Cryptic Diversity of African Tigerfish (Genus Hydrocynus) Reveals Palaeogeographic Signatures of Linked Neogene Geotectonic Events

The geobiotic history of landscapes can exhibit controls by tectonics over biotic evolution. This causal relationship positions ecologically specialized species as biotic indicators to decipher details of landscape evolution. Phylogeographic statistics that reconstruct spatio-temporal details of evolutionary histories of aquatic species, including fishes, can reveal key events of drainage evolution, notably where geochronological resolution is insufficient. Where geochronological resolution is insufficient, phylogeographic statistics that reconstruct spatio-temporal details of evolutionary histories of aquatic species, notably fishes, can reveal key events of drainage evolution. This study evaluates paleo-environmental causes of mitochondrial DNA (mtDNA) based phylogeographic records of tigerfishes, genus Hydrocynus, in order to reconstruct their evolutionary history in relation to landscape evolution across Africa. Strong geographical structuring in a cytochrome b (cyt-b) gene phylogeny confirms the established morphological diversity of Hydrocynus and reveals the existence of five previously unknown lineages, with Hydrocynus tanzaniae sister to a clade comprising three previously unknown lineages (Groups B, C and D) and H. vittatus. The dated phylogeny constrains the principal cladogenic events that have structured Hydrocynus diversity from the late Miocene to the Plio-Pleistocene (ca. 0–16 Ma). Phylogeographic tests reveal that the diversity and distribution of Hydrocynus reflects a complex history of vicariance and dispersals, whereby range expansions in particular species testify to changes to drainage basins. Principal divergence events in Hydrocynus have interfaced closely with evolving drainage systems across tropical Africa. Tigerfish evolution is attributed to dominant control by pulses of geotectonism across the African plate. Phylogenetic relationships and divergence estimates among the ten mtDNA lineages illustrates where and when local tectonic events modified Africa's Neogene drainage. Haplotypes shared amongst extant Hydrocynus populations across northern Africa testify to recent dispersals that were facilitated by late Neogene connections across the Nilo-Sahelian drainage. These events in tigerfish evolution concur broadly with available geological evidence and reveal prominent control by the African Rift System, evident in the formative events archived in phylogeographic records of tigerfish

Trichomonas vaginalis: Clinical relevance, pathogenicity and diagnosis

Trichomonas vaginalis is the etiological agent of trichomoniasis, the most prevalent non-viral sexually transmitted disease worldwide. Trichomoniasis is a widespread, global health concern and occurring at an increasing rate. Infections of the female genital tract can cause a range of symptoms, including vaginitis and cervicitis, while infections in males are generally asymptomatic. The relatively mild symptoms, and lack of evidence for any serious sequelae, have historically led to this disease being under diagnosed, and under researched. However, growing evidence that T. vaginalis infection is associated with other disease states with high morbidity in both men and women has increased the efforts to diagnose and treat patients harboring this parasite. The pathology of trichomoniasis results from damage to the host epithelia, caused by a variety of processes during infection and recent work has highlighted the complex interactions between the parasite and host, commensal microbiome and accompanying symbionts. The commercial release of a number of nucleic acid amplification tests (NAATs) has added to the available diagnostic options. Immunoassay based Point of Care testing is currently available, and a recent initial evaluation of a NAAT Point of Care system has given promising results, which would enable testing and treatment in a single visit

Global patient outcomes after elective surgery: prospective cohort study in 27 low-, middle- and high-income countries.

BACKGROUND: As global initiatives increase patient access to surgical treatments, there remains a need to understand the adverse effects of surgery and define appropriate levels of perioperative care. METHODS: We designed a prospective international 7-day cohort study of outcomes following elective adult inpatient surgery in 27 countries. The primary outcome was in-hospital complications. Secondary outcomes were death following a complication (failure to rescue) and death in hospital. Process measures were admission to critical care immediately after surgery or to treat a complication and duration of hospital stay. A single definition of critical care was used for all countries. RESULTS: A total of 474 hospitals in 19 high-, 7 middle- and 1 low-income country were included in the primary analysis. Data included 44 814 patients with a median hospital stay of 4 (range 2-7) days. A total of 7508 patients (16.8%) developed one or more postoperative complication and 207 died (0.5%). The overall mortality among patients who developed complications was 2.8%. Mortality following complications ranged from 2.4% for pulmonary embolism to 43.9% for cardiac arrest. A total of 4360 (9.7%) patients were admitted to a critical care unit as routine immediately after surgery, of whom 2198 (50.4%) developed a complication, with 105 (2.4%) deaths. A total of 1233 patients (16.4%) were admitted to a critical care unit to treat complications, with 119 (9.7%) deaths. Despite lower baseline risk, outcomes were similar in low- and middle-income compared with high-income countries. CONCLUSIONS: Poor patient outcomes are common after inpatient surgery. Global initiatives to increase access to surgical treatments should also address the need for safe perioperative care. STUDY REGISTRATION: ISRCTN5181700

