Memorial to Charles Alexander Baskerville (1928–2009)

Charles Alexander Baskerville captured our imagination, as a senior colleague in the practice of engineering geology in New York City. “Charlie” held the seat of master Big Apple Geologist during his matured career. He was the source, he knew the possibilities, he was aware of the pitfalls of this most geologically complex of American cities. His final work was his greatest reach—the four bedrock geologic quadrangles of the city. Baskerville mapped New York City for more than fifty years. He was sought and given access to sites of bedrock and bedrock/ overburden interface on the various capitol construction projects undertaken by the City of New York including City Water Tunnel #3. Charles Baskerville had a vision and a sense of duty about his profession: to make the most of his opportunity to practice and to teach applied geology in one of the most difficult of all territories known to geologists—America’s largest city. Professor Baskerville fully knew that the geologic complexities of New York City will never be known to the degree to which new and renovated engineered works can be insulated from huge potentials of cost impacts related to geologic conditions. What he did to improve this situation was to make the most of his determination to solve the emerging riddles and to teach many other geologists, engineers, and public officials to pay attention to what each generation of Big Apple geologists have left us as their legacy. Charlie will hold that record for the foreseeable future, for he worked smart, hard, and gave of his time and knowledge freely and openly

Characterization of bacterial operons consisting of two tubulins and a kinesin-like gene by the novel Two-Step Gene Walking method

Tubulins are still considered as typical proteins of Eukaryotes. However, more recently they have been found in the unusual bacteria Prosthecobacter (btubAB). In this study, the genomic organization of the btub-genes and their genomic environment were characterized by using the newly developed Two-Step Gene Walking method. In all investigated Prosthecobacters, btubAB are organized in a typical bacterial operon. Strikingly, all btub-operons comprise a third gene with similarities to kinesin light chain sequences. The genomic environments of the characterized btub-operons are always different. This supports the hypothesis that this group of genes represents an independent functional unit, which was acquired by Prosthecobacter via horizontal gene transfer. The newly developed Two-Step Gene Walking method is based on randomly primed polymerase chain reaction (PCR). It presents a simple workflow, which comprises only two major steps—a Walking-PCR with a single specific outward pointing primer (step 1) and the direct sequencing of its product using a nested specific primer (step 2). Two-Step Gene Walking proved to be highly efficient and was successfully used to characterize over 20 kb of sequence not only in pure culture but even in complex non-pure culture samples

Characterization and evolution of cell division and cell wall synthesis genes in the bacterial phyla Verrucomicrobia, Lentisphaerae, Chlamydiae and Planctomycetes and phylogenetic comparison with rRNA genes

In the past, studies on the relationships of the bacterial phyla Planctomycetes, Chlamydiae, Lentisphaerae, and Verrucomicrobia using different phylogenetic markers have been controversial. Investigations based on 16S rRNA sequence analyses suggested a relationship of the four phyla, showing the branching order Planctomycetes, Chlamydiae, Verrucomicrobia/Lentisphaerae. Phylogenetic analyses of 23S rRNA genes in this study also support a monophyletic grouping and their branching order—this grouping is significant for understanding cell division, since the major bacterial cell division protein FtsZ is absent from members of two of the phyla Chlamydiae and Planctomycetes. In Verrucomicrobia, knowledge about cell division is mainly restricted to the recent report of ftsZ in the closely related genera Prosthecobacter and Verrucomicrobium. In this study, genes of the conserved division and cell wall (dcw) cluster (ddl, ftsQ, ftsA, and ftsZ) were characterized in all verrucomicrobial subdivisions (1 to 4) with cultivable representatives (1 to 4). Sequence analyses and transcriptional analyses in Verrucomicrobia and genome data analyses in Lentisphaerae suggested that cell division is based on FtsZ in all verrucomicrobial subdivisions and possibly also in the sister phylum Lentisphaerae. Comprehensive sequence analyses of available genome data for representatives of Verrucomicrobia, Lentisphaerae, Chlamydiae, and Planctomycetes strongly indicate that their last common ancestor possessed a conserved, ancestral type of dcw gene cluster and an FtsZ-based cell division mechanism. This implies that Planctomycetes and Chlamydiae may have shifted independently to a non-FtsZ-based cell division mechanism after their separate branchings from their last common ancestor with Verrucomicrobia

Protein secretion and surface display in Gram-positive bacteria

The cell wall peptidoglycan of Gram-positive bacteria functions as a surface organelle for the transport and assembly of proteins that interact with the environment, in particular, the tissues of an infected host. Signal peptide-bearing precursor proteins are secreted across the plasma membrane of Gram-positive bacteria. Some precursors carry C-terminal sorting signals with unique sequence motifs that are cleaved by sortase enzymes and linked to the cell wall peptidoglycan of vegetative forms or spores. The sorting signals of pilin precursors are cleaved by pilus-specific sortases, which generate covalent bonds between proteins leading to the assembly of fimbrial structures. Other precursors harbour surface (S)-layer homology domains (SLH), which fold into a three-pronged spindle structure and bind secondary cell wall polysaccharides, thereby associating with the surface of specific Gram-positive microbes. Type VII secretion is a non-canonical secretion pathway for WXG100 family proteins in mycobacteria. Gram-positive bacteria also secrete WXG100 proteins and carry unique genes that either contribute to discrete steps in secretion or represent distinctive substrates for protein transport reactions

