Molecular characterization of rotavirus group A strains circulating prior to vaccine introduction in rural coastal Kenya, 2002-2013

Background Kenya introduced the monovalent Rotarix® rotavirus group A (RVA) vaccine nationally in mid-2014. Long-term surveillance data is important prior to wide-scale vaccine use to assess the impact on disease and to investigate the occurrence of heterotypic strains arising through immune selection. This report presents baseline data on RVA genotype circulation patterns and intra-genotype genetic diversity over a 7-year period in the pre-vaccine era in Kilifi, Kenya, from 2002 to 2004 and from 2010 to 2013. Methods A total of 745 RVA strains identified in children admitted with acute gastroenteritis to a referral hospital in Coastal Kenya, were sequenced using the di-deoxy sequencing method in the VP4 and VP7 genomic segments (encoding P and G proteins, respectively). Sequencing successfully generated 569 (76%) and 572 (77%) consensus sequences for the VP4 and VP7 genes respectively. G and P genotypes were determined by use of BLAST and the online RotaC v2 RVA classification tool. Results The most common GP combination was G1P[8] (51%), similar to the Rotarix® strain, followed by G9P[8] (15%) , G8P[4] (14%) and G2P[4] (5%). Unusual GP combinations—G1P[4], G2P[8], G3P[4,6], G8P[8,14], and G12P[4,6,8]—were observed at frequencies of <5%. Phylogenetic analysis showed that the infections were caused by both locally persistent strains as evidenced by divergence of local strains occurring over multiple seasons from the global ones, and newly introduced strains, which were closely related to global strains. The circulating RVA diversity showed temporal fluctuations both season by season and over the longer-term. None of the unusual strains increased in frequency over the observation period. Conclusions The circulating RVA diversity showed temporal fluctuations with several unusual strains recorded, which rarely caused major outbreaks. These data will be useful in interpreting genotype patterns observed in the region during the vaccine er

Population-Level Benefits from Providing Effective HIV Prevention Means to Pregnant Women in High Prevalence Settings

Background:HIV prevalence among pregnant women in Southern Africa is extremely high. Epidemiological studies suggest that pregnancy increases the risk of HIV sexual acquisition and that HIV infections acquired during pregnancy carry higher risk of mother-to-child transmission (MTCT). We analyze the potential benefits from extending the availability of effective microbicide to pregnant women (in addition to non-pregnant women) in a wide-scale intervention.Methods and Findings:A transmission dynamic model was designed to assess the impact of microbicide use in high HIV prevalence settings and to estimate proportions of new HIV infections, infections acquired during pregnancy, and MTCT prevented over 10 years. Our analysis suggests that consistent use of microbicide with 70% efficacy by 60% of non-pregnant women may prevent approximately 40% and 15% of new infections in women and men respectively over 10 years, assuming no additional increase in HIV risk to either partner during pregnancy (RRHIV/preg = 1). It may also prevent 8-15% MTCT depending on the increase in MTCT risk when HIV is acquired during pregnancy compared to before pregnancy (RRMTCT/preg). Extending the microbicides use during pregnancy may improve the effectiveness of the intervention by 10% (RRHIV/preg = 1) to 25% (RRHIV/preg = 2) and reduce the number of HIV infections acquired during pregnancy by 40% to 70% in different scenarios. It may add between 6% (RRHIV/preg = 1, RRMTCT/preg = 1) and 25% (RRHIV/preg = 2, RRMTCT/preg = 4) to the reduction in the residual MTCT.Conclusion:Providing safe and effective microbicide to pregnant women in the context of wide-scale interventions would be desirable as it would increase the effectiveness of the intervention and significantly reduce the number of HIV infections acquired during pregnancy. The projected benefits from covering pregnant women by the HIV prevention programs is more substantial in communities in which the sexual risk during pregnancy is elevated. © 2013 Dimitrov et al

Low HIV incidence in pregnant and postpartum women receiving a community-based combination HIV prevention intervention in a high HIV incidence setting in South Africa

