Chemical convergence between a guild of facultative myrmecophilous caterpillars and host plants

1. Ants exert strong selective pressure on herbivorous insects, although some caterpillars can live in symbiosis with them using chemical defensive strategies.
2. We investigated the adaptive resemblance of cuticular hydrocarbons (CHCs) in multitrophic systems involving a guild of facultative myrmecophilous caterpillar species (Lepidoptera: Lycaenidae), tending ants (Hymenoptera: Formicidae), and host plants from three families. We hypothesised that the CHCs of the caterpillars would resemble those of their host plants (chemical camouflage).
3. We analysed CHCs using gas chromatography/mass spectrometry. Morisita's similarity index (SI) was used to compare CHC profiles of caterpillar species with different types of ant associations (commensal or mutualistic), ants, and host plants.
4. We found strong convergence between caterpillars' CHCs and plants, especially for commensal species that do not provide secretion rewards for ants. Moreover, we found unexpected chemical convergence among mutualistic (trophobiotic) caterpillar species that offer caloric reward secretions to ants.
5. These results show that the studied caterpillars acquire CHCs through their diet and that they vary according to host plant species and type of ant association (commensalism or mutualism). This ‘chemical camouflage’ of myrmecophilous caterpillars may have arisen as a defensive strategy allowing coexistence with ants on plants, whereas ‘chemical conspicuousness’ may have evolved in the context of honest signalling between mutualistic partners.
6. We suggest the existence of chemical mimicry among myrmecophilous species, especially between mutualistic caterpillars. Cuticular chemical mixtures can play a key adaptive role in decreasing ant attacks and increasing caterpillar survival in multimodal sensory systems.

     

Identification of new candidate drugs for lung cancer using chemical–chemical interactions,chemical–protein interactions and a K-means clustering algorithm

Lung cancer, characterized by uncontrolled cell growth in the lung tissue, is the leading cause of global cancer deaths. Until now, effective treatment of this disease is limited. Many synthetic compounds have emerged with the advancement of combinatorial chemistry. Identification of effective lung cancer candidate drug compounds among them is a great challenge. Thus, it is necessary to build effective computational methods that can assist us in selecting for potential lung cancer drug compounds. In this study, a computational method was proposed to tackle this problem. The chemical–chemical interactions and chemical–protein interactions were utilized to select candidate drug compounds that have close associations with approved lung cancer drugs and lung cancer-related genes. A permutation test and K-means clustering algorithm were employed to exclude candidate drugs with low possibilities to treat lung cancer. The final analysis suggests that the remaining drug compounds have potential anti-lung cancer activities and most of them have structural dissimilarity with approved drugs for lung cancer.     

Cantharidin world in nature: a concealed arthropod assemblage with interactions via the terpenoid cantharidin

Cantharidin is produced by beetles of only two families, the Meloidae and the Oedemeridae. This substance is a defensive terpenoid that is toxic to the enemies of the beetles. Cantharidin also attracts other groups of insects and has been used as a bait to trap them. Cantharidin‐baited traps deployed in central Japan captured coleopterans (Anthicidae, Endomychidae, Pyrochroidae, and Scarabaeidae), dipterans (Ceratopogonidae), hymenopterans (Formicidae), and harvestmen (Podoctidae). The seasonal occurrences of these arthropods, their sex ratios, known feeding choices, and mating habits suggest three possible underlying reasons for the attractancy of cantharidin: (i) it is accumulated as a defense against enemies and sometimes for transfer from males to females as a nuptial gift; (ii) it is used as a chemical cue in food searching; and (iii) it is used as an aggregation pheromone by mature arthropod individuals. The group of canthariphilous arthropods we describe represents a cryptic ecological assemblage with rare chemical networking among apparently unrelated species.     

