Diversity considerations in HIV-1 vaccine selection

Globally, human immunodeficiency virus-type 1 (HIV-1) is extraordinarily variable, and this diversity poses a major obstacle to AIDS vaccine development. Currently, candidate vaccines are derived from isolates, with the hope that they will be sufficiently cross-reactive to protect against circulating viruses. This may be overly optimistic, however, given that HIV-1 envelope proteins can differ in more than 30% of their amino acids. To contend with the diversity, country-specific vaccines are being considered, but evolutionary relationships may be more useful than regional considerations. Consensus or ancestor sequences could be used in vaccine design to minimize the genetic differences between vaccine strains and contemporary isolates, effectively reducing the extent of diversity by half.     

Multi-university research teams: shifting impact, geography, and stratification in science

This paper demonstrates that teamwork in science increasingly spans university boundaries, a dramatic shift in knowledge production that generalizes across virtually all fields of science, engineering, and social science. Moreover, elite universities play a dominant role in this shift. By examining 4.2 million papers published over three decades, we found that multi-university collaborations (i) are the fastest growing type of authorship structure, (ii) produce the highest-impact papers when they include a top-tier university, and (iii) are increasingly stratified by in-group university rank. Despite the rising frequency of research that crosses university boundaries, the intensification of social stratification in multi-university collaborations suggests a concentration of the production of scientific knowledge in fewer rather than more centers of high-impact science.     

A classification and evaluation of Irish water beetle assemblages

1. Modern records of 165 species of wetland beetle (Haliplidae, Hygrobiidae, Noteridae, Dytiscidae, Gyrinidae, Georissidae, Hydrochidae, Helophoridae, Hydrophilidae, Hydraenidae, Scirtidae, Dryopidae, Elmidae, Chrysomelidae, Curculionidae) were assembled for analysis. 2. Two hundred and eighty nine modern lists of seven or more species of water beetle from sites in Ireland were subjected to multivariate analysis. 3. Ten assemblage types were identified using TWINSPAN. Habitats typical of these assemblages are: A. deep rivers; B. rivers with riffles; C. puddles; D. canals and lakes with rich vegetation; E. ponds and ditches; F. turloughs; G. natural, minerotrophic fens; H. base-flushed cutover bogs; I. peat bogs; J. montane flushes. The distribution of these types is discussed. 4. Ordination of site data by DECORANA indicated that the important environmental variables dictating water beetle assemblage type in Ireland were: flow; water permanence; exposure; type of substratum. Acidity could not be isolated as a determinant, except within the analysis of assemblage types conducted using TWINSPAN. DECORANA isolated one brackish site as an outlier but salinity was not otherwise a major factor, probably because few brackish sites were included in the analysis. 5. The number of modern records for each species was used to provide a provisional set of species-quality scores. A simple rationale was devised to weight these scores in favour of relict species and against elusive species, species with short-lived adults and species primarily associated with man-made habitats. 6. The average species-quality score per site and the number of species recorded were used to rank sites within each TWINSPAN end-group. The most diverse sites with the highest quality were some turloughs, rich fens and base-flushed peat cutting complexes. Some montane lakes and flushes with relatively few species had high species-quality scores.     

Bloom or bust: synchrony in jellyfish abundance,fish consumption,benthic scavenger abundance,and environmental drivers across a continental shelf

