Ablative response of a silica phenolic to simulated liquid propellant rocket engine operating conditions

Ablative response of silica phenolic to simulated liquid propellant rocket engine operating condition

De novo formation of an aggregation pheromone precursor by an isoprenyl diphosphate synthase-related terpene synthase in the harlequin bug.

Insects use a diverse array of specialized terpene metabolites as pheromones in intraspecific interactions. In contrast to plants and microbes, which employ enzymes called terpene synthases (TPSs) to synthesize terpene metabolites, limited information from few species is available about the enzymatic mechanisms underlying terpene pheromone biosynthesis in insects. Several stink bugs (Hemiptera: Pentatomidae), among them severe agricultural pests, release 15-carbon sesquiterpenes with a bisabolene skeleton as sex or aggregation pheromones. The harlequin bug, Murgantia histrionica, a specialist pest of crucifers, uses two stereoisomers of 10,11-epoxy-1-bisabolen-3-ol as a male-released aggregation pheromone called murgantiol. We show that MhTPS (MhIDS-1), an enzyme unrelated to plant and microbial TPSs but with similarity to trans-isoprenyl diphosphate synthases (IDS) of the core terpene biosynthetic pathway, catalyzes the formation of (1S,6S,7R)-1,10-bisaboladien-1-ol (sesquipiperitol) as a terpene intermediate in murgantiol biosynthesis. Sesquipiperitol, a so-far-unknown compound in animals, also occurs in plants, indicating convergent evolution in the biosynthesis of this sesquiterpene. RNAi-mediated knockdown of MhTPS mRNA confirmed the role of MhTPS in murgantiol biosynthesis. MhTPS expression is highly specific to tissues lining the cuticle of the abdominal sternites of mature males. Phylogenetic analysis suggests that MhTPS is derived from a trans-IDS progenitor and diverged from bona fide trans-IDS proteins including MhIDS-2, which functions as an (E,E)-farnesyl diphosphate (FPP) synthase. Structure-guided mutagenesis revealed several residues critical to MhTPS and MhFPPS activity. The emergence of an IDS-like protein with TPS activity in M. histrionica demonstrates that de novo terpene biosynthesis evolved in the Hemiptera in an adaptation for intraspecific communication

Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus

Background. Bracoviruses (BVs), a group of double-stranded DNA viruses with segmented genomes, are mutualistic endosymbionts of parasitoid wasps. Virus particles are replication deficient and are produced only by female wasps from proviral sequences integrated into the wasp genome. Virus particles are injected along with eggs into caterpillar hosts, where viral gene expression facilitates parasitoid survival and therefore perpetuation of proviral DNA. Here we describe a 223 kbp region of Glyptapanteles indiensis genomic DNA which contains a part of the G. indiensis bracovirus (GiBV) proviral genome. Results. Eighteen of ∼24 GiBV viral segment sequences are encoded by 7 non-overlapping sets of BAC clones, revealing that some proviral segment sequences are separated by long stretches of intervening DNA. Two overlapping BACs, which contain a locus of 8 tandemly arrayed proviral segments flanked on either side by ∼35 kbp of non-packaged DNA, were sequenced and annotated. Structural and compositional analyses of this cluster revealed it exhibits a G+C and nucleotide composition distinct from the flanking DNA. By analyzing sequence polymorphisms in the 8 GiBV viral segment sequences, we found evidence for widespread selection acting on both protein-coding and non-coding DNA. Comparative analysis of viral and proviral segment sequences revealed a sequence motif involved in the excision of proviral genome segments which is highly conserved in two other bracoviruses. Conclusion. Contrary to current concepts of bracovirus proviral genome organization our results demonstrate that some but not all GiBV proviral segment sequences exist in a tandem array. Unexpectedly, non-coding DNA in the 8 proviral genome segments which typically occupies ∼70% of BV viral genomes is under selection pressure suggesting it serves some function(s). We hypothesize that selection acting on GiBV proviral sequences maintains the genetic island-like nature of the cluster of proviral genome segments described herein. In contrast to large differences in the predicted gene composition of BV genomes, sequences that appear to mediate processes of viral segment formation, such as proviral segment excision and circularization, appear to be highly conserved, supporting the hypothesis of a single origin for BVs. © 2007 Desjardins et al; licensee BioMed Central Ltd

Keeping your Friends Secret: Improving the Security, Effciency and Usability of Private Set Intersection

Private set intersection (PSI) allows two parties, who each hold a set of items, to compute the intersection of those sets without revealing anything about other items. Recent advances in PSI have significantly improved its performance for the case of semi-honest security, making semi-honest PSI a practical alternative to insecure methods for computing intersections. However, these protocols have two major drawbacks: 1) the amount of data required to be communicated can be orders of magnitude larger than an insecure solution and 2) when in the presence of malicious parties the security of these protocols breaks down. In this work, four malicious secure PSI protocols are introduced along with three semi-honest protocols which have sublinear communication. These protocols are based on a combination of fast symmetric-key primitives and fully homomorphic encryption. Three of these protocols represent the current state of the art for their respective settings. The practicality of these protocols are demonstrated with prototype implementations. To securely compute the intersection of two sets of size 2²⁰ in the malicious setting requires only 13 seconds, which is ~ 450x faster than the previous best malicious-secure protocol (De Cristofaro et al, Asiacrypt 2010), and only 3x slower than the best semi-honest protocol (Kolesnikov et al., CCS 2016). Alternatively, when computing the intersection between set sizes of 2¹⁰ and 2²⁸, our fastest protocol require just 6 seconds and 5MB of communication

