Structural characterization of the putative ABC-type 2 transporter from Thermotoga maritima MSB8

This study describes the structure of the putative ABC-type 2 transporter TM0543 from Thermotoga maritima MSB8 determined at a resolution of 2.3 Å. In comparative sequence-clustering analysis, TM0543 displays similarity to NatAB-like proteins, which are components of the ABC-type Na⁺ efflux pump permease. However, the overall structure fold of the predicted nucleotide-binding domain reveals that it is different from any known structure of ABC-type efflux transporters solved to date. The structure of the putative TM0543 domain also exhibits different dimer architecture and topology of its presumed ATP binding pocket, which may indicate that it does not bind nucleotide at all. Structural analysis of calcium ion binding sites found at the interface between TM0543 dimer subunits suggests that protein may be involved in ion-transporting activity. A detailed analysis of the protein sequence and structure is presented and discussed.     

Structural and Functional Characterization of DUF1471 Domains of Salmonella Proteins SrfN,YdgH/SssB,and YahO

Bacterial species in the Enterobacteriaceae typically contain multiple paralogues of a small domain of unknown function (DUF1471) from a family of conserved proteins also known as YhcN or BhsA/McbA. Proteins containing DUF1471 may have a single or three copies of this domain. Representatives of this family have been demonstrated to play roles in several cellular processes including stress response, biofilm formation, and pathogenesis. We have conducted NMR and X-ray crystallographic studies of four DUF1471 domains from Salmonella representing three different paralogous DUF1471 subfamilies: SrfN, YahO, and SssB/YdgH (two of its three DUF1471 domains: the N-terminal domain I (residues 21–91), and the C-terminal domain III (residues 244–314)). Notably, SrfN has been shown to have a role in intracellular infection by Salmonella Typhimurium. These domains share less than 35% pairwise sequence identity. Structures of all four domains show a mixed α+β fold that is most similar to that of bacterial lipoprotein RcsF. However, all four DUF1471 sequences lack the redox sensitive cysteine residues essential for RcsF activity in a phospho-relay pathway, suggesting that DUF1471 domains perform a different function(s). SrfN forms a dimer in contrast to YahO and SssB domains I and III, which are monomers in solution. A putative binding site for oxyanions such as phosphate and sulfate was identified in SrfN, and an interaction between the SrfN dimer and sulfated polysaccharides was demonstrated, suggesting a direct role for this DUF1471 domain at the host-pathogen interface.     

Functional Convergence of Oxylipin and Abscisic Acid Pathways Controls Stomatal Closure in Response to Drought

