Structure of the trypanosome haptoglobin–hemoglobin receptor and implications for nutrient uptake and innate immunity

African trypanosomes are protected by a densely packed surface monolayer of variant surface glycoprotein (VSG). A haptoglobin–hemoglobin receptor (HpHbR) within this VSG coat mediates heme acquisition. HpHbR is also exploited by the human host to mediate endocytosis of trypanolytic factor (TLF)1 from serum, contributing to innate immunity. Here, the crystal structure of HpHbR from Trypanosoma congolense has been solved, revealing an elongated three α-helical bundle with a small membrane distal head. To understand the receptor in the context of the VSG layer, the dimensions of Trypanosoma brucei HpHbR and VSG have been determined by small-angle X-ray scattering, revealing the receptor to be more elongated than VSG. It is, therefore, likely that the receptor protrudes above the VSG layer and unlikely that the VSG coat can prevent immunoglobulin binding to the receptor. The HpHb-binding site has been mapped by single-residue mutagenesis and surface plasmon resonance. This site is located where it is readily accessible above the VSG layer. A single HbHpR polymorphism unique to human infective T. brucei gambiense has been shown to be sufficient to reduce binding of both HpHb and TLF1, modulating ligand affinity in a delicate balancing act that allows nutrient acquisition but avoids TLF1 uptake.African trypanosomes infect humans and domestic and game animals, causing disease and placing a large constraint on the agricultural productivity of rural sub-Saharan Africa (1). Infection is transmitted by tsetse flies, and, once established in the mammalian host, the trypanosomes multiply in the bloodstream and tissue spaces. Infection can persist for years because of a population-survival strategy based on autoregulation of parasitaemia and a sophisticated system of antigenic variation that produces novel variants at a frequency sufficient to avoid complete clearance by the immune response (2, 3). This antigenic variation is based on a single protein, the variant surface glycoprotein (VSG). Only one VSG is expressed at any one time and an antigenic switch follows either a gene conversion from the genomic reservoir of VSG genes or an epigenetic switch that activates a VSG gene in a different expression site (4). In addition to its role in antigenic variation, VSG also protects the underlying plasma membrane as it forms a coat that covers the entire external surface with a packing density approaching the maximum possible (5) and sufficient to shield epitopes adjacent to the plasma membrane (6).Receptors within the VSG coat mediate uptake of large ligands from the host, the two best-characterized being the transferrin receptor for iron (7, 8) and the haptoglobin–hemoglobin receptor (HpHbR) for heme (9). VSG is an elongated homodimer attached to the plasma membrane by a glycosylphosphatidylinositol (GPI) anchor (10, 11), and any receptor must be able to bind ligand in the context of the VSG coat. The structure of the transferrin receptor has not been determined, but there is evidence that it has a GPI-anchor, is structurally related to VSGs (13, 14), and that the ligand-binding site is distal to the plasma membrane (14). Modeling has suggested that this location and the number, size, and position of N-linked oligosaccharides facilitate ligand access (15). The HpHbR shows little apparent sequence similarity to VSGs and is less well characterized but is also linked to the plasma membrane through a C-terminal GPI anchor.HpHbR also plays a central role in determining whether humans can be infected by trypanosomes. Most African trypanosomes, such as Trypanosoma brucei brucei and Trypanosoma congolense, cannot infect humans because of innate immunity (16). For T. brucei brucei, this is mediated by trypanolytic factors 1 and 2 (TLF1 and TLF2) (17–19). TLFs are characterized by the presence of apolipoprotein (Apo)L1 and haptoglobin-related protein (Hpr) (9, 20). In TLF1, Hpr is complexed with hemoglobin (HprHb) (21), and TLF1 uptake occurs via binding of the HprHb component to the receptor (22–24). After endocytosis of TLF1, ApoL1 is trafficked to the lysosome, where it causes swelling and rupture, resulting in cell death (25–27). Human infective trypanosomes have overcome this innate immunity. In East Africa, T. brucei rhodesiense expresses the serum resistance-associated (SRA) protein (28–30), which binds to and inactivates ApoL1 (23). T. brucei gambiense, the human infective form present in West Africa, does not contain the SRA gene, and it has been proposed that resistance to TLF1 results from reduced uptake caused by reduced expression and sequence polymorphisms in HpHbR (31). Indeed, HpHbR deletion in T. brucei brucei disrupts TLF1 uptake, and expression of the receptor from T. brucei gambiense cannot restore this (31).Here, the structure of a trypanosome receptor, HpHbR, from T. congolense is reported, and the HpHb-binding site is identified. HpHbR is an elongated three α-helical bundle with a small head structure that is distal to the C-terminal GPI-anchor attachment site. This head structure contains the ligand-binding site. The relative dimensions of HpHbR and VSG suggest that the receptor protrudes above the VSG layer, rendering the binding site accessible to ligand but also making it unlikely that the VSG coat can prevent immunoglobulin binding to the receptor. A single HbHpR polymorphism unique to human infective T. brucei gambiense is sufficient to reduce binding of both HpHb and TLF1, altering ligand affinity in a delicate balancing act that retains nutrient acquisition but avoids uptake of TLF1.     

