Status and behavioural ecology of Sengis in the Boni-Dodori and Arabuko-Sokoke forests, Kenya, determined by camera traps

The biodiversity of northern coastal Kenya, east of the Tana River, is poorlyunderstood because security problems and poor infrastructure have discouraged accessto the area. However, the wooded areas in the region have great potential forharbouring endemic and rare species, including sengis or elephant-shrews (orderMacroscelidea), especially giant sengis in the genus Rhynchocyon. Based on extensivecamera-trap surveys of the Boni-Dodori forest, east of the Tana River near theSomalia border, and the Arabuko-Sokoke forest west of the Tana River, the goldenrumpedsengi Rhynchocyon chrysopygus appears to be limited to the Arabuko-Sokokearea, while the giant sengi in the Boni-Dodori forest is different. The Boni-Dodoriforest, the largest Kenyan coastal forest, with a potential forest and thicket area of atleast 3000 km2 is likely to hold a significant number of Rhynchocyon, making it veryimportant to sengi conservation. The study generated over 2700 images of giant sengiand 32 000 camera-trap images of soft-furred sengi in a total surveyed area ofapproximately 300 km2 providing the first detailed 24-hour behaviour data for thespecies. The circadian patterns have confirmed R. chrysopygus and Boni Rhynchocyonto be strictly diurnal while the soft-furred sengi were mostly nocturnal. Occupancy forRhynchocyon was over 80 percent for both the Boni forest thicket and Arabuko-Sokoke Cynometra forest thicket. Occupancy and trapping rates for the soft-furred sengi were significantly higher for the Arabuko-Sokoke forest than the Boni-Dodori forest. It was not possible in the camera trap images to reliably differentiate between the two soft-furred sengi species, four-toed sengi Petrodromus tetradactylus and rufous sengi Elephantulus rufescens, known to occur in the area.Keywords: Macroscelidea, elephant-shrew, Rhynchocyon, abundance, distribution,activity patter

Abundance, distribution, habitat, activity and conservation of Sokoke bushy-tailed mongoose Bdeogale omnivora in central and north coast forests of Kenya

The Sokoke dog or bushy-tailed mongoose Bdeogale omnivora is poorly known and considered to be endemic to the East African coastal forests. Systematic camera trap surveys, comprising 9229 camera trap days on grids at six study sites, were used to determine the distribution and relative abundance of the Sokoke bushy-tailed mongoose in the two largest Kenyan coastal forests: Boni-Dodori Forest Complex (ca. 4000 km²); and Arabuko-Sokoke Forest Reserve (416 km²). This species was captured in all surveyed forests with significantly more detections in Brachystegia woodland habitat (ca. 71 km2) of Arabuko-Sokoke and the Boni forest sectors (ca. 2000 km2) of the Boni-Dodori Forest Complex. Boni-Dodori Forest Complex, with an estimated occupancy of over 60% for this species, holds a significant population. The study generated over 1000 images of the Sokoke bushy-tailed mongoose in a total surveyed area of approximately 500 km2 providing the first 24-hour activity data for the species. The circadian patterns confirm this species to be strictly nocturnal. This study strongly recommends that its Red List status remains ‘Vulnerable’. The few remaining coastal forests continue to face human pressure. Recent proposals to find and extract hydrocarbons from under the Arabuko-Sokoke Forest, and the planned major development close to Boni-Dodori Forest Complex, raise serious conservation concerns for this exceptionally biodiverse ecosystem.Keywords: Arabuko-Sokoke forest, Boni forest, Dodori forest, camera trap, status, Bdeogale omnivor

Africa's forgotten forests: the conservation value of Kenya's Northern coastal forests for large mammals

There are two PFS for this article, one is the original article and the other is an Erratum specifying the errors in the original article.In comparison to other ecosystems in east Africa, the biodiversity of the coastal forests of Kenya’s northern coastline is poorly documented, even in the case of large terrestrial mammals. In response to this, we undertook a systematic survey of the Boni-Dodori forests using four camera trap grids with camera spacing of 2 km covering 300 km2 over 7020 camera trap days. We recorded 37 mammal species and derived camera trap rates and estimated occupancy for 31 medium-to-large terrestrial species, some of which represent range extensions. Remarkably, the critically endangered Aders’ duiker was the most frequently recorded species. A distinctive form of giant sengi and the vulnerable Sokoke bushy-tailed mongoose were also widely distributed and relatively abundant. Other significant records of threatened species included African wild dog, African lion and Pousargues’s monkey. Species richness and relative abundance of all species were higher than that recorded for Arabuko-Sokoke Forest, Kenya’s only other large coastal forest, using the same camera trap survey protocol.Keywords: Boni-Dodori forest, coastal forest, camera trapping, mammals, species richness, trap rates, occupanc

Comparative Population Genomics of African Montane Forest Mammals Support Population Persistence across a Climatic Gradient and Quaternary Climatic Cycles