Membranes are primary sites of perception of environmental stimuli. Polyunsaturated fatty acids are major structural constituents of membranes that also function as modulators of a multitude of signal transduction pathways evoked by environmental stimuli. Different stresses induce production of a distinct blend of oxygenated polyunsaturated fatty acids, “oxylipins.” We employed three Arabidopsis (Arabidopsis thaliana) ecotypes to examine the oxylipin signature in response to specific stresses and determined that wounding and drought differentially alter oxylipin profiles, particularly the allene oxide synthase branch of the oxylipin pathway, responsible for production of jasmonic acid (JA) and its precursor 12-oxo-phytodienoic acid (12-OPDA). Specifically, wounding induced both 12-OPDA and JA levels, whereas drought induced only the precursor 12-OPDA. Levels of the classical stress phytohormone abscisic acid (ABA) were also mainly enhanced by drought and little by wounding. To explore the role of 12-OPDA in plant drought responses, we generated a range of transgenic lines and exploited the existing mutant plants that differ in their levels of stress-inducible 12-OPDA but display similar ABA levels. The plants producing higher 12-OPDA levels exhibited enhanced drought tolerance and reduced stomatal aperture. Furthermore, exogenously applied ABA and 12-OPDA, individually or combined, promote stomatal closure of ABA and allene oxide synthase biosynthetic mutants, albeit most effectively when combined. Using tomato (Solanum lycopersicum) and Brassica napus verified the potency of this combination in inducing stomatal closure in plants other than Arabidopsis. These data have identified drought as a stress signal that uncouples the conversion of 12-OPDA to JA and have revealed 12-OPDA as a drought-responsive regulator of stomatal closure functioning most effectively together with ABA.To colonize a diverse range of environments successfully, plants have developed converging functional pathways to synthesize an array of secondary metabolites for their protection against hostile conditions. For example, in response to environmental challenges, the oxylipin pathway induces the de novo synthesis of biologically active compounds called “oxylipins,” derivatives of oxygenated polyunsaturated fatty acids (Feussner and Wasternack, 2002; Howe and Schilmiller, 2002). Among the oxylipin pathways, the enzymes allene oxide synthase (AOS) and hydroperoxide lyase (HPL) are considered to partition two major branches that compete for the same substrates and are critical plant stress response pathways (Chehab et al., 2008).Production of the AOS pathway metabolites 12-oxo-phytodienoic acid (12-OPDA) and jasmonic acid (JA) originates from α-linolenic acid of chloroplast membranes (Feussner and Wasternack, 2002). Oxygenation of α-linolenic acid by a 13-lipoxygenase followed by the action of AOS forms an unstable allene oxide that is subsequently cyclized by an allene oxide cyclase to form 12-OPDA (Stenzel et al., 2012). 12-OPDA is the end product of the plastid-localized part of the pathway (Stintzi and Browse, 2000; Schaller and Stintzi, 2009). 12-OPDA is then translocated to the peroxisome where it is reduced by 12-OPDA reductase3 (OPR3) and subsequently activated by CoA ester prior to undergoing three rounds of β-oxidation to form JA (Schaller et al., 2000; Koo et al., 2006; Kienow et al., 2008). 12-OPDA is also a signaling molecule with both overlapping and distinct functions from JA. The Arabidopsis (Arabidopsis thaliana) opr3 mutant is deficient in JA synthesis but accumulates 12-OPDA and displays wild-type resistance to the dipteran Bradysia impatiens and to the fungal pathogen Alternaria brassicicola, generally considered JA-dependent responses (Stintzi et al., 2001). In addition, expression studies have identified genes induced by 12-OPDA but not by JA or methyl jasmonate (MeJA; Kramell et al., 2000; Stintzi et al., 2001; Taki et al., 2005; Ribot et al., 2008). These studies collectively show that 12-OPDA mediates gene expression with or without the canonical JA signaling framework (Stintzi et al., 2001; Taki et al., 2005; Ribot et al., 2008).The HPL branch of the oxylipin pathway produces aldehydes and corresponding alcohols. The first enzyme in the pathway is encoded by one or more HPL genes, differing in their subcellular localization, including microsomes (Pérez et al., 1999), lipid bodies (Mita et al., 2005), and the outer envelope of chloroplasts (Froehlich et al., 2001), and in some cases, with no specific localization in a particular organelle (Noordermeer et al., 2000). This variation in the number of genes and subcellular localization of their encoded enzymes is suggestive of the differential regulation of this pathway and, ultimately, the diversity of their responses, potentially tailored to the nature of stimuli.We have previously identified three rice (Oryza sativa) HPLs (HPL1 through HPL3) differing in their enzyme kinetics and substrate preference. Expression of these enzymes in Arabidopsis accession Columbia (Col-0), a natural hpl loss-of-function mutant, reestablished the production of the pathway metabolites (Chehab et al., 2006) and revealed the key role of HPL-derived metabolites in plant stress signaling (Chehab et al., 2008).The HPL and AOS branches of the oxylipin pathway do not function independently; the signaling crosstalk between them is key to fine tuning plant adaptive responses to a diverse range of perturbations (Halitschke et al., 2004; Liu et al., 2012; Scala et al., 2013).To gain deeper insight into the role of AOS- and HPL-derived metabolites in fine-tuning plant stress responses, we have (1) characterized the corresponding oxylipin signatures in response to wounding and drought in three Arabidopsis ecotypes, (2) generated a range of transgenic lines that produce varying blends of oxylipins tailored to the nature of the stress, (3) elucidated a JA-independent role for 12-OPDA in enhanced drought tolerance in part via regulation of stomatal aperture, and (4) reexamined the 12-OPDA-mediated regulation of stomatal aperture, alone or in combination with abscisic acid (ABA) in the model system Arabidopsis as well as in two crop species, namely tomato (Solanum lycopersicum) and Brassica napus. Unexpectedly, these analyses have identified drought as a stress signal that uncouples the conversion of 12-OPDA to JA and have revealed that 12-OPDA is a previously unrecognized regulator of stomatal closure in response to drought. This function of 12-OPDA, however, is most effective when combined with ABA, a phytohormone known to be essential for plant-adaptive responses to drought stress (Seki et al., 2007).     

