Intrapatient Variation of the Respiratory Syncytial Virus Attachment Protein Gene

Intrapatient variability of the attachment (G) protein gene of respiratory syncytial virus (RSV) was examined using both population and single-genome sequencing. Samples from three patients infected with a group B virus variant which has a 60-nucleotide duplication in the G protein gene were examined. These samples were chosen because occasional mixed sequence bases were observed. In a minority of RSV genomes from these patients considerable variability was found, including point mutations, insertions, and deletions. Of particular note, the deletion of the exact portion of the gene which had been duplicated in some isolates was observed in viral RNAs from two patients.Human respiratory syncytial virus (RSV) is a major cause of lower respiratory tract infection in infants and vulnerable adults (3, 9) and is unusual in that it can repeatedly reinfect individuals (5, 6). RSV isolates are classified into two groups, A and B, and the attachment (G) protein, a target for neutralizing antibodies, is the most variable of the viral proteins, showing considerable genetic and antigenic variability both within and between the groups (7, 8). The G protein is able to accommodate drastic changes, which have been observed both in culture during the selection of monoclonal antibody escape mutants (4, 12, 13) and in vivo with the emergence of new variants, including a group B strain with a duplication of 60 nucleotides (17). This strain with a 60-nucleotide duplication was first reported from Buenos Aires in 1999 (17) and then was subsequently detected in samples from 1998 in Madrid (16). The strain then became the dominant group B strain worldwide, indicating a selective advantage for this variant (16, 18). Thus, major genetic changes can be introduced into the G gene sequence while the virus replicates in its natural host, which can then be selected under favorable epidemiological conditions.Previous investigations of the genetic diversity of RSV exploited direct sequencing of PCR-amplified products (2), which represent the population average of the in vivo variants. Such sequences are derived from multiple copies of cDNA and represent the dominant sequence, and they thus do not allow detection of minority populations below about 20% prevalence (11). Information on intrapatient viral diversity during infections may therefore be missed, knowledge of which could be important in the overall understanding of the genetic diversity of this virus. We report here the analysis of individual RSV RNA molecules derived by single-genome amplification (SGA) and sequencing from clinical samples using a methodology developed for the analysis of HIV genomes (11, 14).RSV-positive samples were collected from infants admitted to Kilifi District Hospital, Kenya (10). Viral RNA extraction and cDNA synthesis were carried out as previously described (15). For population sequencing, a nested PCR was carried out on the cDNA using primers that amplified the ectodomain-coding part of the G protein gene, with the PCR product being directly sequenced. In the 2007-2008 RSV epidemic in Kilifi, group B viruses were predominant. By population sequencing of ∼100 group B samples, all were found to have the 60-nucleotide duplication observed in the Buenos Aires variant (data not shown). However, in some specimens there were some mixed bases at some positions, so the variability at the level of the single cDNA molecule was further investigated.Three samples that gave occasional mixed signals in the sequence chromatograms were further analyzed by SGA and sequencing. For SGA the cDNAs were serially diluted 3-fold up to 1:6,361. Ten nested PCRs were carried out on each dilution using Platinum high-fidelity PCR Supermix (Invitrogen) (containing Taq polymerase together with the proofreading enzyme Pyrococcus species GB-D polymerase). Based on the Poisson distribution, it has been shown that for a sample dilution yielding approximately 30% positive PCRs there is an 80% likelihood that each PCR is derived from a single cDNA molecule (11). For each of the identified endpoint dilutions, the cDNA was amplified in 80 separate nested PCRs using the high-fidelity enzyme and the positive reaction products sequenced. The nomenclature for the sequences reported in this paper is place of isolation (Kenya [Ken])/year of isolation/strain number. For SGA sequences an additional Roman number is given.The predicted length derived by population sequencing of the G proteins of the three samples examined by SGA was 310 amino acids, showing a 6-nucleotide deletion and a changed stop codon relative to the Buenos Aires strain (Fig. ​(Fig.1).1). The dominant sequences represented 60 to 88% of the sequences derived by SGA. The differences were due to point mutations, duplications, and deletions, as summarized in Table ​Table1;1; the consequences of these changes for the predicted length of the G protein are shown in Table ​Table22.Open in a separate windowFIG. 1.Nucleotide sequence alignment of part of the G protein gene (from nucleotide 400) of the sample 2 population sequence (Ken/08/80900) and a minority sequence (Ken/08/80900/ii), with the sequences of prototype group B strain CH18537 (accession number {"type":"entrez-nucleotide","attrs":{"text":"M17213","term_id":"333942","term_text":"M17213"}}M17213) and Buenos Aires strain BA/3833/99B (accession number {"type":"entrez-nucleotide","attrs":{"text":"AY333362","term_id":"33355616","term_text":"AY333362"}}AY333362). This shows the duplication of 60 nucleotides in the Kenyan and Buenos Aires viruses relative to CH18537 and the loss of the same 60 nucleotides in the Kenyan minority sequence. Termination codons are underlined.

