Genome-wide association study for spot blotch resistance in Afghan wheat germplasm

Spot blotch (SB), caused by Bipolaris sorokiniana, is a devastating disease of wheat globally, especially in South Asia and South America. Understanding the genetics of resistance to SB is important for developing breeding strategies to improve resistance. A panel of 301 genotypes from Afghanistan was phenotyped over two crop seasons using a mixture of virulent B. sorokiniana isolates and genotyped using DArTSeq to obtain genome-wide markers. Fifty genotypes (16.6%) showed disease scores less than the resistant control. Principal component analysis using the genotypic data clustered the genotypes into five different groups. Among models used for genome-wide association mapping, the multilocus mixed model, and fixed and random model circulating probability unification algorithms were most effective in identifying significant marker-trait associations (MTA). Twenty-five MTAs at p ≤ .001 were identified on chromosomes 1A, 1B, 1D, 2B, 2D, 3A, 3B, 4A, 5A, 5B, 6A, 7A, and 7D, indicating the quantitative nature of resistance to SB. Phenotypic variation explained by these markers ranged from 2.0% to 17.7%, and genomic regions on the chromosomes 1D, 2D, 3A, 3B, 4A, 5A, and 5B coincided with loci identified in previous studies. Three single nucleotide polymorphism (SNP) markers on chromosomes 1B (SNP 1113207) and 5A (SNPs 5411867 and 998276) were significant in both crop seasons as well as in the combined analysis across seasons. Marker 5411867 is close to Vrn-A1, shown to be associated with SB in previous studies. Furthermore, among known SB resistance genes, Sb2 on chromosome 5B was predicted to be significant in this panel.     

Achyranthes aspera (Prickly chaff flower) leaves- and seeds-supplemented diets regulate growth,innate immunity,and oxidative stress in Aeromonas hydrophila-challenged Labeo rohita

ABSTRACT

The immunostimulatory and disease-resistance properties of Achyranthes aspera were evaluated in rohu (Labeo rohita) challenged with Aeromonas hydrophila. Experimental diets were enriched with leaves at 0.25% (D1) and 0.5% (D2) and seeds at 0.5% (D3); the control diet (D4) was without any enrichment. Rohu (2.02 ± 0.23 g) were cultured for 75 days and then challenged with bacteria. The highest average weight was observed in the D3 diet-fed fish. The cumulative mortality rates were 70%, 60%, 40%, and 30% in the D4, D1, D2, and D3 diets fed to rohu respectively. Enriched diets significantly increased myeloperoxidase, nitric oxide synthase, and serum lysozyme levels and decreased malondialdehyde and carbonyl protein content. Expressions of lysozyme C and lysozyme G were significantly (P < .05) higher in the D3 diet-fed fish. In the kidney, IL-1β and TLR 4 were up-regulated in enriched-diet-fed fish. Supplementation of seeds and leaves at 0.5% showed a positive impact in fish.     

Papaya yellow leaf curl virus: A newly identified begomovirus infecting Carica papaya L. from the Indian Subcontinent

India is one of the world’s largest producers of papaya. Viruses, mainly begomoviruses and potyviruses, cause a significant loss in papaya production. The study described here has identified a new species of begomovirus and a new species of betasatellite infecting Carica papaya in India. The sequences of the begomovirus and betasatellite show 90.03% nucleotide sequence identity to an isolate of Radish leaf curl virus and 92.25% identity to an isolate of Tomato leaf curl betasatellite, respectively. Maximum likelihood phylogenetic tree of begomovirus sequence of isolate DP2 (KX353622) showed distant relationships with previously characterised begomoviruses. Recombination analysis proposed six recombination breakpoints in begomovirus genome with other geographical begomovirus isolates.     

Integrated effect of population and weed management regimes on weed dynamics,performance, and productivity of basmati rice (<Emphasis Type="Italic">Oryza sativa</Emphasis> L.)

Weeds caused serious problem on yield reduction of basmati rice worldwide. Losses caused by weeds varied from one country to another, depending on the presence of dominant weeds and the control methods practiced by farmers; therefore, suitable plant population and weed management practices should be adopted. Keeping these in mind, a field experiment was carried out during kharif seasons of 2009 and 2010 at crop Research Centre of SVPUA&T, Meerut, India comprising 4 planting geometries, viz. 20, 30, 40, and 50 hills m^?2 as main plot factor, and 5 weed management practices (Butachlor @ 1.0 kg ha^?1, Butachlor @ 1.0 kg ha^?1 fb (followed by) one hand weeding, Butachlor @ 1.0 kg ha^?1 fb Almix @ 4 g ha^?1, two hand weedings and weedy check) in a split plot design with 3 replications. Experimental results revealed that plant population of 50 hills m^?2 proved superior over that of 20 hills m^?2 in respect of weed density, weed dry weight, number of tillers m^?2, yield attributes, grain, straw, and biological yields. The maximum grain yield (29.00 and 31.00 q ha^?1) and straw yield (51.30 and 52.50 q ha^?1) were recorded in 50 hills m^?2 followed by 40 hills m^?2 during 2009 and 2010, respectively. In respect of nitrogen, phosphorus, and potassium removal, a reverse trend was observed: the highest in 20 hills m^?2 followed by 30, 40, and 50 hills m^?2. As far as the weed management practices are concerned, both chemical and mechanical methods of weed control were found superior over weedy check. The lowest weed density, dry weight, and highest weed control efficiency, maximum length of panicle^?1, number of panicle (m²), and 1000-grain weight and grain yield of 30.40 and 32.60 q ha^?1 were recorded with two hand weedings which was at par with Butachlor @ 1.0 kg ha^?1 fb one hand weeding over rest of the weed management practices.     

