Genetic characterisation of tetraploid potato (Solanum tuberosum L.) emphasising genetic control of total glycoalkaloid content in the tubers

Two segregating resource populations were constructed, one of 216 clones using the tetraploid clones Cara and LT7 as parents and one of 176 clones using the tetraploid clones NT8 and LT7 as parents. The populations were used, in replicates, to estimate genetic parameters for total glycoalkaloid (TGA) content in the tubers, and for other agronomic and morphological traits such as tuber weight, dormancy and plant height. In both populations, the parental clones differed markedly in TGA-content and the progeny population was normally distributed for this trait after logarithmic transformation. Broad sense heritability estimate of TGA-content was 0.54 in Cara × LT7 and 0.50 in NT8 × LT7 and the trait proved to be inherited in a non-dominant manner. The minimum number of genes contributing to TGA-content was estimated to be between 3 and 7. None of the other traits recorded in this study showed a statistically significant genetic association with TGA-content. This suggests that tuber TGA-content may be genetically modulated without any significant adverse effects on other agronomic traits. The genetic parameters estimated in this study indicate that these populations are suitable for DNA-marker analysis for TGA-content in tubers. This revised version was published online in August 2006 with corrections to the Cover Date.     

Scorpion neurotoxins: structure/function relationships and application in agriculture

Continued use of non‐specific chemical insecticides poses potential risks to the environment and to human health resulting from non‐target toxicity and increased insect resistance to these agents. Scorpions produce anti‐insect selective polypeptide toxins that bind to and modulate voltage‐sensitive ion channels in excitable tissues, thus offering alternative, environmentally safer means for insect pest control. Despite this potential, little is known about their structural elements dictating anti‐insect preference, which may be useful for the design of selective insecticides. We used a bacterial system for expression and genetic dissection of two pharmacologically distinct scorpion toxins: alpha and excitatory. By exploiting a multi‐disciplinary approach consisting of mutagenesis, protein chemistry, electrophysiology, binding and toxicity assays, and structural studies, we elucidated the bioactive surface of two anti‐insect toxins, LqhαIT and Bj‐xtrIT. In both polypeptides the bioactive surface is composed of residues surrounding the C‐terminal region. In addition, a direct, immediate approach in using the toxin genes was demonstrated by engineering baculoviruses with cDNAs encoding LqhIT2 (depressant toxin), and LqhIT1 (excitatory toxin) resulting in viral vectors with significantly improved insecticidal efficacy. © 2000 Society of Chemical Industry     

Nitrogen cycling following mountain pine beetle disturbance in lodgepole pine forests of Greater Yellowstone

Widespread bark beetle outbreaks are currently affecting multiple conifer forest types throughout western North America, yet many ecosystem-level consequences of this disturbance are poorly understood. We quantified the effect of mountain pine beetle (Dendroctonus ponderosae) outbreak on nitrogen (N) cycling through litter, soil, and vegetation in lodgepole pine (Pinus contorta var. latifolia) forests of the Greater Yellowstone Ecosystem (WY, USA) across a 0-30 year chronosequence of time-since-beetle disturbance. Recent (1-4 years) bark beetle disturbance increased total litter depth and N concentration in needle litter relative to undisturbed stands, and soils in recently disturbed stands were cooler with greater rates of net N mineralization and nitrification than undisturbed sites. Thirty years after beetle outbreak, needle litter N concentration remained elevated; however total litter N concentration, total litter mass, and soil N pools and fluxes were not different from undisturbed stands. Canopy N pool size declined 58% in recent outbreaks, and remained 48% lower than undisturbed in 30-year old outbreaks. Foliar N concentrations in unattacked lodgepole pine trees and an understory sedge were positively correlated with net N mineralization in soils across the chronosequence. Bark beetle disturbance altered N cycling through the litter, soil, and vegetation of lodgepole pine forests, but changes in soil N cycling were less severe than those observed following stand replacing fire. Several lines of evidence suggest the potential for N leaching is low following bark beetle disturbance in lodgepole pine.     

Anti-oxidant activity of Centella asiatica on lymphoma-bearing mice

Oral treatment with 50 mg X kg(-1) day(-1) of crude methanol extract of Centella asiatica for 14 days significantly increased the anti-oxidant enzymes, like superoxide dismutase (SOD), catalase and glutathione peroxidase (GSHPx), and anti-oxidants like glutathione (GSH) and ascorbic acid decreased in lymphoma-bearing mice.     

Timber tree regeneration along abandoned logging roads in a tropical Bolivian forest

Sustainable management of selectively logged tropical forests requires that felled trees are replaced through increased recruitment and growth. This study compares road track and roadside regeneration with regeneration in unlogged and selectively logged humid tropical forest in north-eastern Bolivia. Some species benefited from increased light intensities on abandoned logging roads. Others benefited from low densities of competing vegetation on roads with compacted soils. This was the case for the small-seeded species Ficus boliviana C.C. Berg and Terminalia oblonga (Ruiz & Pav.) Steud. Some species, e.g. Hura crepitans L., displayed patchy regeneration coinciding with the presence of adult trees. Our results suggest that current management practices could be improved by intensifying logging in some areas to improve regeneration of light demanding species. Sufficient seed input in logged areas should be ensured by interspersing large patches of unlogged forest with logged areas. This may also assist regeneration of species that perform poorly in disturbed areas.     

