Phylodynamics of HIV-1 subtype B among the men-having-sex-with-men (MSM) population in Hong Kong

The men-having-sex-with-men (MSM) population has become one of the major risk groups for HIV-1 infection in the Asia Pacific countries. Hong Kong is located in the centre of Asia and the transmission history of HIV-1 subtype B transmission among MSM remained unclear. The aim of this study was to investigate the transmission dynamics of HIV-1 subtype B virus in the Hong Kong MSM population. Samples of 125 HIV-1 subtype B infected MSM patients were recruited in this study. Through this study, the subtype B epidemic in the Hong Kong MSM population was identified spreading mainly among local Chinese who caught infection locally. On the other hand, HIV-1 subtype B infected Caucasian MSM caught infection mainly outside Hong Kong. The Bayesian phylogenetic analysis also indicated that 3 separate subtype B epidemics with divergence dates in the 1990s had occurred. The first and latest epidemics were comparatively small-scaled; spreading among the local Chinese MSM while sauna-visiting was found to be the major sex partner sourcing reservoir for the first subtype B epidemic. However, the second epidemic was spread in a large-scale among local Chinese MSM with a number of them having sourced their sex partners through the internet. The epidemic virus was estimated to have a divergence date in 1987 and the infected population in Hong Kong had a logistic growth throughout the past 20 years. Our study elucidated the evolutionary and demographic history of HIV-1 subtype B virus in Hong Kong MSM population. The understanding of transmission and growth model of the subtype B epidemic provides more information on the HIV-1 transmission among MSM population in other Asia Pacific high-income countries.     

Community-Based HIV-1 Early Diagnosis and Risk Behavior Analysis of Men Having Sex with Men in Hong Kong

The increasing prevalence of HIV-1 among men having sex with men (MSM) calls for an investigation of HIV-1 prevalence and incidence in MSM by early diagnosis to assist with early preventive interventions in Hong Kong. The participants were recruited randomly from MSM communities within a one-year period. Rapid HIV Test (RHT) and real-time dried blood spot (DBS)-based quantitative polymerase chain reaction (DBS-qPCR) were used for the early diagnosis of 474 participants. Risk behavior analysis was performed by studying information obtained from the participants during the study period. The HIV-1 prevalence and incident rates in the studied MSM population were 4.01% (19/474) and 1.47% (7/474), respectively. Three infected participants were found at the acute phase of infection by DBS-qPCR. Only 46.4% (220/474) MSM were using condoms regularly for anal sex. HIV infection significantly correlated with unprotected receptive anal sex and syphilis infection. An increased number of infections was found among foreign MSM in Hong Kong. This study is the first to use DBS-qPCR to identify acutely infected individuals in a community setting and to provide both the prevalence and incident rates of HIV-1 infection among MSM in Hong Kong. The risk analysis provided evidence that behavior intervention strengthening is necessary to fight against the increasing HIV-1 epidemic among MSM in Hong Kong and surrounding regions in Asia.     

Frequent Intra-Subtype Recombination among HIV-1 Circulating in Tanzania

The study estimated the prevalence of HIV-1 intra-subtype recombinant variants among female bar and hotel workers in Tanzania. While intra-subtype recombination occurs in HIV-1, it is generally underestimated. HIV-1 env gp120 V1-C5 quasispecies from 45 subjects were generated by single-genome amplification and sequencing (median (IQR) of 38 (28–50) sequences per subject). Recombination analysis was performed using seven methods implemented within the recombination detection program version 3, RDP3. HIV-1 sequences were considered recombinant if recombination signals were detected by at least three methods with p-values of ≤0.05 after Bonferroni correction for multiple comparisons. HIV-1 in 38 (84%) subjects showed evidence for intra-subtype recombination including 22 with HIV-1 subtype A1, 13 with HIV-1 subtype C, and 3 with HIV-1 subtype D. The distribution of intra-patient recombination breakpoints suggested ongoing recombination and showed selective enrichment of recombinant variants in 23 (60%) subjects. The number of subjects with evidence of intra-subtype recombination increased from 29 (69%) to 36 (82%) over one year of follow-up, although the increase did not reach statistical significance. Adjustment for intra-subtype recombination is important for the analysis of multiplicity of HIV infection. This is the first report of high prevalence of intra-subtype recombination in the HIV/AIDS epidemic in Tanzania, a region where multiple HIV-1 subtypes co-circulate. HIV-1 intra-subtype recombination increases viral diversity and presents additional challenges for HIV-1 vaccine design.     

