Marine phage genomics

Marine phages are the most abundant biological entities in the oceans. They play important roles in carbon cycling through marine food webs, gene transfer by transduction and conversion of hosts by lysogeny. The handful of marine phage genomes that have been sequenced to date, along with prophages in marine bacterial genomes, and partial sequencing of uncultivated phages are yielding glimpses of the tremendous diversity and physiological potential of the marine phage community. Common gene modules in diverse phages are providing the information necessary to make evolutionary comparisons. Finally, deciphering phage genomes is providing clues about the adaptive response of phages and their hosts to environmental cues.     

A comparison of two populations of decidual cells by immunocytochemistry and prostaglandin production

Summary The decidua has been implicated in the control of human labour, particularly through changes in prostaglandin production, but this tissue contains a number of different cell types. A density gradient system was used to obtain two populations of cells from term human decidua, and these populations were characterised. The more dense cells (population B) was a mixed population, predominantly macrophages (80%), but small numbers of T- and B-lymphocytes were also present, as identified by immunocytochemistry. Most of these cell types also contained detectable levels of cyclooxygenase enzyme. The less-dense cell population (population A) did not contain significant numbers of the above cell types and released prolactin, suggesting that they were decidual stromal cells. This preparation of decidual stromal cells may be of use in defining the functions of these cells in labour.     

New synonymies and combinations in Argyrostrotis Hübner (Lepidoptera, Erebidae, Erebinae, Poaphilini)

After examining the type specimens of species in the eastern North American genus Argyrostrotis the number of known species in the genus is reduced from 10 to six through synonymy. A key to species is included along with illustrations of the adults and genitalia of each species. Three Neotropical species currently included in Argyrostrotis (Argyrostrotis eurysaces Schaus, 1914; Argyrostrotis quadrata Dognin, 1910; and Celiptera surrufula Dyar, 1913) are transferred to other genera as Argyrosticta eurysaces (Schaus, 1914), comb. n. [Noctuidae: Bagisarinae], Heterochroma quadrata (Dognin, 1910), comb. n. [Noctuidae: Amphipyrinae], and Ptichodis surrufula (Dyar, 1913), comb. n. [Erebidae: Erebinae: Euclidiini].     

Monocarboxylate transporter MCT1 is a target for immunosuppression

Current immunosuppressive therapies act on T lymphocytes by modulation of cytokine production, modulation of signaling pathways or by inhibition of the enzymes of nucleotide biosynthesis. We have identified a previously unknown series of immunomodulatory compounds that potently inhibit human and rat T lymphocyte proliferation in vitro and in vivo in immune-mediated animal models of disease, acting by a novel mechanism. Here we identify the target of these compounds, the monocarboxylate transporter MCT1 (SLC16A1), using a strategy of photoaffinity labeling and proteomic characterization. We show that inhibition of MCT1 during T lymphocyte activation results in selective and profound inhibition of the extremely rapid phase of T cell division essential for an effective immune response. MCT1 activity, however, is not required for many stages of lymphocyte activation, such as cytokine production, or for most normal physiological functions. By pursuing a chemistry-led target identification strategy, we have discovered that MCT1 is a previously unknown target for immunosuppressive therapy and have uncovered an unsuspected role for MCT1 in immune biology.     

Combinatorial augmentation for a multi-pathogen biosensor: signal analysis and design

Recent advances in combinatorial chemistries have revolutionized approaches to drug candidate synthesis and screening. Combinatorial approaches are also beginning to be used to increase the performance of diagnostic devices for both clinical and field uses. The use of combinatorial technologies is motivated by a general desire to detect as many different pathogens using the smallest, most inexpensive and fastest system possible. We examine the potential for rational design approaches to enhance the performance and miniaturization of biosensors. We describe novel combinatorial biosensor systems, in addition to mathematical frameworks for their optimization and performance prediction. The biosensors are assumed to be composed of multiple detection channels with the following characteristics. Each channel has a single output and can be dynamically set to respond to some or all of a set of pathogens. Regardless of the number of pathogens detected, however, there is a single numerical output from a channel. We evaluate the amount of ambiguity of positive signals produced as a result of increasing both the number of channels and the number of pathogens detected per channel and the effect this ambiguity has on system performance. We further discuss strategies for disambiguating positive signals. Finally we cite specific biosensor configurations that exploit the findings above and compare them to “brute force” approaches. Overall we suggest the approach we refer to as “n-squared” to simultaneously optimize device cost, speed and reagent usage.     

Complete set of orthogonal 21st aminoacyl-tRNA synthetase-amber, ochre and opal suppressor tRNA pairs: concomitant suppression of three different termination codons in an mRNA in mammalian cells

We describe the generation of a complete set of orthogonal 21st synthetase-amber, ochre and opal suppressor tRNA pairs including the first report of a 21st synthetase-ochre suppressor tRNA pair. We show that amber, ochre and opal suppressor tRNAs, derived from Escherichia coli glutamine tRNA, suppress UAG, UAA and UGA termination codons, respectively, in a reporter mRNA in mammalian cells. Activity of each suppressor tRNA is dependent upon the expression of E.coli glutaminyl-tRNA synthetase, indicating that none of the suppressor tRNAs are aminoacylated by any of the twenty aminoacyl-tRNA synthetases in the mammalian cytoplasm. Amber, ochre and opal suppressor tRNAs with a wide range of activities in suppression (increases of up to 36, 156 and 200-fold, respectively) have been generated by introducing further mutations into the suppressor tRNA genes. The most active suppressor tRNAs have been used in combination to concomitantly suppress two or three termination codons in an mRNA. We discuss the potential use of these 21st synthetase-suppressor tRNA pairs for the site-specific incorporation of two or, possibly, even three different unnatural amino acids into proteins and for the regulated suppression of amber, ochre and opal termination codons in mammalian cells.