Hasbara 2.0: Israel’s Public Diplomacy in the Digital Age

The Internet has been a counter-public space for Palestinian liberation politics for over a decade, and digital technologies have become an increasingly important tool for solidarity groups across the world. However, the Israeli state and Zionist supporters worldwide are harnessing the same technologies and platforms to mobilize technology primarily to increase pro-Israel sentiments. The aims of this article are to examine hasbara [Israeli public diplomacy] through an exploration of similar diplomacy programmes; to illustrate how social media have affected the basic algorithms of hasbara; and to probe the assertions of hasbara in the light of pro-Palestinian solidarity. Through a study of public diplomacy, this article critically analyzes hasbara as a site of contestation and a method that is hampered by contradictions. On the one hand, there has been a massive growth in hasbara in recent years—indicated by the increase in funding for it and by its professionalized and centralized character; and on the other hand, hasbara has attracted sharp critiques in Israel for its reputed failures. To understand this contradiction, hasbara must be placed within the context of Israel’s settler-colonialism, which sets the state apart from other ‘post-conflict’ states. This article reviews the methods utilized in hasbara, as well as their readjustment in the context of recent wars. Events in 2014 illustrate that hasbara actually destabilizes Israel’s diplomacy. Online journalism and the suppression of solidarity for Palestine together stimulate more criticism and, in turn, help to shift public opinion. Paradoxically, therefore, adjustments (‘hasbara 2.0’) have underlined the image of Israel as a colonial power engaged in violent occupation

Towards an automated analysis of bacterial peptidoglycan structure.

Peptidoglycan (PG) is an essential component of the bacterial cell envelope. This macromolecule consists of glycan chains alternating N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides containing nonstandard amino acids. Structural analysis of PG usually involves enzymatic digestion of glycan strands and separation of disaccharide peptides by reversed-phase HPLC followed by collection of individual peaks for MALDI-TOF and/or tandem mass spectrometry. Here, we report a novel strategy using shotgun proteomics techniques for a systematic and unbiased structural analysis of PG using high-resolution mass spectrometry and automated analysis of HCD and ETD fragmentation spectra with the Byonic software. Using the PG of the nosocomial pathogen Clostridium difficile as a proof of concept, we show that this high-throughput approach allows the identification of all PG monomers and dimers previously described, leaving only disambiguation of 3-3 and 4-3 cross-linking as a manual step. Our analysis confirms previous findings that C. difficile peptidoglycans include mainly deacetylated N-acetylglucosamine residues and 3-3 cross-links. The analysis also revealed a number of low abundance muropeptides with peptide sequences not previously reported. Graphical Abstract The bacterial cell envelope includes plasma membrane, peptidoglycan, and surface layer. Peptidoglycan is unique to bacteria and the target of the most important antibiotics; here it is analyzed by mass spectrometry

Superposition of Weyl solutions: The equilibrium forces

Solutions to the Einstein equation that represent the superposition of static isolated bodies with axially symmetry are presented. The equations nonlinearity yields singular structures (strut and membranes) to equilibrate the bodies. The force on the strut like singularities is computed for a variety of situations. The superposition of a ring and a particle is studied in some detailComment: 31 pages, 7 figures, psbox macro. Submitted to Classical and Quantum Gravit

Corporate governance and financial constraints on strategic turnarounds

The paper extends the Robbins and Pearce (1992) two-stage turnaround response model to include governance factors. In addition to the retrenchment and recovery, the paper proposes the addition of a realignment stage, referring specifically to the re-alignment of expectations of principal and agent groups. The realignment stage imposes a threshold that must be crossed before the retrenchment and hence recovery stage can be entered. Crossing this threshold is problematic to the extent that the interests of governance-stakeholder groups diverge in a crisis situation. The severity of the crisis impacts on the bases of strategy contingent asset valuation leading to the fragmentation of stakeholder interests. In some cases the consequence may be that management are prevented from carrying out turnarounds by governance constraints. The paper uses a case study to illustrate these dynamics, and like the Robbins and Pearce study, it focuses on the textile industry. A longitudinal approach is used to show the impact of the removal of governance constraints. The empirical evidence suggests that such financial constraints become less serious to the extent that there is a functioning market for corporate control. Building on governance research and turnaround literature, the paper also outlines the general case necessary and sufficient conditions for successful turnarounds