All in the Details: A First Assessment for the Viability of Metabarcoding in Diet Composition Analysis of African Wild Dogs ().

DNA metabarcoding is a contemporary technique in diet composition studies and stands to fill key knowledge gaps left by traditional diet analysis methods. For endangered species such as the African wild dog (), the fulfilment of these knowledge gaps presents an opportunity for improved management practices and vulnerability assessments. There are an estimated ~600 African wild dogs remaining in South Africa.

Mode of action studies confirm on-target engagement of lysyl-tRNA synthetase inhibitor and lead to new selection marker for .

Introduction: Cryptosporidiosis is a leading cause of diarrheal-associated morbidity and mortality, predominantly affecting children under 5 years old in low-and-middle-income countries. There is no effective treatment and no vaccine. New therapeutics are emerging from drug discovery efforts.

A2B-COVID: A Tool for Rapidly Evaluating Potential SARS-CoV-2 Transmission Events.

Identifying linked cases of infection is a critical component of the public health response to viral infectious diseases. In a clinical context, there is a need to make rapid assessments of whether cases of infection have arrived independently onto a ward, or are potentially linked via direct transmission. Viral genome sequence data are of great value in making these assessments, but are often not the only form of data available.

Superspreaders drive the largest outbreaks of hospital onset COVID-19 infections.

SARS-CoV-2 is notable both for its rapid spread, and for the heterogeneity of its patterns of transmission, with multiple published incidences of superspreading behaviour. Here, we applied a novel network reconstruction algorithm to infer patterns of viral transmission occurring between patients and health care workers (HCWs) in the largest clusters of COVID-19 infection identified during the first wave of the epidemic at Cambridge University Hospitals NHS Foundation Trust, UK. Based upon dates of individuals reporting symptoms, recorded individual locations, and viral genome sequence data, we show an uneven pattern of transmission between individuals, with patients being much more likely to be infected by other patients than by HCWs.

Ontogenetic dependence of Nile crocodile (Crocodylus niloticus) isotope diet-to-tissue discrimination factors.

Rationale: The diet of wild Nile crocodiles (Crocodylus niloticus) is difficult to assess because they are cryptic and nocturnal predators that are extremely sensitive to disturbance by observers, and stomach content analysis is challenging, especially in large specimens. Stable light isotope analysis provides a means of assessing their diet, but diet-to-tissue discrimination factors have yet to be established for the species.

Methods: Isotope ratio ( N/ N and C/ C expressed as δ N and δ C) analyses of scutes, claws, and blood of farmed crocodiles of different sizes were compared with the isotope values of their lifelong diet, which comprises chickens from a single supplier.

Decadal shift in foraging strategy of a migratory southern ocean predator.

Rapid anthropogenic environmental change is expected to impact a host of ecological parameters in Southern Ocean ecosystems. Of critical concern are the consequences of these changes on the range of species that show fidelity to migratory destinations, as philopatry is hypothesized to help or hinder adaptation to climate change depending on the circumstances. Many baleen whales show philopatry to feeding grounds and are also capital breeders that meet migratory and reproductive costs through seasonal energy intake.

Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore.

Genome sequencing has been widely deployed to study the evolution of SARS-CoV-2 with more than 90,000 genome sequences uploaded to the GISAID database. We published a method for SARS-CoV-2 genome sequencing (https://www.protocols.

Rapid implementation of SARS-CoV-2 sequencing to investigate cases of health-care associated COVID-19: a prospective genomic surveillance study.

Background: The burden and influence of health-care associated severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is unknown. We aimed to examine the use of rapid SARS-CoV-2 sequencing combined with detailed epidemiological analysis to investigate health-care associated SARS-CoV-2 infections and inform infection control measures.

Methods: In this prospective surveillance study, we set up rapid SARS-CoV-2 nanopore sequencing from PCR-positive diagnostic samples collected from our hospital (Cambridge, UK) and a random selection from hospitals in the East of England, enabling sample-to-sequence in less than 24 h.

Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome.