TABLE 1.

Diversity in the SGA-derived sequences

Temperature-sensitive Mutants of Respiratory Syncytial Virus

Four conditional-lethal temperature-sensitive mutants of RS virus were detected among the progeny of 454 plaques derived from virus grown in the presence of 10(-4)m 5-fluorouridine. These mutants were stable (reversion frequency, 10(-5.0) or less and failed to produce plaques at 38 or 39 C. Plaquing efficiency was depressed 100-fold or more at 37 C. Variable suppression of growth at the restrictive temperature of 39 C was observed, ranging from 16-fold to complete suppression. The temperature-sensitive defect of three of the mutants appeared to affect functions which were expressed late in the replicative cycle. One of the mutants produced atypical nonsyncytial plaques.     

Identification of a Linear Heparin Binding Domain for Human Respiratory Syncytial Virus Attachment Glycoprotein G

Respiratory syncytial virus (RSV) is the leading cause of lower respiratory tract disease in infants and young children worldwide. Infection is mediated, in part, by an initial interaction between attachment protein (G) and a highly sulfated heparin-like glycosaminoglycan (Gag) located on the cell surface. Synthetic overlapping peptides derived from consensus sequences of the G protein ectodomain from both RSV subgroups A and B were tested by heparin-agarose affinity chromatography for their abilities to bind heparin. This evaluation identified a single linear heparin binding domain (HBD) for RSV subgroup A (184A-->T198) and B (183K-->K197). The binding of these peptides to Vero cells was inhibited by heparin. Peptide binding to two CHO cell mutants (pgsD-677 and pgsA-745) deficient in heparan sulfate or total Gag synthesis was decreased 50% versus the parental cell line, CHO-K1, and decreased an average of 87% in the presence of heparin. The RSV-G HBD peptides were also able to inhibit homologous and heterologous virus infectivity of Vero cells. These results indicate that the sequence 184A/183K-->198T/K197 for RSV subgroups A and B, respectively, defines an important determinant of RSV-G interactions with heparin.     

Antigenic Structure of Human Respiratory Syncytial Virus Fusion Glycoprotein

New series of escape mutants of human respiratory syncytial virus were prepared with monoclonal antibodies specific for the fusion (F) protein. Sequence changes selected in the escape mutants identified two new antigenic sites (V and VI) recognized by neutralizing antibodies and a group-specific site (I) in the F1 chain of the F molecule. The new epitopes, and previously identified antigenic sites, were incorporated into a refined prediction of secondary-structure motifs to generate a detailed antigenic map of the F glycoprotein.     