Differential effect of aneuploidy on the X chromosome and genes with sex-biased expression in Drosophila

Global analysis of gene expression via RNA sequencing was conducted for trisomics for the left arm of chromosome 2 (2L) and compared with the normal genotype. The predominant response of genes on 2L was dosage compensation in that similar expression occurred in the trisomic compared with the diploid control. However, the male and female trisomic/normal expression ratio distributions for 2L genes differed in that females also showed a strong peak of genes with increased expression and males showed a peak of reduced expression relative to the opposite sex. For genes in other autosomal regions, the predominant response to trisomy was reduced expression to the inverse of the altered chromosomal dosage (2/3), but a minor peak of increased expression in females and further reduced expression in males were also found, illustrating a sexual dimorphism for the response to aneuploidy. Moreover, genes with sex-biased expression as revealed by comparing amounts in normal males and females showed responses of greater magnitude to trisomy 2L, suggesting that the genes involved in dosage-sensitive aneuploid effects also influence sex-biased expression. Each autosomal chromosome arm responded to 2L trisomy similarly, but the ratio distributions for X-linked genes were distinct in both sexes, illustrating an X chromosome-specific response to aneuploidy.Changes in chromosomal dosage have long been known to affect the phenotype or viability of an organism (1–4). Altering the dosage of individual chromosomes typically has a greater impact than varying the whole genome (5–7). This general rule led to the concept of “genomic balance” in that dosage changes of part of the genome produce a nonoptimal relationship of gene products. The interpretation afforded these observations was that genes on the aneuploid chromosome produce a dosage effect for the amount of gene product present in the cell (8).However, when gene expression studies were conducted on aneuploids, it became known that transacting modulations of gene product amounts were also more prevalent with aneuploidy than with whole-genome changes (9–14). Assays of enzyme activities, protein, and RNA levels revealed that any one chromosomal segment could modulate in trans the expression of genes throughout the genome (9–15). These modulations could be positively or negatively correlated with the changed chromosomal segment dosage, but inverse correlations were the most common (10–13). For genes on the varied segment, not only were dosage effects observed, but dosage compensation was also observed, which results from a cancelation of gene dosage effects by inverse effects operating simultaneously on the varied genes (9, 10, 14–18). This circumstance results in “autosomal” dosage compensation (14, 16–18). Studies of trisomic X chromosomes examining selected endogenous genes or global RNA sequencing (RNA-seq) studies illustrate that the inverse effect can also account for sex chromosome dosage compensation in Drosophila (15, 19–21). In concert, autosomal genes are largely inversely affected by trisomy of the X chromosome (15, 19, 21).The dosage effects of aneuploidy can be reduced to the action of single genes whose functions tend to be involved in heterogeneous aspects of gene regulation but which have in common membership in macromolecular complexes (8, 22–24). This fact led to the hypothesis that genomic imbalance effects result from the altered stoichiometry of subunits that affects the function of the whole and that occurs from partial but not whole-genome dosage change (8, 22–25). Genomic balance also affects the evolutionary trajectory of duplicate genes differently based on whether the mode of duplication is partial or whole-genome (22, 23).Here we used RNA-seq to examine global patterns of gene expression in male and female larvae trisomic for the left arm of chromosome 2 (2L). The results demonstrate the strong prevalence of aneuploidy dosage compensation and of transacting inverse effects. Furthermore, because both trisomic males and females could be examined, a sexual dimorphism of the aneuploid response was discovered. Also, the response of the X chromosome to trisomy 2L was found to be distinct from that of the autosomes, illustrating an X chromosome-specific effect. Genes with sex-biased expression, as determined by comparing normal males and females, responded more strongly to trisomy 2L. Collectively, the results illustrate the prevalence of the inverse dosage effect in trisomic Drosophila and suggest that the X chromosome has evolved a distinct response to genomic imbalance as would be expected under the hypothesis that X chromosome dosage compensation uses the inverse dosage effect as part of its mechanism (15).     

