Dominant pleiotropy controls enzymes co-segregating with paraquat resistance in Conyza bonariensis

Summary The genetics of paraquat-resistance in Conyza bonariensis was studied. Reciprocal crosses were prepared between resistant and sensitive individuals. The enzymes of the pathway that detoxifies superoxide to innocuous oxygen species involved in resistance were evaluated in the F₁ and F₂ generations. All F₁ plants were as resistant as the resistant parent, irrespective of parental sex, demonstrating dominance and excluding maternal inheritance. The activities of superoxide-dismutase, ascorbate-peroxidase and glutathione-reductase in the F₁ were constitutively as high as in the resistant parent. Resistance in the F₂ generation was distributed in a 31 ratio (resistant to sensitive). Leaves from F₂ plants were removed for a resistance assay and enzyme immuno-assays of single plants were performed. The high levels of superoxide-dismutase and glutathione-reductase, the two enzymes for which antibodies were available, were similar in resistant individuals to the levels in the resistant parent; the levels were low in the susceptible individuals. These results indicate either a very tight linkage, or more probably, that one dominant nuclear gene controls resistance by pleiotropically controlling the levels of enzymes of the activeoxygen detoxification pathway.     

Low levels of beta hexosaminidase A in healthy individuals with apparent deficiency of this enzyme.

Appreciable beta hexosaminidase A (hex A) activity has been detected in cultured skin fibroblasts and melanoma tissue from healthy individuals previously reported as having deficiency of hex A activity indistinguishable from that of patients with Tay-Sachs disease (TSD). Identification and quantitation of hex A, amounting to 3.5%-6.9% of total beta hexosaminidase activity, has been obtained by cellulose acetate gel electrophoresis, DEAE-cellulose ion-exchange chromatography, radial immunodiffusion, and radioimmunoassay. Previous family studies suggested that these individuals may be compound heterozygotes for the common mutant TSD gene and a rare (allelic) mutant gene. Thus, the postulated rate mutant gene appears to code for the expression of low amounts of hex A. Heterozygotes for the rare mutant may be indistinguishable from heterozygotes for the common TSD mutant. However, direct visualization and quantitation of hex A by the methods described may prevent false-positive prenatal diagnosis of TSD in fetuses having the incomplete hex A deficiency of the type described in the four healthy individuals.     

Experimental investigation of the origin of fynbos plant community structure after fire

Background and aims

Species in plant communities segregate along fine-scale hydrological gradients. Although this phenomenon is not unique to fynbos, this community regenerates after fire and therefore provides an opportunity to study the ecological genesis of hydrological niche segregation.

Methods

Following wildfires at two field sites where we had previously mapped the vegetation and monitored the hydrology, seeds were moved experimentally in >2500 intact soil cores up and down soil-moisture gradients to test the hypothesis that hydrological niche segregation is established during the seedling phase of the life cycle. Seedling numbers and growth were then monitored and they were identified using DNA bar-coding, the first use of this technology for an experiment of this kind.

Key Results

At the site where niche segregation among Restionaceae had previously been found, the size of seedlings was significantly greater, the wetter the location into which they were moved, regardless of the soil moisture status of their location of origin, or of the species. Seedling weight was also significantly greater in a competition treatment where the roots of other species were excluded. No such effects were detected at the control site where niche segregation among Restionaceae was previously found to be absent.

Conclusions

The finding that seedling growth on hydrological gradients in the field is affected by soil moisture status and by root competition shows that hydrological niche segregation could potentially originate in the seedling stage. The methodology, applied at a larger scale and followed-through for a longer period, could be used to determine whether species are differently affected by soil moisture.     

