A gain-of-function polymorphism controlling complex traits and fitness in nature

Identification of the causal genes that control complex trait variation remains challenging, limiting our appreciation of the evolutionary processes that influence polymorphisms in nature. We cloned a quantitative trait locus that controls plant defensive chemistry, damage by insect herbivores, survival, and reproduction in the natural environments where this polymorphism evolved. These ecological effects are driven by duplications in the BCMA (branched-chain methionine allocation) loci controlling this variation and by two selectively favored amino acid changes in the glucosinolate-biosynthetic cytochrome P450 proteins that they encode. These changes cause a gain of novel enzyme function, modulated by allelic differences in catalytic rate and gene copy number. Ecological interactions in diverse environments likely contribute to the widespread polymorphism of this biochemical function.     

Bioactivity guided isolation of antipsychotic constituents from the leaves of Rauwolfia tetraphylla L

This study was undertaken to ascertain the antipsychotic properties of Rauwolfia tetraphylla L. leaves and to isolate and characterize the antipsychotic constituents. Among the MeOH extract and some alkaloidal fractions at different pHs, the alkaloidal CHCl(3) fraction at pH-9 (2C) showed the highest antipsychotic activity against dopaminergic (DA-D(2)) and serotonergic (5-HT(2A)) receptors in-vitro and amphetamine induced hyperactive mouse model in-vivo. The activity guided isolation of CHCl(3) fraction (2C) afforded six indole alkaloids: 10-methoxytetrahydroalstonine (1), isoreserpiline (2), an isomeric mixture of 11-demethoxyreserpiline (3) and 10-demethoxyreserpiline (4), α-yohimbine (5) and reserpiline (6). Given orally, alkaloids 3-6 showed significant antipsychotic activity in a dose dependent manner. None of the extract, alkaloidal fractions or alkaloids showed any extra pyramidal symptoms at the tested doses. It was also observed that MeOH extract was behaving similar to other clinically used novel atypical antipsychotics in having 5-HT(2A) occupancy greater than the DA-D(2) receptor at the tested doses. Further toxicity and safety evaluation studies of MeOH extracts of R. tetraphylla leaves at different doses (10, 100, 300 and 2000 mg/kg) on female Swiss albino mice showed that MeOH extract is non toxic. The isolated alkaloids, 3-6 could serve as a promising lead structure for drug development of treating psychotic conditions in human.     

Development and utilization of novel SSRs in foxtail millet [Setaria italica (L.) P. Beauv.]

Although the foxtail millet [Setaria italica (L.) P. Beauv.] is recently regarded as a model crop for studying functional genomics of biofuel grasses, its genetic improvement to some extent was limited due to the non‐availability of molecular markers, particularly the microsatellite markers and the saturated genetic linkage map. Considering this, we attempted to generate a significant number of microsatellite markers in cultivar ‘Prasad’. Two hundred and fifty‐six clones were sequenced to generate 41.82‐kb high‐quality sequences retrieved from genomic library enriched with dinucleotide repeat motifs. Microsatellites were identified in 194 (76%) of the 256 positive clones, and 64 primer pairs (pp) were successfully designed from 95 (49%) unique SSR‐containing clones. The 67.4% primer designing ability, 100% PCR amplification efficiency and 45.3% polymorphic potential in the parents of F₂ mapping population established the efficacy of genomic microsatellites. All the 64 microsatellite markers displayed high level of cross‐species amplification (~67%) in 10 millets and non‐millets species. These experimental findings suggest the utility and efficacy of SSRs in diverse genotyping applications, resolving QTLs, phylogenetic relationships and transferability in several important grass species.     

Effect of crop‐residue management on the production and agronomic nitrogen efficiency in a rice–wheat cropping system

The rice–wheat cropping system (RWCS), producing about 5–10 Mg ha^–1 y^–1 of grain, is the backbone of food‐crop production in South‐East Asia. However, this system shows signs of fatigue as indicated by declining yields, negative nitrogen (N) balances, and reduced responses to applied fertilizer at some research centers. The return of rice and wheat residues can recycle up to 20%–30% of the N absorbed by the crops. However, their wide C : N ratio can temporarily immobilize native and applied N. To overcome this immobilization, wheat‐straw application was supplemented with the incorporation of Sesbania green manure and mungbean residues, and their effects on productivity, agronomic N efficiency, and system's apparent N balances were studied. Combining the application of wheat straw with Sesbania green manure or mungbean residues increased cereal grain yield and agronomic N efficiency and improved the generally negative apparent N balances. The combined use of wheat straw and mungbean produced an additional 0.5–0.6 t ha^–1 protein‐rich grain and thus appears to be the most promising residue‐management option for rice–wheat cropping systems in South Asia, provided that the transition cropping season between wheat harvest and rice transplanting is long enough.     

Design of Optimum Response Surface Experiments for Electro-Coagulation of Distillery Spent Wash

Electro-coagulation (EC) of a distillery spent wash has been optimized by Box–Behnken design of surface response analysis in terms of color removal. The design was employed to derive a statistical model for the effect of parameters studied on removal of color using iron anodes. The current density (31 mA/cm²), dilution (17.5%) and time of electrolysis (4 hours) had been found to be the optimum conditions for maximum 95% color removal. The actual color removal at optimized conditions was found to be 93.5% which confirms close to the predicted response using response surface methodology.     

