistance alleles against TEV-HAT, pvr1 and pvr1 ², show dominance inheritance when each is combined with pvr1 ¹. The resistance allele, pvr1, shows dominance inheritance when combined with pvr1 ² against TEV-N. These results clarify the allelic relationship between resistance alleles at the pvr1 locus displaying different resistance spectra, and will assist breeders to select the preferred combinations of the resistance alleles to obtain durable resistance against multiple potyviral strains.     

Genetic linkage map of Chinese native variety faba bean (Vicia faba L.) based on simple sequence repeat markers

Simple sequence repeat (SSR) marker is a powerful tool for construction of genetic linkage map which can be applied for quantitative trait loci (QTL) and marker‐assisted selection (MAS). In this study, a genetic map of faba bean was constructed with SSR markers using a 129 F₂ individuals population derived from the cross of Chinese native variety 91825 (large seed) and K1563 (small seed). By screening 11 551 SSR primers between two parents, 149 primer pairs were detected polymorphic and used for F₂ population analysis. This SSR‐based genetic linkage map consisted of 15 linkage groups with 128 SSR. The map encompassed 1587 cM with an average genetic distance of 12.4 cM. The genetic map generated in this study will be beneficial for genetic studies of faba bean for identification of marker‐locus‐trait associations as well as comparative mapping among faba bean, pea and grasspea.     

Increased anthocyanin content in purple pericarp × blue aleurone wheat crosses

Due to their antioxidant activity, anthocyanins are of increasing interest for nutritionists, food scientists and plant breeders. Anthocyanins in wheat grains are expressed in either the pericarp or aleurone layer. Previous studies revealed that different anthocyanins are present in wheat varieties carrying genes for either the purple pericarp or the blue aleurone trait. Progeny from crosses between red‐, purple‐ and blue‐grained wheat varieties were selected over several cycles for grain colour by visual scoring. Bulked F₅ grains were evaluated for their total anthocyanin content by UV‐VIS spectrophotometry and HPLC‐MS. The results demonstrate that it is possible to increase the anthocyanin content by the combination of the different genetic backgrounds for purple pericarp and blue aleurone, even though the majority of progeny were within the range of the purple‐ and blue‐grained check varieties. Visual scoring for grain colour is efficient, reliable and fast for selection in early breeding generations. Advanced breeding lines with high anthocyanin content can be identified by simple extraction methods and spectrophotometric measurements.