Chemical partitioning of Cu,Pb and Zn in the soil profile of a semi arid dry woodland

Abstract

The chemical partitioning of Cu, Pb and Zn was examined in the soil profile of the woodland system in Keoladeo National Park, India using a five-step sequential extraction procedure (SEP). Metal partitioning was assessed in the soil up to a depth of 100cm with 25-cm intervals. The amount of metals obtained from the SEP exceeded pseudototal metal levels obtained from aqua regia digestion. The SEP results showed high preferential attachment of metals with Fe—Mn hydroxides. All the three metals showed least preferences to the exchangeable pool. The attachment of metals to the OM-S phase was also less, may be because of the low organic matter in the soil. In the case of Cu, the order of the fractions in terms of metal concentrations was Fe—Mn>RES>OM-S>CA>EXC and in the case of Pb the order was Fe—Mn>OM-S>RES>CA>EXC. Zn was different from Cu and Pb in showing higher affinity towards RES phase and the order of its concentration was RES>Fe—Mn>OM-S>EXC>CA. This suggests hydrous oxides of Fe—Mn as an important binding site for Cu and Pb, whereas silicate mineral matrix (RES phase) for Zn.     

Investigating signal modalities of aposematism in a poison frog

Aposematic species combine a conspicuous signal with a secondary defence, the majority of which are studied in the context of a visual signal. While multimodality of the aposematic signal appears to be common in invertebrate species, we know very little about the presence or absence of multimodality in vertebrates. Here, we examine the possibility of multimodality of aposematism in the green-and-black poison frog, Dendrobates auratus. Using a non-visual predator (the cat-eyed snake, Leptodeira annulata) and extractions of chemicals in frog skins, we test whether there is sufficient non-visual information for predators to avoid this aposematic species without using visual cues. We found that experienced predators avoid chemicals in this poison frog's skin by olfactory cues alone in trials with live frogs and extracts from captive poison frogs, whereas extracts from wild poison frogs did not lead to avoidance behaviours in predators. Further, in our limited sampling, naïve predators demonstrate no avoidance. This not only indicates that predators can make informed decisions from the frog's odour, but also indicates that avoidance based on olfactory cue is a learned response.     

Implications of a statistical occurrence model for mixture toxicity estimation

This study provides a method for characterizing the effects of concentration variability and correlation among co-acting compounds on mixture toxicity, considering the implications of missing chemical data. The method is explored by developing a set of multiple occurrence scenarios for mixtures of related chemicals. The calculations are performed for hypothetical mixtures of a group of ten synthetic antibiotics that have been tested on marine bacterium to fit dose-response relationships for long-term bioluminescence inhibition of Vibrio fischeri. Mixture toxicities are computed and compared for the assumptions of independent joint action theory and concentration/dose addition theory. The study results show that higher variability in concentrations is associated with higher effective (average) mixture toxicity, in this application by as much as a factor of ten for mixtures with highly variable component concentrations. Moreover, omitting the most toxic compounds caused mixture toxicities to be underestimated by a factor of approximately two. We recommend a pre-assessment of the effect of different chemical occurrence patterns and variability on mixture toxicity to help prioritize needs for further co-occurrence data and toxicity studies.     

Low level of cuticular hydrocarbons in a parasitoid of a solitary digger wasp and its potential for concealment

Insect cuticular hydrocarbons (CHC) play a role as semiochemicals in many host–parasite systems and chemical mimicry or camouflage is a well-known mechanism of parasites to evade detection by the host. The cuckoo wasp Hedychrum rutilans (Hymenoptera, Chrysididae) is a parasitoid of larvae of the European beewolf Philanthus triangulum (Hymenoptera, Crabronidae). Females chemically mimic the cuticular hydrocarbons of their hosts to avoid detection and countermeasures when entering the host nest for oviposition. Here we report on a possible second mechanism of the chrysidid wasp H. rutilans to evade detection: the amount of CHC/mm² of cuticle is only approximately one-fifth compared to its beewolf host. Furthermore, we show that surprisingly large amounts of CHC of beewolf females can be found on the walls of the underground nest. Potentially, these hydrocarbons might constitute a background odor against which the cuckoo wasps or their chemical traces have to be perceived by the beewolf. The reduction in the amount of CHC of the cuckoo wasps might be equivalent to a dilution of recognition cues, especially against the background odor of the nest walls, and might provide a means to escape detection within the nest due to "chemical insignificance".     

