Conserved sequence and structural elements in the HIV-1 principal neutralizing determinant

The principal neutralizing determinant (PND) of human immunodeficiency virus HIV-1 is part of a disulfide bridged loop in the third variable region of the external envelope protein, gp120. Analysis of the amino acid sequences of this domain from 245 different HIV-1 isolates revealed that the PND is less variable than thought originally. Conservation to better than 80 percent of the amino acids in 9 out of 14 positions in the central portion of the PND and the occurrence of particular oligopeptide sequences in a majority of the isolates suggest that there are constraints on PND variability. One constraining influence may be the structural motif (beta strand--type II beta turn--beta strand--alpha helix) predicted for the consensus PND sequence by a neural network approach. Isolates with a PND similar to the commonly investigated human T cell lymphoma virus IIIB (HTLV-IIIB) and LAV-1 (BRU) strains were rare, and only 14 percent of sera from 86 randomly selected HIV-1 seropositive donors contained antibodies that recognized the PND of these virus isolates. In contrast, over 65 percent of these sera reacted with peptides containing more common PND sequences. These results suggest that HIV vaccine immunogens chosen because of their similarity to the consensus PND sequence and structure are likely to induce antibodies that neutralize a majority of HIV-1 isolates.     

Categorical representation of visual stimuli in the primate prefrontal cortex

The ability to group stimuli into meaningful categories is a fundamental cognitive process. To explore its neural basis, we trained monkeys to categorize computer-generated stimuli as "cats" and "dogs." A morphing system was used to systematically vary stimulus shape and precisely define the category boundary. Neural activity in the lateral prefrontal cortex reflected the category of visual stimuli, even when a monkey was retrained with the stimuli assigned to new categories.     

Toxoplasma gondii virulence prediction using hierarchical cluster analysis based on coding sequences (CDS) of sag1, gra7 and rop18

Toxoplasma gondii consists of three genotypes, namely genotype I, II and III. Based on its virulence, T. gondii can be divided into virulent and avirulent strains. This study intends to evaluate an alternative method for predicting T. gondii virulence using hierarchical cluster analysis based on complete coding sequences (CDS) of sag1, gra7 and rop18 genes. Dendrogram was constructed using UPGMA with a Kimura 80 nucleotide distance measurement. The results showed that the prediction errors of T. gondii virulence using sag1, gra7 and rop18 were 7.41%, 6.89% and 9.1%, respectively. Analysis based on CDS of gra7 and rop18 was able to differentiate avirulent strains into genotypes II and III, whereas sag1 failed to differentiate.     

Weed hosts ofParatrichodorus allius and tobacco rattle virus in the Pacific Northwest

The ability of several weed species to serve as hosts for tobacco rattle virus (TKV), the causal agent of corky ringspot disease of potato (CRS), and its nematode vector,Paratrichodorus allius, was investigated in greenhouse studies. ViruliferousP. allius multiplied on 24 out of 37 weed species tested, indicating they were suitable hosts of the vector. However, only 11 of these weeds were infected with TRV, as determined by ELISA. The nonhost status of a given weed species was not changed whether the viruliferous vector population originated from CRS problem fields in WA, OR, or ID. Several weeds served as hosts for the vector and virus including kochia, prickly lettuce, henbit, nightshade species (black, hairy, and cutleaf), common chickweed, and annual sowthistle. Virus-freeP. allius acquired TRV from the three nightshade species, volunteer potato grown from TRV-infected tubers, and prickly lettuce, and subsequently transmitted the virus to ‘Samsun NN’ tobacco indicator plants. Thus, some weeds may play a role in the epidemiology of CRS by perpetuating TRV and its vector in a problem field.     

Sex determination in malaria parasites

A century ago, W. G. MacCallum identified distinct male and female forms in malaria parasites of both birds and humans. Since then, scientists have been puzzled by the high female-to-male ratios of parasites in Plasmodium infections and by the mechanism of sex determination. The sex ratio of malaria parasites was shown to become progressively more male as conditions that allow motility and subsequent fertilization by the male parasites become adverse. This resulted from an increased immune response against male gametes, which coincides with intense host erythropoietic activity. Natural and artificial induction of erythropoiesis in vertebrate hosts provoked a shift toward male parasite production. This change in parasite sex ratio led to reduced reproductive success in the parasite, which suggests that sex determination is adaptive and is regulated by the hematologic state of the host.     

Paleosol studies of burial mounds in the Ilovlya River valley (the Privolzhskaya Upland)

Paleosols buried under kurgans of the Bronze (end of the fourth and the third millennia BC), Early Iron (1st–3rd centuries AD), and Medieval (13th century AD) epochs have been studied on the Ilovlya River (a tributary of the Don River) terrace. The evolution of chestnut soils in the south of the Privolzhskaya Upland during the last 5000 years has been traced. It is shown that the mean weighted contents and distribution of soluble salts, gypsum, and carbonates in the soil profiles have been subjected to cyclic changes. The total microbial biomass and its trophic structure in the A1, B1, and B2k horizons of paleosols of different ages have been determined. A comparative analysis of the morphological, chemical, and microbiological data on the paleosols of different ages has been used to reconstruct the climatic dynamics for the last 50 centuries. The aridity of the climate in the studied region increased at the end of the third-the beginning of the second millennia BC and in the second and third centuries AD. The humidization of the climate took place in the 1st and in the 12th–13th centuries AD.     

Estimation of actual evapotranspiration in winegrape vineyards located on hillside terrain using surface renewal analysis

Sensible and latent heat flux densities were estimated in a level vineyard, a northeast aspect vineyard and a southwest aspect vineyard in the Napa Valley of California using the eddy covariance and surface renewal methods. Surface renewal is theoretically not limited to level or extensively homogeneous terrain because it examines a more localized process of scalar exchange as compared with eddy covariance. Surface renewal estimates must be calibrated against eddy covariance data to account for unequal heating of the air parcels under a fixed measurement height. We calibrated surface renewal data against eddy covariance data in a level vineyard, and the calibration factor (α) was applied to the surface renewal measurements on the hillside vineyards. Latent heat flux density was estimated from the residual of the energy balance. In the level vineyard, the average daily actual evapotranspiration (ET _a ) for the period of June through September was 2.4?mm per day. In the northeast aspect vineyard, the average daily ET _a was 2.2?mm per day, while in the southwest aspect vineyard it was 2.7?mm per day. The net radiation values for the level vineyard, the northeast aspect vineyard, and the southwest aspect vineyard were compared against the Ecosystem Water Program with good agreement.