Essential and checkpoint functions of budding yeast ATM and ATR during meiotic prophase are facilitated by differential phosphorylation of a meiotic adaptor protein, Hop1

A hallmark of the conserved ATM/ATR signalling is its ability to mediate a wide range of functions utilizing only a limited number of adaptors and effector kinases. During meiosis, Tel1 and Mec1, the budding yeast ATM and ATR, respectively, rely on a meiotic adaptor protein Hop1, a 53BP1/Rad9 functional analog, and its associated kinase Mek1, a CHK2/Rad53-paralog, to mediate multiple functions: control of the formation and repair of programmed meiotic DNA double strand breaks, enforcement of inter-homolog bias, regulation of meiotic progression, and implementation of checkpoint responses. Here, we present evidence that the multi-functionality of the Tel1/Mec1-to-Hop1/Mek1 signalling depends on stepwise activation of Mek1 that is mediated by Tel1/Mec1 phosphorylation of two specific residues within Hop1: phosphorylation at the threonine 318 (T318) ensures the transient basal level Mek1 activation required for viable spore formation during unperturbed meiosis. Phosphorylation at the serine 298 (S298) promotes stable Hop1-Mek1 interaction on chromosomes following the initial phospho-T318 mediated Mek1 recruitment. In the absence of Dmc1, the phospho-S298 also promotes Mek1 hyper-activation necessary for implementing meiotic checkpoint arrest. Taking these observations together, we propose that the Hop1 phospho-T318 and phospho-S298 constitute key components of the Tel1/Mec1- based meiotic recombination surveillance (MRS) network and facilitate effective coupling of meiotic recombination and progression during both unperturbed and challenged meiosis

Molecular evolution of HoxA13 and the multiple origins of limbless morphologies in amphibians and reptiles

Developmental processes and their results, morphological characters, are inherited through transmission of genes regulating development. While there is ample evidence that cis-regulatory elements tend to be modular, with sequence segments dedicated to different roles, the situation for proteins is less clear, being particularly complex for transcription factors with multiple functions. Some motifs mediating protein-protein interactions may be exclusive to particular developmental roles, but it is also possible that motifs are mostly shared among different processes. Here we focus on HoxA13, a protein essential for limb development. We asked whether the HoxA13 amino acid sequence evolved similarly in three limbless clades: Gymnophiona, Amphisbaenia and Serpentes. We explored variation in ω (dN/dS) using a maximum-likelihood framework and HoxA13sequences from 47 species. Comparisons of evolutionary models provided low ω global values and no evidence that HoxA13 experienced relaxed selection in limbless clades. Branch-site models failed to detect evidence for positive selection acting on any site along branches of Amphisbaena and Gymnophiona, while three sites were identified in Serpentes. Examination of alignments did not reveal consistent sequence differences between limbed and limbless species. We conclude that HoxA13 has no modules exclusive to limb development, which may be explained by its involvement in multiple developmental processes

A Page and Its Politics: Situating Kullinā Khālid Saʿīd in Egypt’s Ideological Landscape at the Time of Revolution

In discussions concerning the importance of social media in the 25January revolution, a central role is given to the "Kullinā Khālid Saʿīd" [We’re all Khaled Said] Facebook page. Using an advanced data collection and extraction application called Netvizz, a research team consisting of Arabists and Media studies specialists has collected and analysed all of the posts and comments exchanged through the page. This data set allows for a systematic analysis of the page. This article offers an outline of the ideological nature of "Kullinā Khālid Saʿīd", with particular emphasis on the "revolutionary" period between 1 January - 11 February 2011. It argues that the page shows no evidence of political bias in the sense of explicit favoring of a political group. Rather, the page constituted a community of users who abstained from using politically factional language. Reflecting the mood and concerns of the revolution’s grassroots masses, it clearly illustrates the disinclination to engage with formal politics

Hypersensitive cell death in plants : its mechanisms and role in plant defense against pathogens

This review is a recent update in the understanding of the hypersensitive response (HR) of plants with special consideration to the physiological and biochemical determinants in different model systems. Hypersensitive response is reviewed as a form of programmed cell death (PCD) representing one of the mechanisms of plant defence against diseases. Major signalling pathways and molecules that accompany the HR, such as proteolytic cascades, oxidative events and ethylene that are supposed to play a key role in the plant¿s cell death machinery are discussed. Special attention is paid to the HR in fruit species. Studies on plant PCD are shown to provide a clue to better understanding disease resistance processes in plants and to establish the evolutionary aspects of PCD similarities through animal and plant kingdoms

Watermelon production on stored rainwater in Sahelian sandy soils

Watermelon [Citrullus lanatus (Thumb) Matsun and Nakai ] is an important cash crop in West Africa where it is cultivated under rainfed conditions. The objective of this work was to identify best cultural practices for production of watermelons in the Sahel on stored rainwater in acid sandy soils. The experiments were carried out at the ICRISAT Sadore research center in Niger during two consecutive dry seasons, 2003 - 2004 and 2004 - 2005. Three soil management treatments were applied: microcatchments (also called half-moons), planting pits (also called zaï) and sowing on flat land. Each of these three treatments came with and without a soil amendment comprising of 500 g of manure mixed with 24 g of a complete (NPK) fertilizer (15-15-15) individually applied to each planting hill. Two watermelon cultivars were tested: ‘Malali’ and ‘Kaolack’. In each of the two years the experiments were sown on the 1st and on the 21st of September. Fruit and biomass yield, fruit Total Soluble Solids (TSS), days to fruiting and harvesting were determined. Soil fertility, root development and other physiological parameters were monitored to explain some of the differences between treatments. Soil amendments increased marketable yields from 1.3 to 3.5 tons ha-1 on average. Marketable yields at the first planting date were double the yields of the second planting date (3.2 vs. 1.6 tons ha-1). Yield differences were due to changes in fruit number not in fruit weight. Deep placement of soil amendments resulted in significant root development in deeper soil layers. Highest watermelon yields were achieved when sowing the Malali cultivar in amended planting pits on September 1st giving a yield of 8.2 tons ha-1

Plasmodium falciparum metacaspase PfMCA-1 triggers a z-VAD-fmk inhibitable protease to promote cell death.