Chemical compound navigator: a web-based chem-BLAST, chemical taxonomy-based search engine for browsing compounds

A novel technique to annotate, query, and analyze chemical compounds has been developed and is illustrated by using the inhibitor data on HIV protease-inhibitor complexes. In this method, all chemical compounds are annotated in terms of standard chemical structural fragments. These standard fragments are defined by using criteria, such as chemical classification; structural, chemical, or functional groups; and commercial, scientific or common names or synonyms. These fragments are then organized into a data tree based on their chemical substructures. Search engines have been developed to use this data tree to enable query on inhibitors of HIV protease (http://xpdb.nist.gov/hivsdb/hivsdb.html). These search engines use a new novel technique, Chemical Block Layered Alignment of Substructure Technique (Chem-BLAST) to search on the fragments of an inhibitor to look for its chemical structural neighbors. This novel technique to annotate and query compounds lays the foundation for the use of the Semantic Web concept on chemical compounds to allow end users to group, sort, and search structural neighbors accurately and efficiently. During annotation, it enables the attachment of "meaning" (i.e., semantics) to data in a manner that far exceeds the current practice of associating "metadata" with data by creating a knowledge base (or ontology) associated with compounds. Intended users of the technique are the research community and pharmaceutical industry, for which it will provide a new tool to better identify novel chemical structural neighbors to aid drug discovery.     

Ceriometry,a combined method for chemical oxygen demand and dissolved oxygen (with a discussion on the precision of the winkler technique)

A ceriometric method is described in which Ce³⁺ salts are used for the determination of dissolved oxygen and Ce⁴⁺ salts for the determination of the chemical oxygen demand. The interference of COD in the O₂ determination, a common feature of most Winkler determinations, is corrected. The standard deviation is typically about 1% of the mean, and bias (inaccuracy) is very small.The method is simple, quick and reliable.The precision and accuracy of the Winkler method is discussed and compared with that of the Cerium method.     

Chemical modification of l-asparaginase from Escherichia coli with a modified polyethyleneglycol under substrate protection conditions

L-Asparaginase was chemically modified with 2,4-bis(O-methoxypolyethyleneglycol)-6-chloro-S-triazine (mPEG2) in the presence of L-asparagine. Optimal modification was performed under the condition that the molar ratio of mPEG2/-NH2 is 10. The modified enzyme retained 33% of initial enzymatic activity with complete abolishment of immunogenicity. In vitro half-life increment from 4.6 h to 33 h has been obtained.     

Water Quality and Biotic Community of a Highland Stream under the Influence of a Eutrophic Fishpond

The influence of the fishpond on the chemical composition of the stream was mainly demonstrated by a higher concentration of organic matter and total phosphorus. Altogether, 128 species of algae and cyanobacteria were recorded in the stream. The species richness of phytobenthos per site was very similar. We observed the presence of typical phytoplankton species among the phytobenthos assemblages. Cyanobacteria species (Woronichinia naegeliana) were particularly dominant in the phytoplankton of the fishpond in autumn. Altogether, we identified 164 taxa of benthic macroinvertebrates in running waters of the stream. The structure of macrozoobenthos communities from all localities of the stream indicated good water quality and a low influence of environmental stressors with no negative effects of the fishpond. In total, six fish species were registered in all profiles. The condition of the fish population was mainly influenced by the fishery management of the stream (stocking, angling). Generally, the influence of the discharge water from the fishpond was recognizable in small changes in both chemical and biological variables of the stream. (© 2011 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)     

Learning and discrimination of cuticular hydrocarbons in a social insect

Social insect cuticular hydrocarbon (CHC) mixtures are among the most complex chemical cues known and are important in nest-mate, caste and species recognition. Despite our growing knowledge of the nature of these cues, we have very little insight into how social insects actually perceive and discriminate among these chemicals. In this study, we use the newly developed technique of differential olfactory conditioning to pure, custom-designed synthetic colony odours to analyse signal discrimination in Argentine ants, Linepithema humile. Our results show that tri-methyl alkanes are more easily learned than single-methyl or straight-chain alkanes. In addition, we reveal that Argentine ants can discriminate between hydrocarbons with different branching patterns and the same chain length, but not always between hydrocarbons with the same branching patterns but different chain length. Our data thus show that biochemical characteristics influence those compounds that ants can discriminate between, and which thus potentially play a role in chemical signalling and nest-mate recognition.     

