Utilizing biomass energy for improving summer squash greenhouse productivity during the winter season

The objective of this present research is to use agricultural residues as a source of energy for heating greenhouses during winter seasons and sequestrating soil carbon dioxide through adding biochar to the soil media. To fulfill the objective of the research work, summer squash was transplanted in a constructed greenhouse and heated using an attached biomass-burning system. The performance of the attached biomass-burning system was experimentally studied under different agricultural residues (corn stalks, cotton stalks and okra stalks), heating fluids (water and oil) and air fan operating periods (10, 15 and 20 min/h). Results indicated that the biomass-burning system allowed increasing temperature and relative humidity inside the greenhouse up to 27.2 and 80 %, respectively. The maximum biomass-burning system efficiency of 81 % was achieved with the use of okra stalks as a source of energy and oil as a heating fluid side by side with adjusting the suction fan operating period at 15 min/h. Adding bio-charcoal to the soil media, enhanced the soil carbon, resulting in a total fresh yield of 3.7 and 2.9 kg/pot with a total number of leaves per plant of 55 and 47 leaves under conditions of with and without charcoal addition, respectively.     

Analysis of essential histidine residues of maize branching enzymes by chemical modification and site-directed mutagenesis

Incubation of maize branching enzyme, mBEI and mBEII, with 100 μM diethylpyrocarbonate (DEPC) rapidly inactivated the enzymes. Treatment of the DEPC-inactivated enzymes with 100–500 mM hydroxylamine restored the enzyme activities. Spectroscopic data indicated that the inactivation of BE with DEPC was the result of histidine modification. The addition of the substrate amylose or amylopectin retarded the enzyme inactivation by DEPC, suggesting that the histidine residues are important for substrate binding. In maize BEII, conserved histidine residues are in catalytic regions 1 (His320) and 4 (His508). His320 and His508 were individually replaced by Ala via site-directed mutagenesis to probe their role in catalysis. Expression of these mutants inE. coli showed a significant decrease of the activity and the mutant enzymes hadK _m values 10 times higher than the wild type. Therefore, residues His320 and His508 do play an important role in substrate binding.     

Diversity in the immune system: “Preconceived ideas” or ideas preconceived?

Two concepts of the evolution and regulation of expression of the combining site repertoire of the immune system, are compared. One view is based on the Associative Recognition Theory as formulated by the author and the other is based on the Idiotype Network Idea as conceived by Jerne. The two concepts are analyzed from the point of view of their logic, internal consistency and factual support.     

Hydrogen sulfide regulates abiotic stress tolerance and biotic stress resistance in Arabidopsis

Hydrogen sulfide (H2S) is an important gaseous molecule in various plant developmental processes and plant stress responses. In this study, the transgenic Arabidopsis thaliana plants with modulated exp...     

From lignocellulosic residues to market: Production and commercial potential of xylooligosaccharides

The updated definition of prebiotic expands the range of potential applications in which emerging xylooligosaccharides (XOS) can be used. It has been demonstrated that XOS exhibit prebiotic effects at lower amounts compared to others, making them competitively priced prebiotics. As a result, the industry is focused on developing alternative approaches to improve processes efficiency that can meet the increasing demand while reducing costs. Recent advances have been made towards greener and more efficient processes, by applying process integration strategies to produce XOS from costless lignocellulosic residues and using genetic engineering to create microorganisms that convert these residues to XOS. In addition, collecting more in vivo data on their performance will be key to achieve regulatory claims, greatly increasing XOS commercial value.     

A protocol for temporal calibration of general area cladograms

Aim To describe a protocol for incorporating a temporal dimension into historical biogeographical analysis, while maintaining the essential independence of all datasets, involving the generation of general area cladograms. Location Global. Methods General area cladograms (GACs) are a reconstruction of the evolutionary history of a set of areas and unrelated clades within those areas. Nodes on a GAC correspond to speciation events in a group of taxa; general nodes are those at which multiple unrelated clades speciate. We undertake temporal calibration of GACs using molecular clock estimates of splitting events between extant taxa as well as first appearance data from the fossil record. We present two examples based on re‐analysis of previously published data: first, a temporally calibrated GAC generated from secondary Brooks parsimony analysis (BPA) of six extant bird clades from the south‐west of North America using molecular clock estimates of divergence times; and second, an analysis of African Neogene mammals based on a phylogenetic analysis for comparing trees (PACT) analysis. Results A hypothetical example demonstrates how temporal calibration reveals potentially critical information about the timing of both unique and general events, while also illustrating instances of incongruence between dates generated from molecular clock estimates and fossils. For the African Neogene mammal dataset, our analysis reveals that most mammal clades underwent geodispersal associated with the Neogene climatic optimum (c. 16 Ma) and vicariant speciation in central Africa correlated with increased aridity and cooler temperatures around 2.5 Ma. Main conclusions Temporally calibrated GACs are valuable tools for assessing whether coordinated patterns of speciation are associated with large‐scale climatic or tectonic phenomena.     