Restricted Genetic Diversity of HIV-1 Subtype C Envelope Glycoprotein from Perinatally Infected Zambian Infants

Background

Mother-to-child transmission of HIV-1 remains a significant problem in the resource-constrained settings where anti-retroviral therapy is still not widely available. Understanding the earliest events during HIV-1 transmission and characterizing the newly transmitted or founder virus is central to intervention efforts. In this study, we analyzed the viral env quasispecies of six mother-infant transmission pairs (MIPs) and characterized the genetic features of envelope glycoprotein that could influence HIV-1 subtype C perinatal transmission.

Methodology and Findings

The V1-V5 region of env was amplified from 6 MIPs baseline samples and 334 DNA sequences in total were analyzed. A comparison of the viral population derived from the mother and infant revealed a severe genetic bottleneck occurring during perinatal transmission, which was characterized by low sequence diversity in the infant. Phylogenetic analysis indicates that most likely in all our infant subjects a single founder virus was responsible for establishing infection. Furthermore, the newly transmitted viruses from the infant had significantly fewer potential N-linked glycosylation sites in Env V1-V5 region and showed a propensity to encode shorter variable loops compared to the nontransmitted viruses. In addition, a similar intensity of selection was seen between mothers and infants with a higher rate of synonymous (dS) compared to nonsynonymous (dN) substitutions evident (dN/dS<1).

Conclusions

Our results indicate that a strong genetic bottleneck occurs during perinatal transmission of HIV-1 subtype C. This is evident through population diversity and phylogenetic patterns where a single viral variant appears to be responsible for infection in the infants. As a result the newly transmitted viruses are less diverse and harbored significantly less glycosylated envelope. This suggests that viruses with the restricted glycosylation in envelope glycoprotein appeared to be preferentially transmitted during HIV-1 subtype C perinatal transmission. In addition, our findings also indicated that purifying selection appears to predominate in shaping the early intrahost evolution of HIV-1 subtype C envelope sequences.     

Rodent Diversity in a Highly Degraded Tropical Landscape: Hong Kong, South China

The diverse ecological roles played by different rodent species mean that the loss of some species and superabundance of others could potentially influence a wide range of ecological processes. Hong Kong (22° N, 114° E), with seven million people in a land area of 1100 km², could be considered a `worst case scenario' for the survival of mammalian diversity. Existing information on rodents in Hong Kong was compiled from previous published and unpublished studies, and additional trapping was conducted at 17 non-urban sites. The rodent fauna of modern Hong Kong consists of eight species of rats and mice (Bandicota indica, Mus caroli, M. musculus, Niviventer fulvescens, Rattus norvegicus, R. rattus, R. tanezumi, R. sikkimensis: Muridae), one porcupine (Hystrix brachyura: Hystricidae), and one recently introduced tree squirrel (Callosciurus erythraeus: Sciuridae). Six of the murids are urban or agricultural commensals, so only the porcupine and two murids, N. fulvescens and R. sikkimensis, are likely survivors of Hong Kong's pre-deforestation native rodent fauna. The two murids co-dominate in forest and shrubland, but can also move through grassland, which has probably enabled their survival through repeated cycles of fragmentation and regrowth. Additional forest rodents that may have inhabited Hong Kong in the past are tentatively identified from information on their recent distributions in the region. One possible ecological consequence of Hong Kong's depleted rodent fauna is a shift in the balance between seed predation and seed dispersal, in favor of the former.     