Increases in gelatinous zooplankton (GZ) populations, their dominance of some ecosystems, their impacts to other taxa, and their questionable trophic value remain global concerns, but they are difficult to quantify. We compared trends in GZ abundance from direct sampling for the northeast U.S. continental shelf and tested their association with GZ consumption by spiny dogfish (Squalus acanthias); the abundance of two benthic scavengers: Atlantic hagfish (Myxine glutinosa) and grenadiers (Family: Macrouridae); and four environmental indices: Atlantic Multidecadal Oscillation, North Atlantic Oscillation, and sea surface and bottom temperatures. Defined as scyphozoans, siphonophores, ctenophores, and salps, the abundance of GZ on the shelf has oscillated with blooms approximately every 10–15 yr. Conservative estimates of annual removal of GZ by spiny dogfish ranged from approximately 0.3–298 g individual^?1 with spiny dogfish being the primary GZ feeder sampled on the shelf. The examination of three abundance series for GZ identified one shelf‐wide trend and strong relationships with 2‐yr lagged consumption and scavenger abundance (namely hagfish), and sea surface temperature. With multimodel inference, these covariates led to an optimal model of GZ abundance. Blooms of GZ abundance on this shelf were influenced by environmental change, provide surges of food for spiny dogfish, and may offer ‘food falls’ for scavenging fishes. The bioenergetic tradeoffs of consuming greater amounts of GZ compared to other major prey (e.g., fishes) remain unknown; however, these surges of food in the northwest Atlantic appear to be important for fishes, including support for benthic scavenger productivity.     

Growth enhancement of rainbow trout (Oncorhynchus mykiss) by passive immunization against somatostatin-14

Juvenile rainbow trout (Oncorhynchus mykiss) were passively immunized by intraperitoneal immunization against somatostatin-14 (SS-14) using an antibody originating from egg-laying chicken (Gallus domesticus). Fish were immunized weekly (0, 7, 14, 21, 28, 35 days) with chicken egg yolk-derived immunoglobulin (IgY) against SS-14 (1:25 IgY, 5 mg mL^?1), and growth performance, feed utilization as well as plasma concentrations and mRNA levels of growth hormone (GH) and insulin-like growth factor I (IGF-I) were compared to the control group that received placebo immunization with PBS. Passive immunization significantly increased weight gain of treated fish (67.7 ± 7.4 g) compared to the control group (40.1 ± 2.0 g) after 35 days (p < 0.05). Feed conversion ratio (FCR) was significantly improved in the immunized fish (0.7 ± 0.08) compared to control group (1.2 ± 0.06) (p < 0.05). The concentrations of GH and IGF-I in the blood plasma showed no significant differences between the fish treated with anti-SS-14 and those of control during the treatment (p > 0.05). In both groups, GH levels decreased over the 35 days of the experiment (p < 0.05). However, IGF-I level during the period of treatment remained unchanged in both control and immunized fish with the anti-SS-14. Similarly, no changes were observed in pituitary GH and liver IGF-I mRNA levels between treatment and control at each sampling time (p > 0.05). There was no indication of a cumulative, long-lasting effect of repeated immunization on GH or IGF-I plasma concentrations or mRNA expression. The present study shows that a passive immunization of rainbow trout against SS-14 using a chicken egg yolk-derived SS-14 antibody could increase growth rate and improved FCR.     

A Comparison of Three Different Hydroponic Sub-systems (gravel bed, floating and nutrient film technique) in an Aquaponic Test System

Murray Cod, Maccullochella peelii peelii (Mitchell), and Green Oak lettuce, Lactuca sativa, were used to test for differences between three hydroponic subsystems, Gravel Bed, Floating Raft and Nutrient Film Technique (NFT), in a freshwater Aquaponic test system, where plant nutrients were supplied from fish wastes while plants stripped nutrients from the waste water before it was returned to the fish. The Murray Cod had FCR's and biomass gains that were statistically identical in all systems. Lettuce yields were good, and in terms of biomass gain and yield, followed the relationship Gravel bed > Floating > NFT, with significant differences seen between all treatments. The NFT treatment was significantly less efficient than the other two treatments in terms of nitrate removal (20% less efficient), whilst no significant difference was seen between any test treatments in terms of phosphate removal. In terms of dissolved oxygen, water replacement and conductivity, no significant differences were observed between any test treatments. Overall, results suggest that NFT hydroponic sub-systems are less efficient at both removing nutrients from fish culture water and producing plant biomass or yield than Gravel bed or Floating hydroponic sub-systems in an Aquaponic context. Aquaponic system designers need to take these differences into account when designing hydroponic components within aquaponic systems.