Land Use and Cover Dynamics Since 1964 in the Afro‐Alpine Vegetation Belt: Lib Amba Mountain in North Ethiopia

Human‐induced land use and land cover (LUC) changes threaten the ecosystem services of the vulnerable tropical afro‐alpine vegetation. Several LUC change studies are available for the Ethiopian highlands, but relatively little is known about LUC change in the afro‐alpine zones. In this study, LUC changes between 1964 and 2012 were mapped for the afro‐alpine zone of Lib Amba Mountain, part of the Abune Yosef Mountains in North Ethiopia. Historical LUC was derived from georeferenced aerial photographs of 1964 and 1982, and the present LUC (2012) from Bing Map satellite imagery. Based on these successive LUC maps a time‐depth map, LUC proportions, LUC transition matrices and LUC change trajectories were calculated. Two main phases of LUC change could be distinguished linked to the neo‐Boserupian perspective. (i) Between 1964 and 1982, there were large‐scale deforestation and general degradation of the vegetation above 3500 m, in a period of low population pressure; (ii) Between 1982 and 2012, an intensification of land use prevailed accompanied with a slight regeneration of the vegetation and the Erica arborea L. forest, under increased population pressure. Depth interviews indicated that local and governmental land management measures are very important for the protection against vegetation depletion and soil degradation. Quick recovery of the forest on Lib Amba provides confidence that degraded afro‐alpine areas would benefit in a short time from complete protection, given the vicinity of remaining patches of afro‐alpine vegetation. Management interventions are thus vital to restore the important ecosystem services of the afro‐alpine vegetation belt. Copyright © 2015 John Wiley & Sons, Ltd.     

Detection of key factors in the extraction and quantification of lycopene from tomato and tomato products

The analytical process of lycopene extraction and photometrical determination was critically examined for raw tomato and processed tomato products by means of a 2 IV (15-10) Plackett-Burman experimental design in order to identify the key factors (KFs) involved. Fifteen apparent key factors (AKFs) reported in the literature were selected: sample weight (X1); volume of extraction solution (X2); antioxidant concentration (BHT, X3); neutralizing agent concentration (MgCO 3, X4); light presence during lycopene extraction (X5), homogenization velocity (X6) and time (X7), agitation time (X8), and temperature (X9) during the extraction process; water volume for separation of polar/nonpolar phases (X11); presence of inert atmosphere throughout the process (X12); time (X13), temperature (X14), and light presence (X10) during separation of phases and time delay for reading (X15). In general, higher lycopene concentrations in samples led to a higher number of key factors (KF). Thus, for raw tomato (lycopene range 1.22-2.29 mg/100 g) no KF were found, whereas for tomato sauce (lycopene range from 5.80 to 8.60 mg/100 g) one KF (X4) and for tomato paste (lycopene range from 35.80 to 51.27 mg/100 g) five KFs (X1, X2, X4, X11, and X12) were detected. For lycopene paste, X1 and X2 were identified as the KFs with the greatest impact on results, although in fact the X1/X2 ratio was the real cause. The results suggest that, with increased processing, the physical and chemical structure of lycopene becomes less important since the identified KFs explain almost 90% of variability in tomato paste but only 32% in raw tomato.     

Development of allometric leaf area models for intensively managed black walnut (Juglans nigra L.)

? Introduction

Intensive plantation management of high-value hardwoods, such as black walnut (Juglans nigra L.), is focused on maximizing both stem form and growth at the stand and tree level. While significant research has focused on genetic improvement in black walnut, little is known about the production ecology of this species in plantation settings.

? Objectives

The aim of this study is to assess the applicability of nondestructive projected leaf area (PLA) estimation based on the pipe model theory in three single-aged J. nigra plantations representing discrete age classes ranging from 3 to 27?years of age.

? Results

Branch-level PLA was modeled as a function of branch basal cross-sectional area (R ²?=?0.875). Six nondestructive tree-level PLA models were assessed, with four models yielding R ²?>?0.90. Tree-level models performed well across age classes, with model fits comparable to previous studies in coniferous species.

? Conclusion

This study demonstrates that allometric approaches to modeling leaf area distribution in hardwoods are feasible, but future efforts may need to use different sampling approaches and/or quantify variables that have not been significant in conifers. This study represents an important first step into more quantitative analysis of production ecology of deciduous species in the CHFR of the USA.     

Evolution and functional impact of rare coding variation from deep sequencing of human exomes

As a first step toward understanding how rare variants contribute to risk for complex diseases, we sequenced 15,585 human protein-coding genes to an average median depth of 111× in 2440 individuals of European (n = 1351) and African (n = 1088) ancestry. We identified over 500,000 single-nucleotide variants (SNVs), the majority of which were rare (86% with a minor allele frequency less than 0.5%), previously unknown (82%), and population-specific (82%). On average, 2.3% of the 13,595 SNVs each person carried were predicted to affect protein function of ~313 genes per genome, and ~95.7% of SNVs predicted to be functionally important were rare. This excess of rare functional variants is due to the combined effects of explosive, recent accelerated population growth and weak purifying selection. Furthermore, we show that large sample sizes will be required to associate rare variants with complex traits.