Background: The archaeological incidence of ancient human faecal material provides a rare opportunity to explore the taxonomic composition and metabolic capacity of the ancestral human intestinal microbiome (IM). Here, we report the results of the shotgun metagenomic analyses of an ancient South African palaeo-faecal specimen.

Methods: Following the recovery of a single desiccated palaeo-faecal specimen from Bushman Rock Shelter in Limpopo Province, South Africa, we applied a multi-proxy analytical protocol to the sample.

Human Antimicrobial Peptides as Therapeutics for Viral Infections.

Successful in vivo infection following pathogen entry requires the evasion and subversion of multiple immunological barriers. Antimicrobial peptides (AMPs) are one of the first immune pathways upregulated during infection by multiple pathogens, in multiple organs in vivo. In humans, there are many classes of AMPs exhibiting broad antimicrobial activities, with defensins and the human cathelicidin LL-37 being the best studied examples.

Morphology and stable isotope analysis demonstrate different structuring of bat communities in rainforest and savannah habitats.

Bats play important ecological roles in tropical systems, yet how these communities are structured is still poorly understood. Our study explores the structure of African bat communities using morphological characters to define the morphospace occupied by these bats and stable isotope analysis to define their dietary niche breadth. We compared two communities, one in rainforest (Liberia) and one in savannah (South Africa), and asked whether the greater richness in the rainforest was due to more species 'packing' into the same morphospace and trophic space than bats from the savannah, or some other arrangement.

Effects of pre-treatments on bulk stable isotope ratios in fish samples: A cautionary note for studies comparisons.

Rationale: Stable isotope analysis (SIA) has revolutionised ecological studies over the past thirty years. One of the major fields where SIA is applied in the marine environment is related to the definition of ecosystem structure and function. With marine top predators such as sharks, SIA is a method of choice because tissue samples can be collected without the sacrifice of the animal.

Author Correction: The demise of the largest and oldest African baobabs.

In Supplementary Table 1 originally published with this Brief Communication, the authors gave an incorrect GPS easterly coordinate for tree number 12 (Makulu Makete Big baobab); the coordinate '2° 34.584' S, 25° 52.261' E' should have read '22° 34.

The demise of the largest and oldest African baobabs.

The African baobab is the biggest and longest-living angiosperm tree. By using radiocarbon dating we identified the stable architectures that enable baobabs to reach large sizes and great ages. We report that 9 of the 13 oldest and 5 of the 6 largest individuals have died, or at least their oldest parts/stems have collapsed and died, over the past 12 years; the cause of the mortalities is still unclear.

Namib Desert primary productivity is driven by cryptic microbial community N-fixation.

Carbon exchange in drylands is typically low, but during significant rainfall events (wet anomalies) drylands act as a C sink. During these anomalies the limitation on C uptake switches from water to nitrogen. In the Namib Desert of southern Africa, the N inventory in soil organic matter available for mineralisation is insufficient to support the observed increase in primary productivity.

A Regional Stable Carbon Isotope Dendro-Climatology from the South African Summer Rainfall Area.

Carbon isotope analysis of four baobab (Adansonia digitata L.) trees from the Pafuri region of South Africa yielded a 1000-year proxy rainfall record. The Pafuri record age model was based on 17 radiocarbon dates, cross correlation of the climate record, and ring structures that were presumed to be annual for two of the trees.

A 1000-Year Carbon Isotope Rainfall Proxy Record from South African Baobab Trees (Adansonia digitata L.).

A proxy rainfall record for northeastern South Africa based on carbon isotope analysis of four baobab (Adansonia digitata L.) trees shows centennial and decadal scale variability over the last 1,000 years. The record is in good agreement with a 200-year tree ring record from Zimbabwe, and it indicates the existence of a rainfall dipole between the summer and winter rainfall areas of South Africa.

African baobabs with false inner cavities: the radiocarbon investigation of the Lebombo Eco Trail baobab.

The article reports the radiocarbon investigation results of the Lebombo Eco Trail tree, a representative African baobab from Mozambique. Several wood samples collected from the large inner cavity and from the outer part of the tree were investigated by AMS radiocarbon dating. According to dating results, the age values of all samples increase from the sampling point with the distance into the wood.