Effects of habitat loss and limitation on effective population size and inbreeding rates of Walia ibex (Capra walie) in Ethiopia

The effects of habitat loss and limitation on effective population size and inbreeding rates of Walia ibex (Capra walie) were assessed at Simien Mountains National Park. Total direct census was conducted in 2009. Historical data were obtained from park offices and literatures. Effective population sizes (N_e), inbreeding rates (ΔF) and heterozygosity losses to the whole and subdivided population per habitat were estimated. Correlations (r) between the two repeated direct censuses were positive (r = 0.99, P < 0.01). The mean N_e and ΔF (%/year) per study sites were 65.34 ± 59.45 and 0.0286 ± 0.032, respectively. The ΔF of the whole population of C. walie was 0.228 ± 0.011. The ΔF was negatively correlated with N_e (r = ?0.799, P < 0.05). The mean ΔF per fragmented habitat ranged from 0.3 (Cheneck) to 7.7% (Buait ras). The highest ΔFs per year were observed in Buait ras (7.7%), Adarmaz (7.4%) and Sankaber (4.5%). The mean heterozygosity loss per total population was 0.235 ± 0.42, which was about 23.5%. The differences in N_e and ΔF among the population per habitat were the results of habitat limitation, which in turn reduce the genetic variability and foster losses of heterozygosity.     

Diversity and distribution of lepidopteran stemborer species and their host plants in Botswana

Lepidopteran stemborers are amongst the most important insect pests of maize, sorghum and sugarcane in sub-Saharan Africa. With the exception of Chilo partellus (Swinhoe), which was accidentally introduced into Africa, the other stemborer pests are indigenous to the continent and have co-evolved with native grasses and sedges. In addition to pest species, wild habitats harbour diverse non-economic stemborer species, some of which are new to science. However, the diversity and distribution of both non-economic and pest species of stemborer are currently mostly unknown in Botswana. Accordingly, country-wide surveys were conducted during 2014/15 and 2015/16 austral summer to determine species diversity and distribution in cultivated and wild host plants of stemborers in Botswana. A total of 1597 stemborer larvae and 228 pupae were collected, constituting 63.1 and 36.9 larvae and 84.8 and 15.2% pupae from cultivated versus wild habitats, respectively. In addition to C. partellus, Sesamia calamistis Hampson and Eldana saccharina Walker which were previously reported, 12 more stemborer species were recorded for the first time in Botswana, including nine undescribed species. These species were from the Sciomesa, Sesamia and Conicofrontia genera and Tortricidae and Pyralidae families. Fourteen wild host and two cultivated host plant species of stemborers were recorded. Chilo partellus was most abundant (89.5%) in cultivated habitats whilst E. saccharina (33.6%) was most abundant in wild habitats. Stemborer species diversity was higher in wild habitats than cultivated. Current results highlight the significance of wild, especially wetland habitats for ecological functions and conservation of lepidopteran stemborer biodiversity.     

Genetic diversity in traditional Ethiopian highland maize accessions assessed by AFLP markers and morphological traits

In the highland regions of Ethiopia the heterogeneity of the land, the climate, and soil favors the presence of a large number of landraces. We analyzed a representative sample of 62 traditional Ethiopian highland maize accessions, using amplified fragment length polymorphism (AFLP^®) markers and morphological traits with the aim to group the accessions based on the their genetic profiles and morphological traits, to study agroecological variation and to assess the level of correlation between phenotypic and genetic distances. Eight EcoRI/MseI primer combinations and 15 morphological traits were used. The accessions varied significantly for all of the measured morphological traits. Of a total of 650 AFLP markers that were scored, 89.5% were polymorphic. Pair-wise genetic distance estimates based on AFLP data revealed dissimilarity coefficients ranging from 0.32 to 0.69 (mean of 0.57). Cluster analysis of the AFLP data grouped most accessions collected from the Northern highlands into one major cluster. It, however, failed to separate the Western and Southern accessions into different clusters. Regardless of the large variation in environmental conditions between agroecologies, only 9% of the total genetic variation was found between agroecologies, whereas 91% was found within agroecologies in Ethiopia. This finding may be explained by long distance seed exchange, continuous seed introduction and gene flow between agroecologies. The relationship between morphological and AFLP-based distances was significant and positive. Based on this study, three groups of highland accessions, with distinctive genetic profiles and morphological traits were identified. This information will be useful for further collections and conservation of the unique diversity included in the highland maize landraces of Ethiopia.     