Molecular basis of formaldehyde detoxification. Characterization of two S-formylglutathione hydrolases from Escherichia coli, FrmB and YeiG

The Escherichia coli genes frmB (yaiM) and yeiG encode two uncharacterized proteins that share 54% sequence identity and contain a serine esterase motif. We demonstrated that purified FrmB and YeiG have high carboxylesterase activity against the model substrates, p-nitrophenyl esters of fatty acids (C2-C6) and alpha-naphthyl acetate. However, both proteins had the highest hydrolytic activity toward S-formylglutathione, an intermediate of the glutathione-dependent pathway of formaldehyde detoxification. With this substrate, both proteins had similar affinity (Km = 0.41-0.43 mM), but FrmB was almost 5 times more active. Alanine replacement mutagenesis of YeiG demonstrated that Ser145, Asp233, and His256 are absolutely required for activity, indicating that these residues represent a serine hydrolase catalytic triad in this protein and in other S-formylglutathione hydrolases. This was confirmed by inspecting the crystal structure of the Saccharomyces cerevisiae S-formylglutathione hydrolase YJG8 (Protein Data Bank code 1pv1), which has 45% sequence identity to YeiG. The structure revealed a canonical alpha/beta-hydrolase fold and a classical serine hydrolase catalytic triad (Ser161, His276, Asp241). In E. coli cells, the expression of frmB was stimulated 45-75 times by the addition of formaldehyde to the growth medium, whereas YeiG was found to be a constitutive enzyme. The simultaneous deletion of both frmB and yeiG genes was required to increase the sensitivity of the growth of E. coli cells to formaldehyde, suggesting that both FrmB and YeiG contribute to the detoxification of formaldehyde. Thus, FrmB and YeiG are S-formylglutathione hydrolases with a Ser-His-Asp catalytic triad involved in the detoxification of formaldehyde in E. coli.     

Distribution Peculiarities of the Sand (<Emphasis Type="Italic">Riparia riparia</Emphasis> Linnaeus 1758) Martin and the Pale Sand (<Emphasis Type="Italic">Riparia diluta</Emphasis> Sharpe et Wyatt 1893) Martin (Passeriformes,Hirundinidae) in the Sympatry Zone in Southern Central Siberia

The relationships between the sand martin (Riparia riparia Linnaeus 1758) and the pale sand martin (Riparia diluta Sharpe et Wyatt 1893) in sympatric conditions in southern Central Siberia are discussed. New data on the distribution patterns of these two closely related martin species in the study area, the location of the breeding colonies, and nesting in mixed-species colonies are presented. Information on the morphology and habitat preferences of R. riparia and R. diluta, including conesting species, is provided. In the sympatry zone in southern Central Siberia, the pale sand martin is shown to be more abundant, with mixed colonies of R. riparia and R. diluta also being found. Both species studied differ significantly in the morphometric characters. When looking for the location of a breeding colony, R. riparia and R. diluta display different habitat requirements.     