Genetic heterogeneity of HIV-1 in Greece

The aim of this study was to detect and determine the genetic variation of HIV-1 in Greece and to analyze the phylogenetic relationships and transmission dynamics of identified variants. Eighty-six blood samples from HIV-1 seroconverted patients of different risk groups were collected from the AIDS clinic, AHEPA Hospital, Thessaloniki, Greece. Retroviral DNA was extracted from uncultured peripheral blood mononuclear cells. HIV-1 DNA sequences encoding a 500-bp fragment of the gp120 C2-C3 region were amplified from each study subject, and they were genetically subtyped by heteroduplex mobility assay and DNA sequencing. Genetic distances and phylogenetic relationships of DNA sequences were estimated using PHYLIP software. Our results revealed that 82 out of 86 (95.3%) subjects carried subtype B sequences, while four (4.7%) carried subtype A sequences. Subtype A in Greek individuals not having traveled abroad was documented. An average of intrasubtype B genetic divergence of 15% was noted. Our findings demonstrate the presence of at least two genetic subtypes of HIV-1 in northern Greece--subtype B and subtype A. The predominant subtype is subtype B, which was transmitted into Greece by multiple sources. Our observations lend support to the argument that the distribution of HIV-1 subtypes is determined by founder effects or other processes rather than any tropism for particular cell types or mode of transmission.     

Corticolous ascomycetes in Hong Kong

Some corticolous ascomycetes from Hong Kong are reported, based on materials recently collected by the first author. Corticolous ascomycetes form a component of the biodiversity in the tropics that has been neglected until now. Some unexpected species were found, including species so far only known from temperate areas.     

Visualizing Marriage in Hong Kong

ABSTRACT

In this article, I propose using bridal photography and wedding video-recording to gain a better understanding of the meanings of romance and the ideal life among young generations and to consider how relevant images of getting married shed light on the changing social life in Hong Kong. Bridal photography and wedding videorecording not only play the role of documentation but also reflect the social change and values among new married couples in the society. By examining packaged bridal photography and the process of wedding video-shooting, I propose to state how visualization brings subtle influences into the new dynamism of marriage as a ritual and reflects the changing social contexts in today's Hong Kong everyday life.     

Genetic polymorphisms and plasma levels of transforming growth factor-beta(1) in Chinese patients with tuberculosis in Hong Kong

Susceptibility to tuberculosis (TB) may be affected by host genetic factors. Elevated levels of transforming growth factor-beta 1 (TGF-β₁) were found in plasma of patients with active TB compared with those of healthy contacts. To investigate the association of TGF-β₁ gene polymorphisms (C-509T and T869C) and plasma levels with the risk of TB in Hong Kong Chinese adults, a case-control study was carried out on 174 active TB patients and 174 healthy controls matched for age, gender and smoking. Blood samples from 180 blood donors served as another control group. Genotyping was carried out on genomic DNA using polymerase chain reaction and restriction fragment length polymorphism (PCR-RFLP). Plasma TGF-β₁ was measured by commercially available ELISA kit. We found no differences in the distribution of genotypes or alleles of TGF-β₁ gene polymorphisms at C-509T and T869C between patients and either group of healthy controls. Patients with TB had elevated plasma TGF-β₁ levels compared with healthy controls irrespective of their genotypes (p < 0.001). In conclusion, TGF-β₁ gene polymorphism at C-509T and T869C is not associated with TB susceptibility in Hong Kong Chinese adults, but elevated plasma TGF-β₁ levels suggests that this cytokine may play a role in the pathogenesis of tuberculosis.     

香港果洲群岛植物物种多样性与植被的研究

据实地调查统计,香港果洲群岛共有维管束植物140种,隶属于54科115属,其中蕨类植物5科6属6种.裸了植物1科1属1种,被子植物48科108属133种.植被类型主要为常绿阔叶灌丛、南亚热带常绿阔叶林和热带滨海砂生植被.果洲群岛植物区系以热带、亚热带成分占优势.报道了果洲群岛各岛植物种类,并分析了各岛植物物种多样性的特点以及与邻近地区植物多样性的关系,为香港岛屿植物区系的研究提供基本资料.     

Genetic Diversity of Circulating Rotavirus Strains in Tanzania Prior to the Introduction of Vaccination

Background

Tanzania currently rolls out vaccination against rotavirus-diarrhea, a major cause of child illness and death. As the vaccine covers a limited number of rotavirus variants, this study describes the molecular epidemiology of rotavirus among children under two years in Dar es Salaam, Tanzania, prior to implementation of vaccination.

Methods

Stool specimens, demographic and clinical information, were collected from 690 children admitted to hospital due to diarrhea (cases) and 545 children without diarrhea (controls) during one year. Controls were inpatient or children attending child health clinics. Rotavirus antigen was detected using ELISA and positive samples were typed by multiplex semi-nested PCR and sequencing.