The Eastern Afromontane biodiversity hotspot (EABH) has the highest concentration of biodiversity in tropical Africa, yet few studies have investigated recent historical diversification processes in EABH lineages. Herein, we analyze restriction-site associated DNA-sequences (RAD-Seq) to study recent historical processes in co-distributed mouse (Hylomyscus) and shrew (Sylvisorex) species complexes, with an aim to better determine how historical paleoenvironmental processes might have contributed to the EABH’s high diversity. We analyzed complete SNP matrices of \u3e 50,000 RAD loci to delineate populations, reconstruct the history of isolation and admixture, and discover geographic patterns of genetic partitioning. These analyses demonstrate that persistently unsuitable habitat may have isolated multiple populations distributed across montane habitat islands in the Itombwe Massif and Albertine Rift to the west as well as Mt Elgon and Kenyan Highlands to the east. We detected low genetic diversity in Kenyan Highland populations of both genera, consistent with smaller historical population sizes in this region. We additionally tested predictions that Albertine Rift populations are older and more persistently isolated compared to the Kenyan Highlands. Phylogenetic analyses support greater historical isolation among Albertine Rift populations of both shrews and mice compared to the Kenyan Highlands and suggest that there are genetically isolated populations from both focal genera in the Itombwe Massif, Democratic Republic of Congo. The Albertine Rift ecoregion has the highest mammalian tropical forest species richness per unit area on earth. Our results clearly support accelerating efforts to conserve this diversity

Marburg Virus in Fruit Bat, Kenya

No abstract available

Possible Emergence of West Caucasian Bat Virus in Africa

The prevalence of neutralizing antibody against West Caucasian bat virus (WCBV) in Miniopterus bats collected in Kenya ranged from 17% to 26%. Seropositive bats were detected in 4 of 5 locations sampled across the country. These findings provide evidence that WCBV, originally isolated in Europe, may emerge in other continents

Detection of Novel SARS-like and Other Coronaviruses in Bats from Kenya

Diverse coronaviruses have been identified in bats from several continents but not from Africa. We identified group 1 and 2 coronaviruses in bats in Kenya, including SARS-related coronaviruses. The sequence diversity suggests that bats are well-established reservoirs for and likely sources of coronaviruses for many species, including humans

Isolation and molecular characterization of Fikirini rhabdovirus, a novel virus from a Kenyan bat

Zoonotic and vector-borne pathogens have comprised a significant component of emerging human infections in recent decades, and bats are increasingly recognized as reservoirs for many of these disease agents. To identify novel pathogens associated with bats, we screened tissues of bats collected in Kenya. Virus isolates were identified by next generation sequencing of viral nucleic acid preparations from the infected cell culture supernatant and characterized molecularly. Here we report the identification of Fikirini rhabdovirus, a novel rhabdovirus isolated from a bat, Hipposideros vittatus, captured along the Kenyan coast.Technical Support Corps funds from the Global Disease Detection Program of the Centers for Disease Control and Prevention (Atlanta, GA), and by an Interagency Agreement between the United States Agency for International Development Emerging Pandemic Threats Program and the United States Centers for Disease Control and Prevention.http://vir.sgmjournals.orghb201

2021 Taxonomic update of phylum Negarnaviricota (Riboviria: Orthornavirae), including the large orders Bunyavirales and Mononegavirales.

Correction to: 2021 Taxonomic update of phylum Negarnaviricota (Riboviria: Orthornavirae), including the large orders Bunyavirales and Mononegavirales. Archives of Virology (2021) 166:3567–3579. https://doi.org/10.1007/s00705-021-05266-wIn March 2021, following the annual International Committee on Taxonomy of Viruses (ICTV) ratification vote on newly proposed taxa, the phylum Negarnaviricota was amended and emended. The phylum was expanded by four families (Aliusviridae, Crepuscuviridae, Myriaviridae, and Natareviridae), three subfamilies (Alpharhabdovirinae, Betarhabdovirinae, and Gammarhabdovirinae), 42 genera, and 200 species. Thirty-nine species were renamed and/or moved and seven species were abolished. This article presents the updated taxonomy of Negarnaviricota as now accepted by the ICTV.This work was supported in part through Laulima Government Solutions, LLC prime contract with the US National Institute of Allergy and Infectious Diseases (NIAID) under Contract No. HHSN272201800013C. J.H.K. performed this work as an employee of Tunnell Government Services (TGS), a subcontractor of Laulima Government Solutions, LLC under Contract No. HHSN272201800013C. This work was also supported in part with federal funds from the National Cancer Institute (NCI), National Institutes of Health (NIH), under Contract No. 75N91019D00024, Task Order No. 75N91019F00130 to I.C., who was supported by the Clinical Monitoring Research Program Directorate, Frederick National Lab for Cancer Research. This work was also funded in part by Contract No. HSHQDC-15-C-00064 awarded by DHS S&T for the management and operation of The National Biodefense Analysis and Countermeasures Center, a federally funded research and development center operated by the Battelle National Biodefense Institute (V.W.); and NIH contract HHSN272201000040I/HHSN27200004/D04 and grant R24AI120942 (N.V., R.B.T.). S.S. acknowledges partial support from the Special Research Initiative of Mississippi Agricultural and Forestry Experiment Station (MAFES), Mississippi State University, and the National Institute of Food and Agriculture, US Department of Agriculture, Hatch Project 1021494. Part of this work was supported by the Francis Crick Institute which receives its core funding from Cancer Research UK (FC001030), the UK Medical Research Council (FC001030), and the Wellcome Trust (FC001030).S