ORB, a homology-based program for the prediction of protein NMR chemical shifts

A computer program (ORB) has been developed to predict ¹H,¹³C and ¹⁵N NMR chemical shifts of previouslyunassigned proteins. The program makes use of the information contained in achemical shift database of previously assigned proteins supplemented by astatistically derived averaged chemical shift database in which the shifts arecategorized according to their residue, atom and secondary structure type[Wishart et al. (1991) J. Mol. Biol., 222, 311–333]. The predictionprocess starts with a multiple alignment of all previously assigned proteinswith the unassigned query protein. ORB uses the sequence and secondarystructure alignment program XALIGN for this task [Wishart et al. (1994)CABIOS, 10, 121–132; 687–688]. The prediction algorithm in ORB isbased on a scoring of the known shifts for each sequence. The scores dependon global sequence similarity, local sequence similarity, structuralsimilarity and residue similarity and determine how much weight one particularshift is given in the prediction process. In situations where no applicablepreviously assigned chemical shifts are available, the shifts derived from theaveraged database are used. In addition to supplying the user with predictedchemical shifts, ORB calculates a confidence value for every prediction. Theseconfidence values enable the user to judge which predictions are the mostaccurate and they are particularly useful when ORB is incorporated into acomplete autoassignment package. The usefulness of ORB was tested on threemedium-sized proteins: an interleukin-8 analog, a troponin C synthetic peptideheterodimer and cardiac troponin C. Excellent results are obtained if ORB isable to use the chemical shifts of at least one highly homologous sequence.ORB performs well as long as the sequence identity between proteins with knownchemical shifts and the new sequence is not less than 30%.     

Ammonia chemical ionization mass spectrometry of lecithins on a gold support

Lecithins directly introduced on a gold wire near the electron beam under ammonia chemical ionization conditions, give mass spectra showing the (M + 1)⁺ ion and ions of structurally significant fragments. Of particular interest is the identification of a substitution-like reaction of ammonia on the head group of the phosphatidylcholines. No instrumental modifications is required.     

Molecular Dynamics Simulations With First Order Coupling to a Bath of Constant Chemical Potential

Abstract

In molecular dynamics simulations the temperature or pressure can be controlled by applying a weak first-order coupling to a bath of constant temperature or pressure. This weak coupling technique to control system properties using a first-order relaxation equation is analyzed from a statistical mechanics point of view. It is shown, how the weak coupling scheme can be generalized and applied to a bath of contstant chemical potential. The presented method, to which in the following will be referred to as chemical potential weak coupling, is applied and tested on a Lennard-Jones fluid. The thermodynamic quantities known from the literature are accuratly reproduced.

The temperature and chemical potential weak coupling methods aim to sample the canonical and grand canonical ensembles respectively. By analyzing the fluctuations in energy and number of particles, the tight relation between the ensembles and the distributions obtained from the weak coupling simulations is demonstrated. The influence of the choice of the coupling parameters on the quality of the approximation of the ensemble distribution is discussed.     

