Longitudinal analysis of human immunodeficiency virus type 1 nef/long terminal repeat sequences in a cohort of long-term survivors infected from a single source

We studied the evolution of human immunodeficiency virus type 1 (HIV-1) in a cohort of long-term survivors infected with an attenuated strain of HIV-1 acquired from a single source. Although the cohort members experienced differing clinical courses, we demonstrate similar evolution of HIV-1 nef/long-terminal repeat (LTR) sequences, characterized by progressive sequence deletions tending toward a minimal nef/LTR structure that retains only sequence elements required for viral replication. The in vivo pathogenicity of attenuated HIV-1 is therefore dictated by viral and/or host factors other than those that impose a unidirectional selection pressure on the nef/LTR region of the HIV-1 genome.     

Crystal structure of the human N-Myc downstream-regulated gene 2 protein provides insight into its role as a tumor suppressor

Considerable attention has recently been paid to the N-Myc downstream-regulated gene (NDRG) family because of its potential as a tumor suppressor in many human cancers. Primary amino acid sequence information suggests that the NDRG family proteins may belong to the α/β-hydrolase (ABH) superfamily; however, their functional role has not yet been determined. Here, we present the crystal structures of the human and mouse NDRG2 proteins determined at 2.0 and 1.7 Å resolution, respectively. Both NDRG2 proteins show remarkable structural similarity to the ABH superfamily, despite limited sequence similarity. Structural analysis suggests that NDRG2 is a nonenzymatic member of the ABH superfamily, because it lacks the catalytic signature residues and has an occluded substrate-binding site. Several conserved structural features suggest NDRG may be involved in molecular interactions. Mutagenesis data based on the structural analysis support a crucial role for helix α6 in the suppression of TCF/β-catenin signaling in the tumorigenesis of human colorectal cancer, via a molecular interaction.     

Problems of ontogeny and phylogeny in brain-size evolution

Fundamental ambiguities in the interpretation of brain/body allometric trends can only be resolved by analyzing relationships between ontogenetic brain/body growth processes in different groups. The ambiguous concept of adult encephalization confuses at least three distinct types of transformation of a common mammalian growth curve: scalar magnification, total curve didplacement, and changes in proportions of the pre- and postnatal phases of the curve. The conservative ratio between pre- and postnatal growth phases determines the apparent linearity of comparative brain/body allometry and can be explained by assuming that embyological neurogenetic processes ultimately determine both target brain and body size—the first directly and the second indirectly via neurohormonal regulation of somatic growth. Uneven taxonomic distribution of different ontogenetic growth patterns may explain many differences in the allometric trends at different taxonomic levels of analysis. The human brain grows exactly as if it was in a giant ape body; however, because of decoupled growth in different brain regions, it regulates body growth as though it were the size of a chimpanzee brain. Human encephalization exhibits an ontogenetic transformation not found in other mammalian groups.     

Bilayer Thickness and Curvature Influence Binding and Insertion of a pHLIP Peptide

The physical properties of lipid bilayers, such as curvature and fluidity, can affect the interactions of polypeptides with membranes, influencing biological events. Additionally, given the growing interest in peptide-based therapeutics, understanding the influence of membrane properties on membrane-associated peptides has potential utility. pH low insertion peptides (pHLIPs) are a family of water-soluble peptides that can insert across cell membranes in a pH-dependent manner, enabling the use of pH to follow peptide-lipid interactions. Here we study pHLIP interactions with liposomes varying in size and composition, to determine the influence of several key membrane physical properties. We find that pHLIP binding to bilayer surfaces at neutral pH is governed by the ease of access to the membrane’s hydrophobic core, which can be facilitated by membrane curvature, thickness, and the cholesterol content of the membrane. After surface binding, if the pH is lowered, the kinetics of pHLIP folding to form a helix and subsequent insertion across the membrane depends on the fluidity and energetic dynamics of the membrane. We showed that pHLIP is capable of forming a helix across lipid bilayers of different thicknesses at low pH. However, the kinetics of the slow phase of insertion corresponding to the translocation of C-terminal end of the peptide across lipid bilayer, vary approximately twofold, and correlate with bilayer thickness and fluidity. Although these influences are not large, local curvature variations in membranes of different fluidity could selectively influence surface binding in mixed cell populations.     