BACKGROUND: Young Southern African women have the highest HIV incidence globally. Pregnancy doubles the risk of HIV acquisition further, and maternal HIV acquisition contributes significantly to the paediatric HIV burden. Little data on combination HIV prevention interventions during pregnancy and lactation are available. We measured HIV incidence amongst pregnant and postpartum women receiving a community-based combination HIV prevention intervention in a high HIV incidence setting in South Africa. METHODS: A cohort study that included HIV-uninfected pregnant women was performed. Lay community- based workers provided individualized HIV prevention counselling and performed three-monthly home and clinic-based individual and couples HIV testing. Male partners were referred for circumcision, sexually transmitted infections or HIV treatment as appropriate. Kaplan-Meier analyses and Cox's regression were used to estimate HIV incidence and factors associated with HIV acquisition. RESULTS The 1356 women included (median age 22.5 years) received 5289 HIV tests. Eleven new HIV infections were detected over 828.3 person-years (PY) of follow-up, with an HIV incidence rate of 1.33 infections/100 PY (95% CI: 0.74±2.40). Antenatally, the HIV incidence rate was 1.49 infections/100 PY (95% CI: 0.64±2.93) and postnatally the HIV incidence rate was 1.03 infections/100 PY (95% CI: 0.33±3.19). 53% of male partners received HIV testing and 66% of eligible partners received referral for circumcision. Women within known serodiscordant couples, and women with newly diagnosed HIV-infected partners, adjusted hazard ratio (aHR) = 32.7 (95% CI: 3.8±282.2) and aHR = 126.4 (95% CI: 33.8±472.2) had substantially increased HIV acquisition, respectively. Women with circumcised partners had a reduced risk of incident HIV infection, aHR = 0.22 (95% CI: 0.03±1.86). CONCLUSIONS: Maternal HIV incidence was substantially lower than previous regional studies. Community-based combination HIV prevention interventions may reduce high maternal HIV incidence in resource-poor settings. Expanded roll-out of home-based couples HIV testing and initiating pre-exposure prophylaxis for pregnant women within serodiscordant couples is needed in Southern Africa

Multi-basin depositional framework for moisture-balance reconstruction during the last 1300 years at Lake Bogoria, central Kenya Rift Valley

Multi-proxy analysis of sediment cores from five key locations in hypersaline, alkaline Lake Bogoria (central Kenya Rift Valley) has allowed reconstruction of its history of depositional and hydrological change during the past 1300years. Analyses including organic matter and carbonate content, granulometry, mineralogical composition, charcoal counting and high-resolution scanning of magnetic susceptibility and elemental geochemistry resulted in a detailed sedimentological and compositional characterization of lacustrine deposits in the three lake basins and on the two sills separating them. Thesepalaeolimnological data were supplemented with information on present-day sedimentation conditions based on seasonal sampling of settling particles and on measurement of physicochemical profiles through the water column. A new age model based on Pb-210, Cs-137 and C-14 dating captures the sediment chronology of this hydrochemically complex and geothermally fed lake. An extensive set of chronological tie points between the equivalent high-resolution proxy time series of the five sediment sequences allowed transfer of radiometric dates between the basins, enabling interbasin comparison of sedimentation dynamics through time. The resulting reconstruction demonstrates considerable moisture-balance variability through time, reflecting regional hydroclimate dynamics over the past 1300years. Between ca 690 and 950AD, the central and southern basins of Lake Bogoria were reduced to shallow and separated brine pools. In the former, occasional near-complete desiccation triggered massive trona precipitation. Between ca 950 and 1100AD, slightly higher water levels allowed the build-up of high pCO(2) leading to precipitation of nahcolite still under strongly evaporative conditions. Lake Bogoria experienced a pronounced highstand between ca 1100 and 1350AD, only to recede again afterwards. For a substantial part of the time between ca 1350 and 1800AD, the northern basin was probably disconnected from the united central and southern basins. Throughout the last two centuries, lake level has been relatively high compared to the rest of the past millennium. Evidence for increased terrestrial sediment supply in recent decades, due to anthropogenic soil erosion in the wider Bogoria catchment, is a reason for concern about possible adverse impacts on the unique ecosystem of Lake Bogoria

Preliminary surveys of the fish and fisheries of the Nzoia, Nyando and Sondu Miriu rivers, Kenya