Avian Cone Photoreceptors Tile the Retina as Five Independent,Self-Organizing Mosaics

The avian retina possesses one of the most sophisticated cone photoreceptor systems among vertebrates. Birds have five types of cones including four single cones, which support tetrachromatic color vision and a double cone, which is thought to mediate achromatic motion perception. Despite this richness, very little is known about the spatial organization of avian cones and its adaptive significance. Here we show that the five cone types of the chicken independently tile the retina as highly ordered mosaics with a characteristic spacing between cones of the same type. Measures of topological order indicate that double cones are more highly ordered than single cones, possibly reflecting their posited role in motion detection. Although cones show spacing interactions that are cell type-specific, all cone types use the same density-dependent yardstick to measure intercone distance. We propose a simple developmental model that can account for these observations. We also show that a single parameter, the global regularity index, defines the regularity of all five cone mosaics. Lastly, we demonstrate similar cone distributions in three additional avian species, suggesting that these patterning principles are universal among birds. Since regular photoreceptor spacing is critical for uniform sampling of visual space, the cone mosaics of the avian retina represent an elegant example of the emergence of adaptive global patterning secondary to simple local interactions between individual photoreceptors. Our results indicate that the evolutionary pressures that gave rise to the avian retina''s various adaptations for enhanced color discrimination also acted to fine-tune its spatial sampling of color and luminance.     

Genetic reduction of mTOR extends lifespan in a mouse model of Hutchinson‐Gilford Progeria syndrome

Hutchinson‐Gilford progeria syndrome (HGPS) is a rare accelerated aging disorder most notably characterized by cardiovascular disease and premature death from myocardial infarction or stroke. The majority of cases are caused by a de novo single nucleotide mutation in the LMNA gene that activates a cryptic splice donor site, resulting in production of a toxic form of lamin A with a 50 amino acid internal deletion, termed progerin. We previously reported the generation of a transgenic murine model of progeria carrying a human BAC harboring the common mutation, G608G, which in the single‐copy state develops features of HGPS that are limited to the vascular system. Here, we report the phenotype of mice bred to carry two copies of the BAC, which more completely recapitulate the phenotypic features of HGPS in skin, adipose, skeletal, and vascular tissues. We further show that genetic reduction of the mechanistic target of rapamycin (mTOR) significantly extends lifespan in these mice, providing a rationale for pharmacologic inhibition of the mTOR pathway in the treatment of HGPS.     

Multi-generation genomic prediction of maize yield using parametric and non-parametric sparse selection indices

Genomic prediction models are often calibrated using multi-generation data. Over time, as data accumulates, training data sets become increasingly heterogeneous. Differences in allele frequency and linkage disequilibrium patterns between the training and prediction genotypes may limit prediction accuracy. This leads to the question of whether all available data or a subset of it should be used to calibrate genomic prediction models. Previous research on training set optimization has focused on identifying a subset of the available data that is optimal for a given prediction set. However, this approach does not contemplate the possibility that different training sets may be optimal for different prediction genotypes. To address this problem, we recently introduced a sparse selection index (SSI) that identifies an optimal training set for each individual in a prediction set. Using additive genomic relationships, the SSI can provide increased accuracy relative to genomic-BLUP (GBLUP). Non-parametric genomic models using Gaussian kernels (KBLUP) have, in some cases, yielded higher prediction accuracies than standard additive models. Therefore, here we studied whether combining SSIs and kernel methods could further improve prediction accuracy when training genomic models using multi-generation data. Using four years of doubled haploid maize data from the International Maize and Wheat Improvement Center (CIMMYT), we found that when predicting grain yield the KBLUP outperformed the GBLUP, and that using SSI with additive relationships (GSSI) lead to 5–17% increases in accuracy, relative to the GBLUP. However, differences in prediction accuracy between the KBLUP and the kernel-based SSI were smaller and not always significant.Subject terms: Quantitative trait, Genetic models