Self-assembly of alkynylplatinum(II) terpyridine amphiphiles into nanostructures via steric control and metal–metal interactions

A series of mono- and dinuclear alkynylplatinum(II) terpyridine complexes containing the hydrophilic oligo(para-phenylene ethynylene) with two 3,6,9-trioxadec-1-yloxy chains was designed and synthesized. The mononuclear alkynylplatinum(II) terpyridine complex was found to display a very strong tendency toward the formation of supramolecular structures. Interestingly, additional end-capping with another platinum(II) terpyridine moiety of various steric bulk at the terminal alkyne would lead to the formation of nanotubes or helical ribbons. These desirable nanostructures were found to be governed by the steric bulk on the platinum(II) terpyridine moieties, which modulates the directional metal−metal interactions and controls the formation of nanotubes or helical ribbons. Detailed analysis of temperature-dependent UV-visible absorption spectra of the nanostructured tubular aggregates also provided insights into the assembly mechanism and showed the role of metal−metal interactions in the cooperative supramolecular polymerization of the amphiphilic platinum(II) complexes.Square-planar d⁸ platinum(II) polypyridine complexes have long been known to exhibit intriguing spectroscopic and luminescence properties (1–54) as well as interesting solid-state polymorphism associated with metal−metal and π−π stacking interactions (1–14, 25). Earlier work by our group showed the first example, to our knowledge, of an alkynylplatinum(II) terpyridine system [Pt(tpy)(C ≡ CR)]⁺ that incorporates σ-donating and solubilizing alkynyl ligands together with the formation of Pt···Pt interactions to exhibit notable color changes and luminescence enhancements on solvent composition change (25) and polyelectrolyte addition (26). This approach has provided access to the alkynylplatinum(II) terpyridine and other related cyclometalated platinum(II) complexes, with functionalities that can self-assemble into metallogels (27–31), liquid crystals (32, 33), and other different molecular architectures, such as hairpin conformation (34), helices (35–38), nanostructures (39–45), and molecular tweezers (46, 47), as well as having a wide range of applications in molecular recognition (48–52), biomolecular labeling (48–52), and materials science (53, 54). Recently, metal-containing amphiphiles have also emerged as a building block for supramolecular architectures (42–44, 55–59). Their self-assembly has always been found to yield different molecular architectures with unprecedented complexity through the multiple noncovalent interactions on the introduction of external stimuli (42–44, 55–59).Helical architecture is one of the most exciting self-assembled morphologies because of the uniqueness for the functional and topological properties (60–69). Helical ribbons composed of amphiphiles, such as diacetylenic lipids, glutamates, and peptide-based amphiphiles, are often precursors for the growth of tubular structures on an increase in the width or the merging of the edges of ribbons (64, 65). Recently, the optimization of nanotube formation vs. helical nanostructures has aroused considerable interests and can be achieved through a fine interplay of the influence on the amphiphilic property of molecules (66), choice of counteranions (67, 68), or pH values of the media (69), which would govern the self-assembly of molecules into desirable aggregates of helical ribbons or nanotube scaffolds. However, a precise control of supramolecular morphology between helical ribbons and nanotubes remains challenging, particularly for the polycyclic aromatics in the field of molecular assembly (64–69). Oligo(para-phenylene ethynylene)s (OPEs) with solely π−π stacking interactions are well-recognized to self-assemble into supramolecular system of various nanostructures but rarely result in the formation of tubular scaffolds (70–73). In view of the rich photophysical properties of square-planar d⁸ platinum(II) systems and their propensity toward formation of directional Pt···Pt interactions in distinctive morphologies (27–31, 39–45), it is anticipated that such directional and noncovalent metal−metal interactions might be capable of directing or dictating molecular ordering and alignment to give desirable nanostructures of helical ribbons or nanotubes in a precise and controllable manner.Herein, we report the design and synthesis of mono- and dinuclear alkynylplatinum(II) terpyridine complexes containing hydrophilic OPEs with two 3,6,9-trioxadec-1-yloxy chains. The mononuclear alkynylplatinum(II) terpyridine complex with amphiphilic property is found to show a strong tendency toward the formation of supramolecular structures on diffusion of diethyl ether in dichloromethane or dimethyl sulfoxide (DMSO) solution. Interestingly, additional end-capping with another platinum(II) terpyridine moiety of various steric bulk at the terminal alkyne would result in nanotubes or helical ribbons in the self-assembly process. To the best of our knowledge, this finding represents the first example of the utilization of the steric bulk of the moieties, which modulates the formation of directional metal−metal interactions to precisely control the formation of nanotubes or helical ribbons in the self-assembly process. Application of the nucleation–elongation model into this assembly process by UV-visible (UV-vis) absorption spectroscopic studies has elucidated the nature of the molecular self-assembly, and more importantly, it has revealed the role of metal−metal interactions in the formation of these two types of nanostructures.     