Variable Immune-Driven Natural Selection in the Attachment (G) Glycoprotein of Respiratory Syncytial Virus (RSV)

A maximum-likelihood analysis of selection pressures acting on the attachment (G) glycoprotein gene of respiratory syncytial virus (RSV) from humans (HRSV) and bovines (BRSV) is presented. Six positively selected sites were identified in both group A and group B of HRSV, although only one site was common between them, while no positively selected sites were detected in BRSV. All positively selected sites were located within the ectodomain of the G protein and showed some association with positions of immunoglobulin (Ig) epitopes and sites of O-glycosylation. These results suggest that immune (antibody)-driven natural selection is an important determinant of RSV evolution and that this selection pressure differs among strains. The passage histories of RSV strains were also shown to affect the distribution of positively selected sites, particularly in HRSV B, and should be considered whenever retrospective analysis of adaptive evolution is undertaken. Received: 15 August 2000 / Accepted: 2 November 2000     

Induction of Th-1 and Th-2 Responses by Respiratory Syncytial Virus Attachment Glycoprotein Is Epitope and Major Histocompatibility Complex Independent

In BALB/c mice, sensitization to respiratory syncytial virus (RSV) attachment (G) glycoprotein leads to the development of lung eosinophilia upon challenge infection with RSV, a pathology indicative of a strong in vivo induction of a Th-2-type response. In this study, we found that a strong, RSV G-specific, Th-1-type cytokine response occurred simultaneously with a Th-2-type response in G-primed mice after RSV challenge. Both Th-1 and Th-2 effector CD4(+) T cells recognized a single immunodominant site on this protein, implying that the differentiation of memory CD4(+) T cells along the Th-1 or Th-2 effector pathway was independent of the epitope specificity of the T cells. A similar observation was made in G-primed H-2(b) haplotype mice after RSV challenge, further suggesting that this process is not dependent on the peptide epitope presented. On the other hand, genes mapping to loci outside of the major histocompatibility complex region are crucial regulators of the development of a Th-2-type response and lung eosinophilia. The implication of these findings for the immune mechanisms underlying the pathogenesis of RSV is discussed.     

重组呼吸道合胞病毒G蛋白疫苗的免疫安全性研究

将呼吸道合胞病毒(respiratory syncytical virus,RSV)G蛋白与CpG佐剂共同免疫小鼠,分析RSV G蛋白免疫原性及安全性。前期纯化的G_(CX3C)和G_(CTL)两种蛋白分别与CpG佐剂混合,在0、2、4周以肌肉注射方式免疫昆明小鼠,免疫结束后检测小鼠肺部匀浆液中的IFN-γ、IL-4及Ig E等指标。同时末次免疫结束后,小鼠用滴度105pfu的RSV进行攻毒,解剖分离小鼠肺部,制备病理切片进行观察。G_(CTL)蛋白免疫组肺部匀浆液中的IL-4以及IgE低于G_(CX3C)蛋白免疫组。CpG组及GCTL+CpG组肺组织匀浆液中的INF-γ含量以及INF-γ/IL-4比值显著高于其他组(P0.05),且ELISPOT实验表明CpG佐剂能够促使分泌INF-γ的脾淋巴细胞数量增多。攻毒后,通过肺部组织切片观察,发现PBS和CpG免疫组肺部病变极为严重,G_(CTL)+CpG组的病变程度比G_(CX3C)+CpG组严重,而G_(CX3C)组的病变情况比G_(CTL)组严重。这些结果表明,重组G_(CTL)蛋白能够降低动物免疫应答的Th2型极化,具有良好的安全性。     

抗人呼吸道合胞病毒融合糖蛋白单克隆抗体的制备及体外鉴定

目的:获得能稳定分泌抗人呼吸道合胞病毒(human respiratory syncytial virus, RSV)融合糖蛋白(fusion glycoprotein, F)单克隆抗体(monoclonal antibody, mAb)的杂交瘤细胞株,以期用于RSV感染的早期诊断和被动免疫治疗研究。方法:通过杂交瘤技术制备可特异性识别RSV F的单抗,体外鉴定生物学特性。结果:获得了可分泌抗RSV F蛋白的杂交瘤细胞株F8,体外连续传代培养2个月,能稳定分泌抗体F8,培养上清效价为1∶1000,亲和常数(Ka)为6.8×10⁸ L/mol。F8属IgG1型抗体,可特异性识别RSV F1亚单位的AA 205-222。免疫酶法蚀斑减少中和实验证实F8具有体外中和活性及融合抑制活性。结论:获得具有中和活性的抗RSV F蛋白的单克隆抗体,为RSV感染的早期诊断及被动免疫治疗等奠定了基础。     

