Metagenomic Virome Analysis of Culex Mosquitoes from Kenya and China

Many blood-feeding arthropods are known vectors of viruses that are a source of unprecedented global health concern. Mosquitoes are an integral part of these arthropod vectors. Advancements in next-generation sequencing and bioinformatics has expanded our knowledge on the richness of viruses harbored by arthropods. In the present study, we applied a metagenomic approach to determine the intercontinental virome diversity of Culex quinquefasciatus and Culex tritaeniorhynchus in Kwale, Kenya and provinces of Hubei and Yunnan in China. Our results showed that viromes from the three locations were strikingly diverse and comprised 30 virus families specific to vertebrates, invertebrates, plants, and protozoa as well as unclassified group of viruses. Though sampled at different times, both Kwale and Hubei mosquito viromes were dominated by vertebrate viruses, in contrast to the Yunnan mosquito virome, which was dominated by insect-specific viruses. However, each virome was unique in terms of virus proportions partly influenced by type of ingested meals (blood, nectar, plant sap, environment substrates). The dominant vertebrate virus family in the Kwale virome was Papillomaviridae (57%) while in Hubei it was Herpesviridae (30%) and the Yunnan virome was dominated by an unclassified viruses group (27%). Given that insect-specific viruses occur naturally in their hosts, they should be the basis for defining the viromes. Hence, the dominant insect-specific viruses in Kwale, Hubei, and Yunnan were Baculoviridae, Nimaviridae and Iflaviridae, respectively. Our study is preliminary but contributes to growing and much needed knowledge, as mosquito viromes could be manipulated to prevent and control pathogenic arboviruses

The CINAMR (Clinical Information Network-Antimicrobial Resistance) Project: A pilot microbial surveillance using hospitals linked to regional laboratories in Kenya: Study Protocol [version 1; peer review: 2 approved]

Background: Antimicrobial resistance (AMR) is a global threat and is thought to be acute in low-and middle-income country (LMIC) settings, including in Kenya, but there is limited unbiased surveillance that can provide reliable estimates of its burden. Current efforts to build capacity for microbiology testing in Kenya are unlikely to result in systematic routine microbiological testing in the near term. Therefore, there is little prospect for microbiological support to inform clinical diagnoses nor for indicating the burden of AMR and for guiding empirical choice of antibiotics. Objective: We aim to build on an existing collaboration, the Clinical Information Network (CIN), to pilot microbiological surveillance using a ‘hub-and-spoke’ model where selected hospitals are linked to high quality microbiology research laboratories. Methods: Children admitted to paediatric wards of 12 participating hospitals will have a sample taken for blood culture at admission before antibiotics are started. Indication for blood culture will be a clinician’s prescription of antibiotics. Samples will then be transported daily to the research laboratories for culture and antibiotic susceptibility testing and results relayed back to clinicians for patient management. The surveillance will take place for 6 months in each hospital. Separately, we shall conduct semi-structured interviews with frontline health workers to explore the feasibility and utility of this approach. We will also seek to understand how the availability of microbiology results might inform antibiotic stewardship, and as an interim step to the development of better national or regional laboratories linked to routine surveillance. Conclusions: If feasible, this approach is less costly and periodic ‘hub-and-spoke’ surveillance can be used to track AMR trends and to broadly guide empirical antibiotic guidance meaning it is likely to be more sustainable than establishing functional microbiological facilities in each hospital in a LMIC setting

The status of flora and fauna in the Nzoia River drainage basin in western Kenya

The species richness of flora and fauna in the Nzoia River drainage basin is documented through a study of museum specimens,  catalogues and databases. The catchment area and basin covers 2.2% (12900/580367 km2) of Kenya’s total land area with an altitudinal range of 1140 to 4300 m and varied ecosystem and land uses. We recorded approximately 9.3% (3239/34677) of Kenya’s current known species of vascular plants, invertebrates (insects and spiders), fish, amphibians, reptiles, birds and mammals. Bird species made up the highest proportion 58.3% (650/1114) of the national total followed by amphibians 37.3% (41/110), reptiles 45.0% (86/191), mammals 31.3% (122/390), vascular plants 17.9% (1251/7000), fish 6.7% (58/872) (32.2% (58/180) for freshwater fish only) and invertebrates (insects and spiders) 4.1% (1031/25000). Ninety-five species recorded in this area are endemic to Kenya and 42 globally threatened. The species recorded contribute to several ecosystem services including pest control, pollination, bio-indicators, medicine and cosmetics, building materials, ecotourism, research and education. Data available differed substantially across counties and taxon groups with gaps apparent in five counties (Bungoma, Busia, Elgeyo Marakwet, Siaya and Usain Gishu) and four taxa plants, invertebrates, fungi and bacteria where a dearth of information exists. To fill these gaps we recommend prioritisng future survey effort on taxa and counties with fewer than 10% of the total numbers of records

Type Catalogue NMK

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