Ultrafiltration,a useful method for isolation of intermediates in native chemical ligation exemplified with the total synthesis of Sortase AΔN59

In this paper, ultrafiltration was employed to facilitate the isolation of intermediates in native chemical ligation. Depending on the molecular weight cutoff of the membrane used, molecules with different sizes could be purified, separated, or concentrated by the ultrafiltration process. Total chemical synthesis of the polypeptide chain of the enzyme Sortase A_ΔN59 was used as an example of the application of ultrafiltration in chemical protein synthesis. Sortase A is a ligase that catalyzes transpeptidation reactions between proteins that have C‐terminal LPXTG recognition sequence and Gly5‐ on the peptidoglycan of bacterial cell walls [3]. Ultrafiltration technique facilitated synthesis of Sortase A_ΔN59 and was a promising tool in isolation of intermediates in native chemical ligation. Copyright © 2015 European Peptide Society and John Wiley & Sons, Ltd.     

Chemical regulators of plant hormones and their applications in basic research and agriculture*

Plant hormones are small molecules that play versatile roles in regulating plant growth, development, and responses to the environment. Classic methodologies, including genetics, analytic chemistry, biochemistry, and molecular biology, have contributed to the progress in plant hormone studies. In addition, chemical regulators of plant hormone functions have been important in such studies. Today, synthetic chemicals, including plant growth regulators, are used to study and manipulate biological systems, collectively referred to as chemical biology. Here, we summarize the available chemical regulators and their contributions to plant hormone studies. We also pose questions that remain to be addressed in plant hormone studies and that might be solved with the help of chemical regulators.     

Assessment of environmental contamination associated with a mammalian cell transformation assay

Summary To estimate worker exposures to, and environmental contamination from, test chemicals and organic solvents used in an in vitro assay to assess the carcinogenic potential of chemicals, sodium fluorescein, a noncarcinogenic fluorescent material, was dissolved in tissue culture medium used to maintain early passage hamster embryo cells. Personal and environmental samples were taken over a 14-d period. The assay was performed according to standard procedures in a ventilated glove box or laminar flow safety cabinet. Considerably more than 99% of the chemical contamination found was recovered from the interiors of the glove box and hood and from disposable equipment. Contamination outside the containment units (less than 1 μg) resulted from intralaboratory transport of chemicals, treated cultures, and contaminated equipment. We conclude that the standard operating practices and procedures provided adequate safeguards for personnel and the environment. Research sponsored by the National Cancer Institute under Contract N01-CO-75380, with Litton Bionetics, Inc.     

Efficient and systematic synthesis of a small glycoconjugate library having human complex type oligosaccharides

To prepare a small library of homogeneous glycoconjugates with varying oligosaccharide structures, a combinatorial strategy was employed. The target glycopeptide was divided into two peptide segments (A and B) and both were prepared by solid phase peptide synthesis. These peptides, which can be coupled by native chemical ligation through an amide bond, were subsequently coupled to two kinds of human complex type oligosaccharides. This process systematically afforded the desired glycoconjugate library.     

The chemical modification of cysteine-69 of rat liver fatty acid-binding protein (FABP): a fluorescence approach to FABP structure and function

Summary Hepatic-FABP was labelled at cysteine-69 with the fluorescent environmentally sensitive reporter group AEDANS. The labelled protein had an emission maximum at 465 nm indicating that cysteine-69 was buried in a non-polar environment. The modified protein was still able to bind ligands such as oleic acid, oleoyl CoA and haem. The affinity of AEDANS-FABP for haem was unaltered as compared with the native protein indicating that cysteine-69 must be remote from the ligand binding site. The binding of oleic acid did not significantly perturb the fluorescence emission spectrum of the fluorescent reporter group suggesting that there are not large conformational changes in the region of cysteine-69 on fatty acid binding. The binding of stoichiometric amounts of oleoyl CoA was accompanied by a small fluorescence enhancement which suggests that fatty acyl CoAs may interact with other regions of the FABP molecule not involved in fatty acid binding.Abbreviations FABP Fatty Acid-Binding Protein - AEDANS 5-[2-(Acetyl)aminoEthyl]Aminonaphthalene-1-Sulphonic Acid - AAEDANS 5-[2-(Iodoacetyl-AminolEthyl] aminonaphthalene-1-Sulphonic Acid - DTNB 5,5Dithiobis-(2-Nitrobenzoic acid)