The effect of organic matter on sedimentary phosphorus release in an Australian reservoir

Australian reservoirs, compared to much of the world, are subjected to extreme arid and semi-arid climatic conditions where dam volumes can range from near-empty to full, often with rapid filling events. P-release, after re-flooding of desiccated sediments, can be important to water quality, and can be further influenced by dried macrophyte, exposed as water recedes and incorporated into sediments. P-release from Lake Rowlands (New South Wales, Australia) sediments was studied under different aerobic and sterile conditions with five carbon source amendments to the sediment (the macrophyte Isoetes sp. in different stages of senescence and acetate). Sedimentary P-release involved a complex array of factors modified by aerobic, biotic and abiotic processes, organic matter breakdown, iron content of sediments and turbulence. Under aerobic conditions, P-release from sterile non-amended sediments and sterile macrophyte-amended sediments was greater than from non-sterile sediments. Under anaerobic conditions, P-release was maximal from non-sterile macrophyte-amended sediments, probably via pathways involving fermentative Fe³⁺-reducing bacteria where electrons are transferred from organic matter to amorphous Fe(OOH) leading to Fe²⁺ and consequent release of P. Macrophyte addition (whether fresh or dried) enhanced P-release under anaerobic compared with aerobic conditions. P-release from acetate-amended sediments appeared to involve acetate aerobes. The re-flooding of sediments, therefore, has the potential to create conditions that are conducive to aerobic sedimentary P-release and should be taken into account in management strategies adopted for reservoirs where levels are likely to fluctuate.     

An analysis approach to identify specific functional sites in orthologous proteins using sequence and structural information: Application to neuroserpin reveals regions that differentially regulate inhibitory activity

The analysis of sequence conservation is commonly used to predict functionally important sites in proteins. We have developed an approach that first identifies highly conserved sites in a set of orthologous sequences using a weighted substitution‐matrix‐based conservation score and then filters these conserved sites based on the pattern of conservation present in a wider alignment of sequences from the same family and structural information to identify surface‐exposed sites. This allows us to detect specific functional sites in the target protein and exclude regions that are likely to be generally important for the structure or function of the wider protein family. We applied our method to two members of the serpin family of serine protease inhibitors. We first confirmed that our method successfully detected the known heparin binding site in antithrombin while excluding residues known to be generally important in the serpin family. We next applied our sequence analysis approach to neuroserpin and used our results to guide site‐directed polyalanine mutagenesis experiments. The majority of the mutant neuroserpin proteins were found to fold correctly and could still form inhibitory complexes with tissue plasminogen activator (tPA). Kinetic analysis of tPA inhibition, however, revealed altered inhibitory kinetics in several of the mutant proteins, with some mutants showing decreased association with tPA and others showing more rapid dissociation of the covalent complex. Altogether, these results confirm that our sequence analysis approach is a useful tool that can be used to guide mutagenesis experiments for the detection of specific functional sites in proteins. Proteins 2015; 83:135–152. © 2014 Wiley Periodicals, Inc.     

N-glycosylation of zona glycoproteins during meiotic maturation is involved in sperm-zona pellucida interactions of porcine oocytes

The objective was to determine whether N-glycosylation of zona pellucida (ZP) glycoproteins occurred during meiotic maturation of porcine oocytes, and whether this had a role in fertilization. In the first of three experiments, carbohydrate residues in the ZP of in vitro matured porcine oocytes were blocked with various lectins and the influence of such blocking on sperm-ZP interactions was studied. The second experiment used a lectin-binding assay to determine whether the number of GlcNAc residues in ZP was changed by N-glycosylation during in vitro maturation (IVM) of porcine oocytes. The last experiment determined the effects of tunicamycin, a specific N-glycosylation inhibitor, for various intervals during IVM, on sperm-ZP interactions in porcine oocytes. The primary findings were that: 1) N-glycosylation of GlcNAc residues in porcine ZP occurred during the first 24 h of IVM; and 2) such glycosylation was indispensible for sperm-ZP interactions, e.g., number of sperm bound to ZP, acrosome-reacted sperm, sperm penetration rate, and level of polyspermy (P < 0.05). However, blocking N-glycosylation by tunicamycin treatment during IVM did not adversely influence the progression of oocytes to meiotic metaphase II and male pronucleus formation, indicating that this glycosylation was involved only in the initial stages of fertilization. We inferred that the increase in terminal GlcNAc residues in ZP glycoprotein through new N-glycosylation during the first 24 h of meiotic maturation played a critical role in porcine ZP acquiring the capacity to accept sperm.     

Temporal variation in phytoplankton beta diversity patterns and metacommunity structures across subtropical reservoirs

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