Thresholds,sensitive stages and genetic variability of finger millet to high temperature stress

Finger millet [Eleusine coracana (L.) Gaertn.] is an important coarse cereal crop grown in the arid and semi‐arid regions and often experiences high temperature (HT) stress. The objectives of this research were (i) to quantify effects of season‐long HT stress on physiological and yield traits, (ii) to identify the developmental stages most sensitive to HT stress and (iii) to quantify the genetic variability for HT stress tolerance in finger millet. Research was conducted in controlled environment conditions. HT stress decreased the chlorophyll index, photosystem II activity, grain yield and harvest index. Maximum decrease in number of seeds per panicle and grain yield per plant was observed when stress was imposed during booting, panicle emergence or flowering stages. Maximum genotypic variation was explained by panicle width and number of seeds per panicle at optimum temperature (OT) and grain yield per plant at HT and number of seeds at HT. Based on the stress response and grain yield, tolerant or susceptible genotypes were identified. Finger millet is sensitive to HT stress during reproductive stages, and there was genotypic variability among the finger millet genotypes for number of seeds per panicle and grain yield under HT, which can be exploited to enhance stress tolerance.     

Modeling tsunami damage in Aceh: a reply

In reply to the critique of Baird and Kerr, we emphasize that our model is a generalized vulnerability model, built from easily acquired data from anywhere in the world, to identify areas with probable susceptibility to large tsunamis—and discuss their other criticisms in detail. We also show that a rejection of the role of trees in helping protect vulnerable areas is not justified in light of existing evidence.     

A multistage decision support framework to guide tree species management under climate change via habitat suitability and colonization models,and a knowledge-based scoring system

Context

No single model can capture the complex species range dynamics under changing climates—hence the need for a combination approach that addresses management concerns.

Objective

A multistage approach is illustrated to manage forested landscapes under climate change. We combine a tree species habitat model—DISTRIB II, a species colonization model—SHIFT, and knowledge-based scoring system—MODFACs, to illustrate a decision support framework.

Methods

Using shortleaf pine (Pinus echinata) and sugar maple (Acer saccharum) as examples, we project suitable habitats under two future climate change scenarios (harsh, Hadley RCP8.5 and mild CCSM RCP4.5 at ~2100) at a resolution of 10 km and assess the colonization likelihood of the projected suitable habitats at a 1 km resolution; and score biological and disturbance factors for interpreting modeled outcomes.

Results

Shortleaf pine shows increased habitat northward by 2100, especially under the harsh scenario of climate change, and with higher possibility of natural migration confined to a narrow region close to the current species range boundary. Sugar maple shows decreased habitat and has negligible possibility of migration within the US due to a large portion of its range being north of the US border. Combination of suitable habitats with colonization likelihoods also allows for identification of potential locations appropriate for assisted migration, should that be deemed feasible.

Conclusion

The combination of these multiple components using diverse approaches leads to tools and products that may help managers make management decisions in the face of a changing climate.

     

Genetic control of growth and form in early-age tests of Casuarina equisetifolia in Andhra Pradesh, India

Early results from three test plantings of Casuarina equisetifolia spp. equisetifolia are reported: a clonal test of 40 locally selected clones, a progeny test of 16 wind-pollinated families of local origin, and a family-in-provenance test of 100 wind-pollinated families which is part of an international provenance trial. All tests were planted in 1996 at the Regional Forest Research Centre, Rajahmundry, Andhra Pradesh, India. Height, stem straightness and axis persistence were measured in the family tests at 6 and 12 months of age. The height of the clonal test was measured at 12 months of age. Heritability estimates obtained were ca. 0.3, 0.2 and 0.1 for height, stem straightness and axis persistence, respectively. Heritability estimates for height were reasonably consistent across the three tests; however, estimates for stem straightness and axis persistence were generally higher in the small test of locally selected families. Height and the other two traits are most probably either weakly correlated or uncorrelated, while stem straightness and axis persistence are positively correlated. Provenances spread across the range of natural- and land-race populations tested demonstrated good growth potential at Rajahmundry. However, natural provenances from Malaysia and Thailand generally showed superior growth, while the land-race populations often demonstrated superior stem straightness. Based on these results some aspects of a breeding strategy are outlined: (a) the establishment of three unrelated sublines; (b) an initial clonal test of all parents; and (c) wind-pollinated mating within clonal breeding orchards.     

Genetics of five hairy phenotypes and a linkage group of Pennisetum americanum

Summary In pearl millet hairy lamina, hairy sheath and hairy stem were inherited as monofactorial recessives while hairy leaf margin and hairy node were inherited as monogenic dominant traits. The gene for hairy lamina hl showed independent assortment from the gene for hairy node, Hn, and showed linkage with the genes hst (hairy stem), hs (hairy sheath) and Hm (hairy leaf margin). Furthermore, Hl was observed to have an epistatic effect on the expression of hs. The percentages of recombination between the gene pairs hl-hst, hl-hs and hl-Hm were 0.0, 8.30±0.44 and 19.81±0.98 respectively. Thus the genes hl-hst-hs Hm form one linkage group.