Human pluripotent stem cell-derived neural constructs for predicting neural toxicity

Human pluripotent stem cell-based in vitro models that reflect human physiology have the potential to reduce the number of drug failures in clinical trials and offer a cost-effective approach for assessing chemical safety. Here, human embryonic stem (ES) cell-derived neural progenitor cells, endothelial cells, mesenchymal stem cells, and microglia/macrophage precursors were combined on chemically defined polyethylene glycol hydrogels and cultured in serum-free medium to model cellular interactions within the developing brain. The precursors self-assembled into 3D neural constructs with diverse neuronal and glial populations, interconnected vascular networks, and ramified microglia. Replicate constructs were reproducible by RNA sequencing (RNA-Seq) and expressed neurogenesis, vasculature development, and microglia genes. Linear support vector machines were used to construct a predictive model from RNA-Seq data for 240 neural constructs treated with 34 toxic and 26 nontoxic chemicals. The predictive model was evaluated using two standard hold-out testing methods: a nearly unbiased leave-one-out cross-validation for the 60 training compounds and an unbiased blinded trial using a single hold-out set of 10 additional chemicals. The linear support vector produced an estimate for future data of 0.91 in the cross-validation experiment and correctly classified 9 of 10 chemicals in the blinded trial.There is a pressing need for improved methods to assess the safety of drugs and other compounds (1–5). Success rates for drug approval are declining despite higher research and development spending (6), and clinical trials often fail due to toxicities that were not identified through animal testing (7). In addition, most of the chemicals in commerce have not been rigorously assessed for safety despite growing concerns over the potential impact of industrial and environmental exposures on human health (2–5). Animal models are costly, time consuming, and fail to recapitulate many aspects of human physiology, which has motivated agencies such as the National Institutes of Health (NIH) and the US Environmental Protection Agency (EPA) to initiate programs that emphasize human cellular approaches for assessing the safety of drugs (1) and environmental chemicals (2, 3). In vitro cellular models that accurately reflect human physiology have the potential to improve the prediction of drug toxicity early in the development pipeline (1) and would provide a cost-effective approach for testing other sources of chemical exposure, including food additives, cosmetics, pesticides, and industrial chemicals (2–5).The human brain is particularly sensitive to toxic insults during development and early childhood (8), and there is growing concern that exposure to environmental chemicals may be linked to the rising incidence of neurodevelopmental disorders worldwide (4). Human brain development is mediated by highly coordinated cellular interactions between functionally distinct cell types that include neurons, glia, blood vessels, and microglia (9–15), each of which may be involved in neurotoxicity mechanisms (16–18). The cellular diversity of the developing brain complicates efforts to assess developmental neurotoxicity in vitro, because toxins might target numerous distinct cell types or cellular interactions and the underlying toxicity mechanisms are often unknown (3–5). Neurotoxicity has been evaluated using brain-derived cells in aggregate culture or coculture, neural stem cells, and other in vitro platforms, and these studies suggest that complex neurotoxic effects can be mimicked by incorporating cellular diversity into the model system (16, 18–20). However, many of these studies rely on animal cells that poorly reflect human physiology or primary human cells that are not scalable and introduce batch variability.Although in vitro human cellular models have historically been hampered by inadequate access to cellular components of the human brain, human embryonic stem (ES) cells (21) and induced pluripotent stem (iPS) cells (22, 23) now offer a scalable source for tissue-specific cell types. Here, reproducible 3D neural constructs that incorporated vascular and microglial components were fabricated for developmental neurotoxicity screening by culturing precursor cells derived from the H1 human ES cell line on synthetic hydrogels under defined conditions. Machine learning was used to build a predictive model from RNA sequencing (RNA-Seq) data for neural constructs exposed to a training set of 60 toxic and nontoxic chemicals and then to make predictions in a blinded trial using a set of 10 additional compounds.