Activation of proteolytic cell death pathways may circumvent drug resistance in deadly protozoan parasites such as Plasmodium falciparum and Leishmania. To this end, it is important to define the cell death pathway(s) in parasites and thus characterize proteases such as metacaspases (MCA), which have been reported to induce cell death in plants and Leishmania parasites. We, therefore, investigated whether the cell death function of MCA is conserved in different protozoan parasite species such as Plasmodium falciparum and Leishmania major, focusing on the substrate specificity and functional role in cell survival as compared to Saccharomyces cerevisae. Our results show that, similarly to Leishmania, Plasmodium MCA exhibits a calcium-dependent, arginine-specific protease activity and its expression in yeast induced growth inhibition as well as an 82% increase in cell death under oxidative stress, a situation encountered by parasites during the host or when exposed to drugs such as artemisins. Furthermore, we show that MCA cell death pathways in both Plasmodium and Leishmania, involve a z-VAD-fmk inhibitable protease. Our data provide evidence that MCA from both Leishmania and Plasmodium falciparum is able to induce cell death in stress conditions, where it specifically activates a downstream enzyme as part of a cell death pathway. This enzymatic activity is also induced by the antimalarial drug chloroquine in erythrocytic stages of Plasmodium falciparum. Interestingly, we found that blocking parasite cell death influences their drug sensitivity, a result which could be used to create therapeutic strategies that by-pass drug resistance mechanisms by acting directly on the innate pathways of protozoan cell death

An interlaboratory study of TEX86 and BIT analysis of sediments, extracts and standard mixtures.

Two commonly used proxies based on the distribution of glycerol dialkyl glycerol tetraethers (GDGTs) are the TEX86 (TetraEther indeX of 86 carbon atoms) paleothermometer for sea surface temperature reconstructions and the BIT (Branched Isoprenoid Tetraether) index for reconstructing soil organic matter input to the ocean. An initial round-robin study of two sediment extracts, in which 15 laboratories participated, showed relatively consistent TEX86 values (reproducibility ±3-4°C when translated to temperature) but a large spread in BIT measurements (reproducibility ±0.41 on a scale of 0-1). Here we report results of a second round-robin study with 35 laboratories in which three sediments, one sediment extract, and two mixtures of pure, isolated GDGTs were analyzed. The results for TEX86 and BIT index showed improvement compared to the previous round-robin study. The reproducibility, indicating interlaboratory variation, of TEX86 values ranged from 1.3 to 3.0°C when translated to temperature. These results are similar to those of other temperature proxies used in paleoceanography. Comparison of the results obtained from one of the three sediments showed that TEX86 and BIT indices are not significantly affected by interlaboratory differences in sediment extraction techniques. BIT values of the sediments and extracts were at the extremes of the index with values close to 0 or 1, and showed good reproducibility (ranging from 0.013 to 0.042). However, the measured BIT values for the two GDGT mixtures, with known molar ratios of crenarchaeol and branched GDGTs, had intermediate BIT values and showed poor reproducibility and a large overestimation of the "true" (i.e., molar-based) BIT index. The latter is likely due to, among other factors, the higher mass spectrometric response of branched GDGTs compared to crenarchaeol, which also varies among mass spectrometers. Correction for this different mass spectrometric response showed a considerable improvement in the reproducibility of BIT index measurements among laboratories, as well as a substantially improved estimation of molar-based BIT values. This suggests that standard mixtures should be used in order to obtain consistent, and molar-based, BIT values

The economics of low pressure drip irrigation and hand watering for vegetable production in the Sahel

Low pressure drip irrigation is being promoted in Sub Saharan Africa as an alternative to traditional methods of small scale irrigation of vegetables. The African Market Garden (AMG) is a horticultural production system for smallholders based on low-pressure drip irrigation combined with an improved crop management package. The agronomic and economic performance of the AMG is compared to two gardens irrigated manually with watering cans. One of these gardens is managed according to the same improved crop management package as in the AMG, this treatment is called Improved Management (IM). The other garden is managed according to common practices of vegetable producers in the area, this treatment is called the Farmer Practice (FP). Crop productivity, labor and water use were monitored for two vegetable species (okra and eggplants). The experiment was performed on-station in Niger on three adjacent 500 m2 plots in a sandy acid soil. It was found that improved crop management practices greatly enhance crop productivity over traditional methods at comparable production costs. The AMG gave higher crop yields and higher returns to investment than the treatments irrigated with watering cans. Labor accounts for up to 45% of the production cost in vegetable gardens irrigated by hand, where 80% of the producer time is spent on irrigation. The total labor requirement for the drip irrigated AMG was on average 1.1 man hours per day against 4.7 man hours per day for the Farmers Practice on a 500 m2 garden. Returns on labor are at least double for the AMG against the other treatments. The returns on land from eggplant were found to be US$1.7, 0.8 and 0.1 per m2 for the AMG, IM and FP respectively. The returns on water for the cultivation of eggplant are around US$ 2 per m3 in the AMG, against US$ 0.1 in the Farmers Practice. This experiment showed the strong positive impact of drip irrigation and improved crop management practices on profits at minimal environmental costs, indicating that transformation of existing practices poses a considerable potential towards sustainable agricultural developmen