Gene content evolution in the arthropods

Arthropods comprise the largest and most diverse phylum on Earth and play vital roles in nearly every ecosystem. Their diversity stems in part from variations on a conserved body plan, resulting from and recorded in adaptive changes in the genome. Dissection of the genomic record of sequence change enables broad questions regarding genome evolution to be addressed, even across hyper-diverse taxa within arthropods. Using 76 whole genome sequences representing 21 orders spanning more than 500 million years of arthropod evolution, we document changes in gene and protein domain content and provide temporal and phylogenetic context for interpreting these innovations. We identify many novel gene families that arose early in the evolution of arthropods and during the diversification of insects into modern orders. We reveal unexpected variation in patterns of DNA methylation across arthropods and examples of gene family and protein domain evolution coincident with the appearance of notable phenotypic and physiological adaptations such as flight, metamorphosis, sociality, and chemoperception. These analyses demonstrate how large-scale comparative genomics can provide broad new insights into the genotype to phenotype map and generate testable hypotheses about the evolution of animal diversity

Early Gnathostome Phylogeny Revisited: Multiple Method Consensus

This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.A series of recent studies recovered consistent phylogenetic scenarios of jawed vertebrates, such as the paraphyly of placoderms with respect to crown gnathostomes, and antiarchs as the sister group of all other jawed vertebrates. However, some of the hylogenetic relationships within the group have remained controversial, such as the positions of Entelognathus, ptyctodontids, and the Guiyu-lineage that comprises Guiyu, Psarolepis and Achoania. The revision of the dataset in a recent study reveals a modified phylogenetic hypothesis, which shows that some of these phylogenetic conflicts were sourced from a few inadvertent miscodings. The interrelationships of early gnathostomes are addressed based on a combined new dataset with 103 taxa and 335 characters, which is the most comprehensive morphological dataset constructed to date. This dataset is investigated in a phylogenetic context using maximum parsimony (MP), Bayesian inference (BI) and maximum likelihood (ML) approaches in an attempt to explore the consensus and incongruence between the hypotheses of early gnathostome interrelationships recovered from different methods. Our findings consistently corroborate the paraphyly of placoderms, all `acanthodians' as a paraphyletic stem group of chondrichthyans, Entelognathus as a stem gnathostome, and the Guiyu-lineage as stem sarcopterygians. The incongruence using different methods is less significant than the consensus, and mainly relates to the positions of the placoderm Wuttagoonaspis, the stem chondrichthyan Ramirosuarezia, and the stem osteichthyan LophosteusÐthe taxa that are either poorly known or highly specialized in character complement. Given that the different performances of each phylogenetic approach, our study provides an empirical case that the multiple phylogenetic analyses of morphological data are mutually complementary rather than redundant

Private Identity Agreement for Private Set Functionalities

Private set intersection and related functionalities are among the most prominent real-world applications of secure multiparty computation. While such protocols have attracted significant attention from the research community, other functionalities are often required to support a PSI application in practice. For example, in order for two parties to run a PSI over the unique users contained in their databases, they might first invoke on a support functionality to agree on the primary keys to represent their users. This paper studies a secure approach to agreeing on primary keys. We introduce and realize a functionality that computes a common set of identifiers based on incomplete information held by two parties, which we refer to as private identity agreement. We explain the subtleties in designing such a functionality that arise from privacy requirements when intending to compose securely with PSI protocols. We also argue that the cost of invoking this functionality can be amortized over a large number of PSI sessions, and that for applications that require many repeated PSI executions, this represents an improvement over a PSI protocol that directly uses incomplete or fuzzy matches

Comparative genomics of mutualistic viruses of Glyptapanteles parasitic wasps

Comparative genome analysis of two endosymbiotic polydnaviruses from Glyptapanteles parasitic wasps reveals new insights into the evolutionary arms race between host and parasite

Combining Private Set-Intersection with Secure Two-Party Computation

Private Set-Intersection (PSI) is one of the most popular and practically relevant secure two-party computation (2PC) tasks. Therefore, designing special-purpose PSI protocols (which are more efficient than generic 2PC solutions) is a very active line of research. In particular, a recent line of work has proposed PSI protocols based on oblivious transfer (OT) which, thanks to recent advances in OT-extension techniques, is nowadays a very cheap cryptographic building block. Unfortunately, these protocols cannot be plugged into larger 2PC applications since in these protocols one party (by design) learns the output of the intersection. Therefore, it is not possible to perform secure post-processing of the output of the PSI protocol. In this paper we propose a novel and efficient OT-based PSI protocol that produces an encrypted output that can therefore be later used as an input to other 2PC protocols. In particular, the protocol can be used in combination with all common approaches to 2PC including garbled circuits, secret sharing and homomorphic encryption. Thus, our protocol can be combined with the right 2PC techniques to achieve more efficient protocols for computations of the form $z=f(X\cap Y)$ for arbitrary functions $f$