Movement patterns and herd dynamics among South African giraffes (Giraffa camelopardalis giraffa)

Giraffes reside in a fission–fusion social system, with sex, age proximity, kinship and home range overlap accounting for some of the variance in herd composition, while season, sex, age and time of day influence diet, home range size and distance travelled. To increase our knowledge of habitat use and fission–fusion herd dynamics, we placed GPS devices on eight adult female South African giraffes (Giraffa camelopardalis giraffa) living in the Khamab Kalahari Nature Reserve (South Africa). We tested four predictions about how season, kinship, home range and travel patterns influence habitat use and herd dynamics. Our two key findings were that females with a greater degree of home range overlap were more likely to form herds, but the degree of overlap was independent of the amount of time that they spent together in a herd, and that on the day prior to herd formation, females travelled about twice as far as their daily average and tended to move directly towards their future herd mate. We conclude that habitat use and movement patterns regulating fission–fusion dynamics reflect an interaction of ecological, social and reproductive factors operating in tandem, not independently.     

Observations on the thermoregulatory behaviour of juvenile spotted grunter, Pomadasys commersonnii (Haemulidae: Pisces)

The thermal preference of juvenile spotted grunter, Pomadasys commersonnii (Haemulidae), was determined in a horizontal thermal gradient. Temperature preference was tested over a range of 17–31°C at three salinities. The modal temperature preferenda at 5, 12 and 35 ppt were 25°C, 24.5°C and 25°C, respectively. They were not significantly different. The thermal preferendum of this species was found to be between 24°C and 25°C. Supplementary experiments were conducted to test the stability of the final thermal preferendum. Initial observation of the behaviour of juvenile spotted grunter indicated the presence of a strong circadian rhythm. However, diel variation in activity did not influence temperature preference. These data are important for the development of a culture protocol for this euryhaline species.     

The nfkb1 promoter is controlled by proteins of the Ets family.

The gene encoding NFKB1 is autoregulated, responding to NF-kappa B/Rel activation through NF-kappa B binding sites in its promoter, which also contains putative sites for Ets proteins. One of the Ets sites, which we refer to as EBS4, is located next to an NF-kappa B/Rel binding site, kB3, which is absolutely required for activity of the promoter in Jurkat T cells in response to activation by phorbol 12-myristate 13-acetate (PMA), PMA/ionomycin, or the Tax protein from human T cell leukemia virus type I. We show that EBS4 is, required for the full response of the nfkb1 promoter to PMA or PMA/ionomycin in Jurkat cells. EBS4 is bound by Ets-1, Elf-1, and other species. Overexpression of Ets-1 augments the response to PMA/ionomycin and this is reduced by mutation of EBS4. Elf-1 has less effect in conjunction with PMA/ionomycin, but by itself activates the promoter 12-fold. This activation is only partly affected by mutation of EBS4, and a mutant promoter that binds Ets-1, but not Elf-1, at the EBS4 site responds to PMA/ionomycin as efficiently as the wild-type. Ets proteins may be responsible for fine-tuning the activity of the nfkb1 gene in a cell-type-specific manner.     

DNA-binding properties of antitumor-active cis-bis(pyridine)platinum(II) organoamides

 The interaction of the new antitumor-active platinum organoamide complexes [Pt{N(p–HC₆F₄)CH₂}₂(py)₂] and [Pt{N(C₆F₅)CH₂}₂(py)₂] (py = pyridine) with small G-containing (oligo)nucleotides [GMP, d(GpG)] has been studied to establish whether or not these compounds can bind to DNA in an analogous manner to cisplatin. The reaction products have been analyzed by ¹H, ¹⁹F and ³¹P NMR spectroscopy. From the NMR data it is concluded that the {Pt(py)₂}²⁺ moiety binds to the N7 position of the G base, analogously to cisplatin, with the organoamide ligand acting as the leaving group. For the GG-N7,N7 adduct, structural differences are found for the sugar conformation, compared with cisplatin. These differences may account for the activity of these new compounds in tumor cell lines resistant to cisplatin. Received: 25 September 1995 / Accepted: 7 March 1996