RhoA Interacts with the Fusion Glycoprotein of Respiratory Syncytial Virus and Facilitates Virus-Induced Syncytium Formation

The fusion glycoprotein (F) of respiratory syncytial virus (RSV), which mediates membrane fusion and virus entry, was shown to bind RhoA, a small GTPase, in yeast two-hybrid interaction studies. The interaction was confirmed in vivo by mammalian two-hybrid assay and in RSV-infected HEp-2 cells by coimmunoprecipitation. Furthermore, the interaction of F with RhoA was confirmed in vitro by enzyme-linked immunosorbent assay and biomolecular interaction analysis. Yeast two-hybrid interaction studies with various deletion mutants of F and with RhoA indicate that the key binding domains of these proteins are contained within, or overlap, amino acids 146 to 155 and 67 to 110, respectively. The biological significance of this interaction was studied in RSV-infected HEp-2 cells that were stably transfected to overexpress RhoA. There was a positive correlation between RhoA expression and RSV syncytium formation, indicating that RhoA can facilitate RSV-induced syncytium formation.     

重组杆状病毒表达尼帕病毒融合蛋白和受体结合蛋白的研究

构建了表达尼帕病毒(Nipah virus,NiV)囊膜功能糖蛋白F和G的重组杆状病毒rBac-NF、rBac-NG。Western-blot证实大小分别为61kD和66kD的重组融合蛋白(rNF)和受体结合蛋白(rNG)分别在rBac-NF、rBac-NG感染的昆虫细胞中获得表达,并且rNF前体F0可在昆虫细胞内进一步有效裂解为F1(~49kD)和F2;采用兔抗NiV病毒高免血清间接免疫荧光检测重组杆状病毒表达F和G蛋白显示出良好的特异免疫反应原性。以rBac-NF、rBac-NG感染的昆虫细胞裂解液稀释后直接包被ELISA板,间接ELISA检测兔抗灭活NiV全病毒高免血清中的F和G蛋白特异性抗体,同样具有良好的敏感性和特异性;以rBac-NF和rBac-NG感染昆虫细胞培养物直接免疫BALB/c小鼠,可诱导显著的NiVF和G蛋白特异体液免疫反应,产生的特异抗体可有效中和NiV囊膜蛋白F和G介导的伪型VSV重组病毒侵入NiV易感宿主细胞的感染性。结果表明,杆状病毒表达重组F和G蛋白抗原具有替代NiV全病毒,作为安全、经济、敏感和特异的诊断抗原的潜力,并为重组病毒亚单位疫苗防制尼帕病毒性脑炎的探索研究奠定了基础。     

Respiratory Syncytial Virus Infection of the Newborn

In an outbreak of respiratory syncytial (R.S.) virus infection in a maternity hospital the respiratory illness was of a mild nature and the virus was not found in infants without respiratory symptoms. This confirms the suggestion that R.S. virus can infect infants at a very early age. Rapid diagnosis was achieved by applying the direct fluorescent antibody technique to cells in nasal secretions. This proved to be more sensitive than culture techniques where there was delay between the onset of respiratory symptoms and submission of specimens to the laboratory.     

Complete Genome Sequence of Human Respiratory Syncytial Virus Genotype A with a 72-Nucleotide Duplication in the Attachment Protein G Gene

The complete genome sequence of human respiratory syncytial virus genotype A (HRSV-A) with a 72-nucleotide duplication in the C-terminal part of the attachment protein G gene was determined and analyzed. The genome was 15,277 bp in length, and 0.46 to 6.03% variations were identified at the nucleotide level compared with the previously reported complete genome of HRSV-A. Characterization of the genome will improve understanding of the diversity of the HRSV-A major antigens and enable an in-depth analysis of its genetics.     