Context matters: On the road to responsible biosafety technologies in synthetic biology

Biosafety is a major challenge for developing for synthetic organisms. An early focus on application and their context could assist with the design of appropriate genetic safeguards. Subject Categories: Synthetic Biology & Biotechnology, S&S: Economics & Business

One of the goals of synthetic biology is the development of robust chassis cells for their application in medicine, agriculture, and the food, chemical and environmental industries. These cells can be streamlined by removing undesirable features and can be augmented with desirable functionalities to design an optimized organism. In a direct analogy with a car chassis, they provide the frame for different modules or “plug‐in” regulatory networks, metabolic pathways, or safety elements. In an effort to ensure a safe microbial chassis upfront, safety measures are implemented as genetic safeguards to limit risks such as unwanted cellular proliferation or horizontal gene transfer. Examples of this technology include complex genetic circuits, sophisticated metabolic dependencies (auxotrophies), and altered genomes (Schmidt & de Lorenzo, 2016; Asin‐Garcia et al, 2020). Much like seat belts or airbags in cars, these built‐in measures increase the safety of the chassis and of any organisms derived from it. Indeed, when it comes to safety, synthetic biology can still learn from a century‐old technology such as cars about the significance of context for the development of biosafety technologies.Every car today has seat belts installed by default. Yet, seat belts were not always a standard component; in fact, they were not even designed for cars to begin with. The original 2‐point belts were first used in aviation and only slowly introduced for motorized vehicles. Only after some redesign, the now‐common 3‐point car seat belts would become the life‐saving equipment that they are today. A proper understanding of the context of their application was therefore one of the crucial factors for their success and wide adoption. Context matters: It provides meaning for and defines what a technological application is best suited for. What was true for seat belts may be also true for biosafety technologies such as genetic safeguards.

… when it comes to safety, synthetic biology can still learn from a century‐old technology such as cars about the significance of context for the development of biosafety technologies.

Society has a much higher awareness of technology’s risks compared to the early days of cars. Society today requires that technological risks are anticipated and assessed before an innovation or its applications are widely deployed. In addition, society increasingly demands that research and innovation take into account societal needs and values. This has led to, among others, the Responsible Research and Innovation (RRI; von Schomberg, 2013) concept that has become prominent in European science policy. In a nutshell, RRI requires that innovative products and processes align with societal needs, expectations, and values in consultation with stakeholders. RRI and similar frameworks suggest that synthetic biology must anticipate and respond not only to risks, but also to societal views that frame its evaluation and risk assessment.     

The interaction of perception and attention at different stages in individual development

In the study carried out on children aged 10 years (51 persons), subjects aged 16-17 (11) and adults (19) characteristics of the perception and attention interaction were studied by means of electrophysiological parameters analysis (ERP, CNV, EEG) of the process of solution of various visual tasks. It has been shown that adequate brain provision of this process is based in adults both on the functional topographic differentiation and specialization of separate perceptive operations and on the possibility of controlling generalized and local activating influences according to task requirements. In children aged 10, not differing from the adults by the success of the perceptive activity, age peculiarities of its strategy are revealed connected with functional brain organization. Basic distinctive features of children perceptive activity are intensified regional specificity manifested both in responses to relevant and non-relevant stimuli, and excessive generalized activation testifying to incomplete structural-functional maturation of the frontal regions of the cerebral cortex. Increasing functional activity of these structures in ontogenesis provides for the selectivity of perceptive, cognitive and activating processes, adequate to the requirements of the task.     

Tolerance to standard and non-ionic contrast media in patients with ischemic heart disease and stable angina pectoris during coronary angiography]

Angiography of the coronary arteries with iohexol was carried out in 45 coronary patients with stable angina pectoris and that with diatrizoate in another group of 45 similar patients. Iohexol was tolerated better that diatrizoate. Physiological and hemodynamic side effects of iohexol were less marked than those of diatrizoate.