Influence of summer legume residue recycling and varietal diversification on productivity,energetics, and nutrient dynamics in basmati rice–wheat cropping system of western Indo-Gangetic Plains

A field experiment was conducted on summer mungbean residue recycling (SMBRR) and basmati rice–wheat cropping system (BRWCS) at New Delhi, India. The SMBRR enhanced the system productivity and net returns by ～19.1% and 22.1% compared to summer fallow (SF) with highest magnitude under genotypic sequence of P 2511/HD 2967. Two genotypes each in basmati rice (PB 1 and P 2511) and wheat (HD 2967 and HD 2733) responded well to SMBRR with respect to grain yield efficiency index (GYEI) ≥ 1.0. SMBRR also registered ～13.5% higher microbial biomass carbon (MBC) than SF. Soil organic carbon (SOC) storage also increased by ～6.8% in 0–30 cm soil layer. The rice–wheat–summer mungbean system produced significantly highest energy efficiency compared to the rice–wheat–summer fallow system with highest values under genotypic sequence of P 2511/HD 2967 as a result of better yield expression. Overall, SMBRR with suitable genotypic sequence improved the system productivity, profitability, and nutrient dynamics in BRWCS, which are vital for long-term sustainability of this system.     

Pigeonpea improvement: An amalgam of breeding and genomic research

In the past five decades, constant research has been directed towards yield improvement in pigeonpea resulting in the deployment of several commercially acceptable cultivars in India. Though, the genesis of hybrid technology, the biggest breakthrough, enigma of stagnant productivity still remains unsolved. To sort this productivity disparity, genomic research along with conventional breeding was successfully initiated at ICRISAT. It endowed ample genomic resource providing insight in the pigeonpea genome combating production constraints in a precise and speedy manner. The availability of the draft genome sequence with a large‐scale marker resource, oriented the research towards trait mapping for flowering time, determinacy, fertility restoration, yield attributing traits and photo‐insensitivity. Defined core and mini‐core collection, still eased the pigeonpea breeding being accessible for existing genetic diversity and developing stress resistance. Modern genomic tools like next‐generation sequencing, genome‐wide selection helping in the appraisal of selection efficiency is leading towards next‐generation breeding, an awaited milestone in pigeonpea genetic enhancement. This paper emphasizes the ongoing genetic improvement in pigeonpea with an amalgam of conventional breeding as well as genomic research.     

Effect of microalga-based diet on oxidative stress enzymes of African catfish,Clarias gariepinus

Here an indigenously isolated microalgal strain Ascochloris spp. cultivated in synthetic medium was evaluated as an aquaculture feed supplement. The daily dietary supplement includes microalgal feed (AF) and commercial diet feed (CF) (as control), respectively. These diets were fed separately to the juvenile Clarias gariepinus fishes (n = 4) under controlled conditions for an experimental period of 100 days. The protein, glycogen and lipid contents in the muscle extracts were found to be marginally higher in fishes that were fed with CF than AF diet. Similarly, CF fishes showed significantly higher glutathione-s-transferase, catalase, superoxide dismutase, and lipid peroxidase activities, except glutathione content. Zero mortality of the fishes with no significant difference in the overall body mass with the two dietary supplements strongly suggests that algal biomass could supplement the requisite nutrients for their metabolic activities. This preliminary investigation helps in exploring algal biomass as a potential alternative feed additive in the aquaculture industry.     

Inheritance and molecular mapping of restorer‐of‐fertility (Rf) gene in A2 hybrid system in pigeonpea (Cajanus cajan)

Inheritance of fertility restorer gene in pigeonpea was studied using F₂ and BC₁F₁ populations derived from cross AL103A × IC245273. It was found to be controlled by single dominant gene. Out of 228 SSR primer pairs, 33 primer pairs showed parental polymorphism, while four primers were found polymorphic in bulk segregant analysis (BSA). These four primers viz., CcM 1615, CcM 0710, CcM 0765 and CcM 1522 were used for genotyping of F₂ population and were found to be placed at 3.1, 5.1, 28.1 and 45.8 cM, respectively. Two of them, CcM 1615 and CcM 0710, evinced clear and unambiguous bands for fertility restoration in F₂ population. The Rf gene was mapped on linkage group 6 between the SSR markers CcM 1615 and CcM 0710 with the distances of 3.1 and 5.1 cM, respectively. The accuracy of the CcM 1615 was validated in 18 restorers and six maintainer lines. The marker CcM 1615 amplified in majority of male restorer lines with a selection accuracy of 91.66%.