Three Lake Victoria rivers were sampled to assess fish abundance and distribution in preparation for assessment of catches from the river systems. Preliminary fish abundance data indicate that fishing potential upstream is negligible but that important commercial species are present in the downstream floodplain areas. Three catfish species were recorded in the Nzoia river system that have not been found previously in the Kenyan sector of the Lake Victoria system, together with possibly two undescribed Barbus species

Effects of Bacillus thuringiensis CRY1A(c) d-endotoxin on growth, nodulation and productivity of beans [Phaseolus vulgaris (L.) and siratro (Macroptilium atropurpureum DC.)]

The recent introduction of Bt maize and Bt cotton transgenic crops into Africa has raised concerns on their potential short and long-term ecological effects on the environment. The effects of Bacillus thuringiensis (Bt) Cry1A(c) d-endotoxin on the growth, nodulation and productivity of two leguminous plants grown in clay soil were evaluated. Bt Cry1A(c) d-endotoxin from a local B. thuringiensis isolate (ICIPE L1-2) active against Chilo partellus (Swinhoe) was used. Beans (Phaseolus vulgaris L.) and Siratro (Macroptilium atropurpureum DC.) seedlings were grown in pots treated with Bt Cry1A(c) dendotoxin solution (100 &#236;g/ml). Control experiments were treated with water. The plants were maintained in the greenhouse until nodulation (8 weeks) and maturity (14 weeks) stages when sampling was done for measurements of morphological, productivity and nodulation traits. Nodulation was observed in both plants species. Nitrogen content in treatments for both bean and siratro plants, withand without Bt-toxin not were significantly different. Leaf area, plant dry weight, number of pods per plants and number of seeds per pod observed in treatments with and without Bt-toxin for both bean and siratro plants were also not significantly different. This shows that Bt Cry1A(c) delta-endotoxin does not interfere with the host plant growth, nodulation and productivity in clay soil. Findings will provide researchers with data to design more robust experiments and will inform the decisions of diversestakeholders regarding the safety of transgenic crops

Experiences in effective communication on transgenic technology in Africa – the case of the insect resistant maize for Africa (IRMA) project

The Insect Resistant Maize for Africa (IRMA) Project, aimed to improve food security through developing and deploying locally adapted stem borer resistant maize varieties using both conventional and biotechnology mediated methods, especially Bt technology. This technology uses a gene from the soil bacterium Bacillus thuringiensis (Bt) to create transgenic maize varieties. Transgenic technologies have been a controversial and emotive topic in recent years, and the IRMA project was launched against this backdrop. To ensure widespread acceptance of the IRMA project and its Bt technology, the project carefully planned and implemented its communication and public awareness strategy. Following its public launch in March 2000, the project promoted an open communication environment and continuously engaged with stakeholders to update them on progress. The project achieved this through targeted and diverse communications products such as media articles and broadcast news pieces, newsletters, websites, videos and reports. To complement these, the project conducted annual stakeholders’ meetings, and specialized training for frontline project staff and collaborators, especially extension agents. This paper reviews the IRMA Project’s public awareness and communication strategy and analyzes its effectiveness.Key words: Transgenic technology, Bacillus thuringiensis (Bt) maize technology, communication, public awareness, insect resistant maize for Africa (IRMA) project

Developing Bt maize for resource-poor farmers – Recent advances in the IRMA project

