High-throughput diagnostic markers for foliar fungal disease resistance and high oleic acid content in groundnut.

BACKGROUND: Foliar diseases namely late leaf spot (LLS) and leaf rust (LR) reduce yield and deteriorate fodder quality in groundnut. Also the high oleic acid content has emerged as one of the most important traits for industries and consumers due to its increased shelf life and health benefits. RESULTS: Genetic mapping combined with pooled sequencing approaches identified candidate resistance genes (LLSR1 and LLSR2 for LLS and LR1 for LR) for both foliar fungal diseases. The LLS-A02 locus housed LLSR1 gene for LLS resistance, while, LLS-A03 housed LLSR2 and LR1 genes for LLS and LR resistance, respectively. A total of 49 KASPs markers were developed from the genomic regions of important disease resistance genes, such as NBS-LRR, purple acid phosphatase, pentatricopeptide repeat-containing protein, and serine/threonine-protein phosphatase. Among the 49 KASP markers, 41 KASPs were validated successfully on a validation panel of contrasting germplasm and breeding lines. Of the 41 validated KASPs, 39 KASPs were designed for rust and LLS resistance, while two KASPs were developed using fatty acid desaturase (FAD) genes to control high oleic acid levels. These validated KASP markers have been extensively used by various groundnut breeding programs across the world which led to development of thousands of advanced breeding lines and few of them also released for commercial cultivation. CONCLUSION: In this study, high-throughput and cost-effective KASP assays were developed, validated and successfully deployed to improve the resistance against foliar fungal diseases and oleic acid in groundnut. So far deployment of allele-specific and KASP diagnostic markers facilitated development and release of two rust- and LLS-resistant varieties and five high-oleic acid groundnut varieties in India. These validated markers provide opportunities for routine deployment in groundnut breeding programs.

Role of isotropic and anisotropic Dzyaloshinskii-Moriya interaction on skyrmions, merons and antiskyrmions in theCnvsymmetric system.

The lattice Hamiltonian with the presence of a chiral magnetic isotropic Dzyaloshinskii-Moriya interaction (DMI) in a square and hexagonal lattice is numerically solved to give the full phase diagram consisting of skyrmions and merons in different parameter planes. The phase diagram provides the actual regions of analytically unresolved asymmetric skyrmions and merons, and it is found that these regions are substantially larger than those of symmetric skyrmions and merons. With magnetic field, a change from meron or spin spiral (SS) to skyrmion is seen. The complete phase diagram for theCnvsymmetric system with anisotropic DMI is drawn and it is shown that this DMI helps to change the SS propagation direction. Finally, the well-defined region of a thermodynamically stable antiskyrmion phase in theCnvsymmetric system is shown.

Fragility of the Schrödinger Cat in thermal environments.

We describe the decoherence instability of Schrödinger Cat states in the two-site Bose-Hubbard model with an attractive on-site interaction between particles. For N particles with onsite attractive energy U and hopping amplitude between sites t, Cat states exist for [Formula: see text] at zero temperature. However, they are increasingly unstable to small thermal fluctuations as the Cat itself is increasingly well-defined and its components become well-separated. For any given [Formula: see text], the decoherence temperature becomes smaller for large N. The loss of off-diagonal coherence peaks in the equilibrium density matrix is dominated by the thermal admixture of the first excited state of the many-body system with its ground state. Particle number fluctuations, described in the grand canonical ensemble also reduce coherence, but to a lesser degree than thermal fluctuations. The full density matrix of the Schrödinger Cat is obtained by exact numerical diagonalization of the many-body Hamiltonian and a narrow regime in the parameter space of the particle number, temperature, and U/t is identified where small Cat states may survive decoherence in a physical environment.

Does improved oleic acid content due to marker-assisted introgression of ahFAD2 mutant alleles in peanuts alter its mineral and vitamin composition?