Neutralization of Human Respiratory Syncytial Virus Infectivity by Antibodies and Low-Molecular-Weight Compounds Targeted against the Fusion Glycoprotein

Human respiratory syncytial virus (HRSV) fusion (F) protein is an essential component of the virus envelope that mediates fusion of the viral and cell membranes, and, therefore, it is an attractive target for drug and vaccine development. Our aim was to analyze the neutralizing mechanism of anti-F antibodies in comparison with other low-molecular-weight compounds targeted against the F molecule. It was found that neutralization by anti-F antibodies is related to epitope specificity. Thus, neutralizing and nonneutralizing antibodies could bind equally well to virions and remained bound after ultracentrifugation of the virus, but only the former inhibited virus infectivity. Neutralization by antibodies correlated with inhibition of cell-cell fusion in a syncytium formation assay, but not with inhibition of virus binding to cells. In contrast, a peptide (residues 478 to 516 of F protein [F478-516]) derived from the F protein heptad repeat B (HRB) or the organic compound BMS-433771 did not interfere with virus infectivity if incubated with virus before ultracentrifugation or during adsorption of virus to cells at 4°C. These inhibitors must be present during virus entry to effect HRSV neutralization. These results are best interpreted by asserting that neutralizing antibodies bind to the F protein in virions interfering with its activation for fusion. Binding of nonneutralizing antibodies is not enough to block this step. In contrast, the peptide F478-516 or BMS-433771 must bind to F protein intermediates generated during virus-cell membrane fusion, blocking further development of this process.Human respiratory syncytial virus (HRSV), a member of the Pneumovirus genus of the Paramyxoviridae family, is the main cause of severe lower respiratory tract infections in very young children (36), and it is a pathogen of considerable importance in the elderly (24, 26) and in immunocompromised adults (22). Currently, there is no effective vaccine against the virus although it is known that passive administration of neutralizing antibodies to individuals at high risk is an effective immunoprophylaxis (37, 38).The HRSV genome is a single-stranded negative-sense RNA molecule of approximately 15 kb that encodes 11 proteins (16, 53). Two of these proteins are the main surface glycoproteins of the virion. These are (i) the attachment (G) protein, which mediates virus binding to cells (44), and (ii) the fusion (F) protein, which promotes both fusion of the viral and cell membranes at the initial stages of the infectious cycle and fusion of the membrane of infected cells with those of adjacent cells to form characteristic syncytia (72). These two glycoproteins are the only targets of neutralizing antibodies either induced in animal models (19, 63, 65, 70) or present in human sera (62).The G protein is a highly variable type II glycoprotein that shares neither sequence identity nor structural features with the attachment protein of other paramyxoviruses (75). It is synthesized as a precursor of about 300 amino acids (depending on the strain) that is modified posttranslationally by the addition of a large number of N- and O-linked oligosaccharides and is also palmitoylated (17). The G protein is oligomeric (probably a homotetramer) (23) and promotes binding of HRSV to cell surface proteoglycans (35, 40, 49, 67). Whether this is the only interaction of G with cell surface components is presently unknown.The F protein is a type I glycoprotein that is synthesized as an inactive precursor of 574 amino acids (F0) which is cleaved by furin during transport to the cell surface to yield two disulfide-linked polypeptides, F2 from the N terminus and F1 from the C terminus (18). Like other viral type I fusion proteins, the mature F protein is a homotrimer which is in a prefusion, metastable, conformation in the virus particle. After fusion, the F protein adopts a highly stable postfusion conformation. Stability of the postfusion conformation is determined to great extent by two heptad repeat (HR) sequences, HRA and HRB, present in the F1 chain. Mixtures of HRA and HRB peptides form spontaneously heterotrimeric complexes (43, 51) that assemble in six-helix bundles (6HB), consisting of an internal core of three HRA helices surrounded by three antiparallel HRB helices, as determined by X-ray crystallography (79).The three-dimensional (3D) structure of the HRSV F protein has not been solved yet. Nevertheless, the structures of the pre- and postfusion forms of two paramyxovirus F proteins have revealed substantial conformational differences between the pre- and postfusion conformations (77, 78). The present hypothesis about the mechanism of membrane fusion mediated by paramyxovirus F proteins proposes that, following binding of the virus to the cell surface, the prefusion form of the F glycoprotein is activated, and membrane fusion is triggered. The F protein experiences then a series of conformational changes which include the exposure of a hydrophobic region, called the fusion peptide, and its insertion into the target membrane. Subsequent refolding of this intermediate leads to formation of the HRA and HRB six-helix bundle, concomitant with approximation of the viral and cell membranes that finally fuse, placing the fusion peptide and the transmembrane domain in the same membrane (4, 20). The formation of the 6HB and the associated free energy change are tightly linked to the merger of the viral and cellular membranes (60).Antibodies play a major role in protection against HRSV. Animal studies have demonstrated that immunization with either F or G glycoproteins induces neutralizing antibodies and protects against a viral challenge (19, 63, 70). Furthermore, transfer of these antibodies (31, 56) or of anti-F or anti-G monoclonal antibodies (MAbs) protects mice, cotton rats, or calves against either a human or bovine RSV challenge, respectively (65, 68, 73). Likewise, infants at high risk of severe HRSV disease are protected by the prophylactic administration of immunoglobulins with high anti-HRSV neutralizing titers (33). Finally, a positive correlation was found between high titers of serum neutralizing antibodies and protection in adult volunteers challenged with HRSV (34, 74), while an inverse correlation was found between high titers of neutralizing antibodies and risk of infection in children (29) and in the elderly (25).Whereas all the anti-G monoclonal antibodies reported to date are poorly neutralizing (1, 28, 48, 71), some anti-F monoclonal antibodies have strong neutralization activity (1, 3, 5, 28, 46). It is believed that HRSV neutralization by anti-G antibodies requires simultaneous binding of several antibodies to different epitopes, leading to steric hindrance for interaction of the G glycoprotein with the cell surface. Indeed, it has been shown that neutralization is enhanced by mixtures of anti-G monoclonal antibodies (1, 50), mimicking the effect of polyclonal anti-G antibodies. In contrast, highly neutralizing anti-F monoclonal antibodies do not require cooperation by other antibodies to block HRSV infectivity efficiently (1).In addition to neutralizing antibodies, other low-molecular-weight compounds directed against the F protein are potent inhibitors of HRSV infectivity. Synthetic peptides that reproduce sequences of heptad repeat B inhibit both membrane fusion promoted by the F protein and HRSV infectivity (42). Also, other small molecules obtained by chemical synthesis have been shown to interact with F protein and inhibit HRSV infectivity. These HRSV entry inhibitors have been the topic of intense research in recent years (55).This study explores the mechanisms of HRSV neutralization by different inhibitors of membrane fusion, including anti-F monoclonal antibodies, an HRB peptide, and the synthetic compound BMS-433771 (13-15). The results obtained indicate that antibodies and low-molecular-weight compounds block membrane fusion at different stages during virus entry.     

Morphogenesis and Ultrastructure of Respiratory Syncytial Virus

Respiratory syncytial (RS) virus was grown in Vero cells and fixed for electron microscopy at various stages of maturation. Both filamentous and round or kidney-shaped particles, either with (complete) or without (incomplete) internal structure, were observed. All four morphological forms were identical with respect to their reactivity with ferritin-labeled antibody to RS virus. Freezeetching revealed a structural feature apparently unique for RS virus, namely helical striations around the core on the internal aspect of the envelope. This specific configuration was already detectable during the early stages of viral differentiation of the host cell membrane. Concentration of free virus by zonal ultracentrifugation of culture fluids onto sucrose cushions yielded predominantly filamentous forms up to 10 mum in length.