Results

The prevalence of rotavirus was higher in cases (32.5%) than in controls (7.7%, P<0.001). The most common G genotypes were G1 followed by G8, G12, and G4 in cases and G1, G12 and G8 in controls. The Tanzanian G1 variants displayed 94% similarity with the Rotarix vaccine G1 variant. The commonest P genotypes were P[8], P[4] and P[6], and the commonest G/P combination G1 P[8] (n = 123), G8 P[4] and G12 P[6]. Overall, rotavirus prevalence was higher in cool (23.9%) than hot months (17.1%) of the year (P = 0.012). We also observed significant seasonal variation of G genotypes. Rotavirus was most frequently found in the age group of four to six months. The prevalence of rotavirus in cases was lower in stunted children (28.9%) than in non-stunted children (40.1%, P = 0.003) and lower in HIV-infected (15.4%, 4/26) than in HIV-uninfected children (55.3%, 42/76, P<0.001).

Conclusion

This pre-vaccination study shows predominance of genotype G1 in Tanzania, which is phylogenetically distantly related to the vaccine strains. We confirm the emergence of genotype G8 and G12. Rotavirus infection and circulating genotypes showed seasonal variation. This study also suggests that rotavirus may not be an opportunistic pathogen in children infected with HIV.     

Phytogeography of Hong Kong bryophytes

Aim Hong Kong is in a biogeographically interesting location on the northern margins of the Asian tropics. This paper analyzes the phytogeography of Hong Kong's bryophyte flora for the first time. Location Hong Kong lies on the South China coast, 22°9′–22°37′ N, 113°52′–114°30′ E. It is one of the most densely populated places in the world, but because of the rugged topography only 20% of the total land area of 1100 km² is urbanized. Although 130 km south of the Tropic of Cancer, it has a subtropical climate with distinct hot, humid and cool, dry seasons. Methods The analysis is based on a new and relatively complete inventory of Hong Kong's bryoflora. Each taxon was assigned to a phytogeographical pattern on the basis of its present worldwide distribution. Krober's percentage similarity was employed to evaluate the floristic affinities between different regions. Results The bryophyte flora consists of at least 360 species and twelve infraspecific taxa in 159 genera and seventy families, of which four taxa are locally endemic. The largest families are Lejeuneaceae (fifty‐one taxa), Fissidentaceae (28), Hypnaceae (21), Dicranaceae (20), Calymperaceae (18), and Sematophyllaceae (15). The largest genera are Fissidens (28), Cololejeunea (17), Lejeunea (10), Syrrhopodon (9), Frullania (8), and Macromitrium (8). Fourteen phytogeographical patterns are recognized. The East Asian pattern is the commonest (seventy‐three taxa, 19.6%), followed by Asian–Australian–Oceanian (45, 12.1%) and Temperate (44, 11.8%). Overall, a third of taxa have tropical distributions. The bryofloras of eleven regions were compared with that of Hong Kong. The most similar regions are Hainan Province, Taiwan Province, and Japan. Mosses and liverworts show very similar phytogeographical distributions. Main conclusions (1) The Hong Kong bryoflora is best described as northern marginal tropical, with a strong Eastern Asian and Temperate influence; (2) the region of closest phytogeographical affinity for which information is available is Hainan; (3) in comparison with vascular plants, vertebrates and those invertebrate groups for which there is information, the bryoflora has a relatively low proportion of tropical taxa; (4) the bryoflora of Hong Kong appears to be exceptionally rich for its small area.     

Mycorrhizal associations in Hong Kong Fagaceae

Polyphenols histochemically detected in fresh uninfected roots of Quercus, Castanopsis and Lithocarpus growing in Hong Kong and shown to be condensed tannins were found mainly as intracellular material in the cells of the root cap, the epidermal layer and the endodermis. The cell walls of the outer cortex and the endodermis also contained suberin. Following invasion by compatible ectomycorrhizal symbionts, condensed tannins disappeared from cells of the root cap and the epidermal layer but hyphae were prevented from colonizing the cortex presumably due to suberin barriers. In vitro experiments indicated that a number of broad-host ectomycorrhizal fungi could utilise various polyphenolic compounds, including tannins found in the root exudates of the host trees, with different degrees of efficiency.