Peanuts (Arachis hypogaea L.) with high oleic acid content have extended shelf life and several health benefits. Oleic, linoleic, and palmitic acid contents in peanuts are regulated by ahFAD2A and ahFAD2B mutant alleles. In the present study, ahFAD2A and ahFAD2B mutant alleles from SunOleic 95R were introgressed into two popular peanut cultivars, GG-7 and TKG19A, followed by markers-assisted selection (MAS) and backcrossing (MABC). A total of 22 MAS and three MABC derived lines were developed with increased oleic acid (78-80%) compared to those of GG 7 (40%) and TKG 19A (50%). Peanut kernel mineral and vitamin composition remained unchanged, while potassium content was altered in high oleic ingression lines. Two introgression lines, HOMS Nos. 37 and 113 had over 10% higher pooled pod yield than respective best check varieties. More than 70% recurrent parent genome recovery was observed in HOMS-37 and HOMS-113 through recombination breeding. However, the absence of recombination in the vicinity of the target locus resulted in its precise introgression along with ample background genome recovery. Selected introgression lines could be released for commercial cultivation based on potential pod yield and oleic acid content.

Floquet scattering of quadratic band-touching semimetals through a time-periodic potential well.

We consider tunneling of quasiparticles through a rectangular quantum well, subject to periodic driving. The quasiparticles are the itinerant charges in two-dimensional and three-dimensional semimetals having a quadratic bandtouching (QBT) point in the Brillouin zone. To analyze the time-periodic Hamiltonian, we assume a non-adiabatic limit where the Floquet theorem is applicable. By deriving the Floquet scattering matrices, we chalk out the transmission and shot noise spectra of the QBT semimetals. The spectra show Fano resonances, which we identify with the (quasi)bound states of the systems.

Skyrmions at vanishingly small Dzyaloshinskii-Moriya interaction or zero magnetic field.

By introducing biquadratic together with usual bilinear ferromagnetic nearest neighbor exchange interaction in a square lattice, we find that the energy of the spin-wave mode is minimized at a finite wavevector for a vanishingly small Dzyaloshinskii-Moriya interaction (DMI), supporting a ground state with spin-spiral structure whose pitch length is unusually short as found in some of the experiments. Apart from reproducing the magnetic structures that can be obtained in a canonical model with nearest neighbor exchange interaction only, a numerical simulation of this model with further introduction of magnetic anisotropy and magnetic field predicts many other magnetic structures some of which are already observed in the experiments. Among many observed structures, nanoscale skyrmion even at vanishingly small DMI is found for the first time in a model. The model provides the nanoscale skyrmions of unit topological charge at zero magnetic field as well. We obtain phase diagrams for all the magnetic structures predicted in the model.

Length-scale independent skyrmion and meron Hall angles.

Motivated by the recent observation (Zeissler et al 2020 Nature Commun. 11 428) of enigmatic radius-independent skyrmion Hall angle in chiral magnets, we derive skyrmion Hall angle based on the recent solution of skyrmions characterized by the sole length scale determined with the Dzyaloshinskii-Moriya interaction strength and applied magnetic field. We find that the skyrmion Hall angle is independent of input current density and the length-scale which determines the radius of a skyrmion. This is corroborated with the single length-scale dependent skyrmion profile which is the solution of the Euler equation of polar angle representing magnetization. Although the magnitude of Hall angle may change with the change of profile (shape) of the skyrmion, it remains unchanged for a particular profile. With the application of tunable current along mutually perpendicular directions, this property enables us to propose an experimental setup by which the transverse motion of a skyrmion can be restricted so that the skyrmion can only traverse longitudinally. We further find the length-scale and input-current density independent Hall angles for merons where their transverse motion will be opposite depending on whether the spin at their centers are up or down, in agreement with an experiment.

Translational genomics for achieving higher genetic gains in groundnut.