This paper presents an overview of the advances in the IRMA project, which develops insect resistant maize varieties for resource-poor farmers, using both conventional breeding and genetic engineering. The project started in 1999 and is active in product development, impact assessment, andcommunication, all within the Kenya regulatory framework. So far, four application for introduction of tissue or commencement of field research were made to and approved by the National Biosafety Committee (NBC), and Bt maize leaves or seeds genes imported for testing against different stem borer species in bioassays on cut leaves in a biosafety laboratory, in potted plants in a Biosafety Greenhouse, and as whole plants in confined field trials in the Open Quarantine Station (OQS) at KARI Kiboko. All these biosafety facilities were specially built by the project for these evaluations. So far, good control has been realized against four of the five major stem borer species: Chilo partellus, Chilo orichalcociliellus, Eldana saccharina and Sesamia calamistis. Economic&nbsp; impact assessment demonstrated that stem borers are major constraints and cause substantial losses. Resistant maizevarieties are likely to be adopted and to provide major returns to the investment if resistance against the economically most important species, Busseola fusca, can be found. Otherwise, returns would still be positive but small. Environmental impact research indicate that build-up of resistance against the Bt genes has not developed after that sufficient natural refugia exist in most areas, but suitable strategies acceptable to farmers need to be developed for some. Surveys, stakeholders meetings and other communications indicate that farmers, consumers and other stakeholders are cautiously optimistic about technology. Frequent interaction with the stakeholders and regulatory agencies assures a participative decision-making process and compliance with the strictest scientific and regulatorystandards

Liver-draining portal lymph node responds to enteric nematode infection by generating highly parasite-specific follicular T helper and B cell responses

Introduction: While research on the gut-liver axis in non-communicable liver diseases has expanded exponentially, few studies have investigated the liver-gut relationship in the context of gastrointestinal nematode infections. This study aimed to determine whether liver-draining lymph nodes (LLNs) contribute to the immune response against a strictly enteric nematode infection. Methods: We analyzed the cellular and functional immune responses in the portal (PLN) and celiac (CLN) liver-draining lymph nodes following infection with the small intestinal nematode Heligmosomoides (polygyrus) bakeri (H. bakeri). The composition of dendritic cells and CD4+ T cell subsets in LLNs was compared to the mesenteric lymph nodes (MLN), the primary draining site of gut infections. Additionally, we examined Th2 effector cell expansion, plasmablast generation, and B cell activation across these lymphoid sites. Results: Both PLN and CLN exhibited increased cellularity at d14 post-infection. The immune profile in CLN closely resembled that of MLN, characterized by a robust expansion of GATA-3+ Th2 effector cells at days 6 and 14 post-infection. This was accompanied by an early plasmablast response, producing low-affinity IgG1 antibodies targeting immune-dominant excretory-secretory (ES) products. In contrast, PLN showed weaker Th2 responses and lower early plasma cell responses compared to MLN and CLN. However, PLN displayed strong follicular T helper (TFH) activity, with a B cell profile biased toward germinal center reactions. This led to high-affinity IgG1 antibodies specifically binding VAL-1 and ACE-1. Discussion: These findings demonstrate, for the first time, that liver-draining lymph nodes actively participate in the adaptive immune response to enteric nematode infections. While MLN and CLN function synergistically in generating early Th2 effector cells and rapid extrafollicular IgG1+ plasma cell responses, PLN specializes in TFH-driven germinal center reactions and affinity maturation

Combining ability of maize (Zea mays L.) inbred lines resistant to stem borers

Ten inbred parents with varying resistance levels to Chilo partellus and Busseola fusca were crossed in a half diallel mating scheme to generate 45 F1 hybrids. The hybrids and five commercial checks were evaluated across four locations in Kenya under artificial and natural infestation in 2009. Genotype (G) by environment (E) interaction (G x E) was non-significant for stem borer leaf damage, number of exit holes and tunnel length, suggesting that screening for stem borer resistance at one location would be adequate. On the other hand, G x E and general combining ability (GCA) x environment interactions were highly significant for gray leaf spot and turcicum leaf blight, indicating an inbred line resistance to a disease in one location may have a different reaction to the same disease in another location. The results of combining ability analysis showed that GCA effects were significant for stem borer resistance traits (leaf damage scores, number of exit holes, and tunnel length) while the opposite was true for specific combining ability (SCA) effects. Parents 5, 2, 6, 9 and 3, were good sources of genes for higher grain yield while parents 1 and 4 were good sources of resistance genes for stem borers. Hybrid 5 x 9 was the best performing hybrid in grain yield (6.53 t/ha) across the locations, while hybrid 1 x 4 was the least performing in grain yield (3.08 t/ha). The source of stem borer resistance identified in the study may be useful for improving levels of stem borer resistance in maize breeding  programs in eastern and southern Africa.Key words: Combining ability, maize, inbred lines, stem borers