KEY MESSAGE: Groundnut has entered now in post-genome era enriched with optimum genomic and genetic resources to facilitate faster trait dissection, gene discovery and accelerated genetic improvement for developing climate-smart varieties. Cultivated groundnut or peanut (Arachis hypogaea), an allopolyploid oilseed crop with a large and complex genome, is one of the most nutritious food. This crop is grown in more than 100 countries, and the low productivity has remained the biggest challenge in the semiarid tropics. Recently, the groundnut research community has witnessed fast progress and achieved several key milestones in genomics research including genome sequence assemblies of wild diploid progenitors, wild tetraploid and both the subspecies of cultivated tetraploids, resequencing of diverse germplasm lines, genome-wide transcriptome atlas and cost-effective high and low-density genotyping assays. These genomic resources have enabled high-resolution trait mapping by using germplasm diversity panels and multi-parent genetic populations leading to precise gene discovery and diagnostic marker development. Furthermore, development and deployment of diagnostic markers have facilitated screening early generation populations as well as marker-assisted backcrossing breeding leading to development and commercialization of some molecular breeding products in groundnut. Several new genomics applications/technologies such as genomic selection, speed breeding, mid-density genotyping assay and genome editing are in pipeline. The integration of these new technologies hold great promise for developing climate-smart, high yielding and more nutritious groundnut varieties in the post-genome era.

Advances in Crop Improvement and Delivery Research for Nutritional Quality and Health Benefits of Groundnut (Arachis hypogaea L.).

Groundnut is an important global food and oil crop that underpins agriculture-dependent livelihood strategies meeting food, nutrition, and income security. Aflatoxins, pose a major challenge to increased competitiveness of groundnut limiting access to lucrative markets and affecting populations that consume it. Other drivers of low competitiveness include allergens and limited shelf life occasioned by low oleic acid profile in the oil. Thus grain off-takers such as consumers, domestic, and export markets as well as processors need solutions to increase profitability of the grain. There are some technological solutions to these challenges and this review paper highlights advances in crop improvement to enhance groundnut grain quality and nutrient profile for food, nutrition, and economic benefits. Significant advances have been made in setting the stage for marker-assisted allele pyramiding for different aflatoxin resistance mechanisms-in vitro seed colonization, pre-harvest aflatoxin contamination, and aflatoxin production-which, together with pre- and post-harvest management practices, will go a long way in mitigating the aflatoxin menace. A breakthrough in aflatoxin control is in sight with overexpression of antifungal plant defensins, and through host-induced gene silencing in the aflatoxin biosynthetic pathway. Similarly, genomic and biochemical approaches to allergen control are in good progress, with the identification of homologs of the allergen encoding genes and development of monoclonal antibody based ELISA protocol to screen for and quantify major allergens. Double mutation of the allotetraploid homeologous genes, FAD2A and FAD2B, has shown potential for achieving >75% oleic acid as demonstrated among introgression lines. Significant advances have been made in seed systems research to bridge the gap between trait discovery, deployment, and delivery through innovative partnerships and action learning.

Steady expression of high oleic acid in peanut bred by marker-assisted backcrossing for fatty acid desaturase mutant alleles and its effect on seed germination along with other seedling traits.

Peanut (Arachis hypogaea L.) is an important nutrient-rich food legume and valued for its good quality cooking oil. The fatty acid content is the major determinant of the quality of the edible oil. The oils containing higher monounsaturated fatty acid are preferred for improved shelf life and potential health benefits. Therefore, a high oleic/linoleic fatty acid ratio is the target trait in an advanced breeding program. The two mutant alleles, ahFAD2A (on linkage group a09) and ahFAD2B (on linkage group b09) control fatty acid composition for higher oleic/linoleic ratio in peanut. In the present study, marker-assisted backcrossing was employed for the introgression of two FAD2 mutant alleles from SunOleic95R into the chromosome of ICGV06100, a high oil content peanut breeding line. In the marker-assisted backcrossing-introgression lines, a 97% increase in oleic acid, and a 92% reduction in linoleic acid content was observed in comparison to the recurrent parent. Besides, the oleic/linoleic ratio was increased to 25 with respect to the recurrent parent, which was only 1.2. The most significant outcome was the stable expression of oil-content, oleic acid, linoleic acid, and palmitic acid in the marker-assisted backcrossing-introgression lines over the locations. No significant difference was observed between high oleic and normal oleic in peanuts for seedling traits except germination percentage. In addition, marker-assisted backcrossing-introgression lines exhibited higher yield and resistance to foliar fungal diseases, i.e., late leaf spot and rust.