Robust estimation of bacterial cell count from optical density

Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data

Genomic reconstruction of the SARS-CoV-2 epidemic in England.

The evolution of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus leads to new variants that warrant timely epidemiological characterization. Here we use the dense genomic surveillance data generated by the COVID-19 Genomics UK Consortium to reconstruct the dynamics of 71 different lineages in each of 315 English local authorities between September 2020 and June 2021. This analysis reveals a series of subepidemics that peaked in early autumn 2020, followed by a jump in transmissibility of the B.1.1.7/Alpha lineage. The Alpha variant grew when other lineages declined during the second national lockdown and regionally tiered restrictions between November and December 2020. A third more stringent national lockdown suppressed the Alpha variant and eliminated nearly all other lineages in early 2021. Yet a series of variants (most of which contained the spike E484K mutation) defied these trends and persisted at moderately increasing proportions. However, by accounting for sustained introductions, we found that the transmissibility of these variants is unlikely to have exceeded the transmissibility of the Alpha variant. Finally, B.1.617.2/Delta was repeatedly introduced in England and grew rapidly in early summer 2021, constituting approximately 98% of sampled SARS-CoV-2 genomes on 26 June 2021

Environmental mobility of antimony around mesothermal stibnite deposits, New South Wales, Australia and southern New Zealand

Antimony (Sb) occurs principally in stibnite (Sb₂S₃) in mesothermal vein deposits hosted in low-grade metamorphic belts of eastern Australia and southern New Zealand. Stibnite is commonly associated with gold. Many deposits have been mined historically, with one large deposit, at Hillgrove, New South Wales, being mined recently. Natural outcrops in the relatively rugged terrains are oxidised under humid to semiarid conditions and stibnite transforms to oxides including valentinite, senarmontite, stibiconite, and rarely cervantite. Oxidation of stibnite and associated arsenopyrite and pyrite causes local acidification; however, acid is readily neutralised by carbonates in mineralised zones and host rocks, and associated waters are near neutral (pH 6-8.5). Stibnite dissolves readily in moderately oxidised waters as SbO₃-, in conjunction with antimony oxide formation. Experimental stibnite oxidation yielded up to 37 ppm dissolved Sb, and mine and tailings dam waters at Hillgrove have up to 55 ppm dissolved Sb. Natural stibnite can contain >5000 ppm As in solid solution. Dissolution of stibnite, arsenopyrite and arsenian pyrite releases arsenic, and resultant dissolved As concentrations are up to 3.6 ppm (experimental) and up to 7.2 ppm (mine and tailings dam seepages). Mine and tailings discharge waters have elevated Sb and As where they emerge, but attenuation occurs by deposition of the metals onto amorphous iron oxyhydroxides which can contain >10% each of Sb and As. Historic disposal of mineralised waste rock material into the stream system at Hillgrove has caused strong contamination of stream sediments with Sb and As. Equilibration of stream water with contaminated stream sediment, as well as additions from erosion of natural outcrops and mine and tailings dam seepages, has led to the main drainage system (Bakers Creek) containing strongly contaminated water (up to 1.8 mg/l Sb and 0.3 mg/l As) for 20 km until its junction with the Macleay River. Environmentally high values of dissolved Sb (and As), are inevitable in waters associated with mesothermal stibnite (-gold) deposits

Evaluation of the contributions of gold derived from hypogene, supergene and surficial processes in the formation of placer gold deposits

Placer gold particles have traditionally been considered as either detrital products of weathering or authigenic minerals growing within placers. Recent advances in understanding of gold chemistry/bio-geochemistry demonstrate that gold growth in specific environments is plausible, but opinions differ on the importance of ‘new’ gold in the overall placer inventory. Here we draw upon visual inspection over 40,000 polished gold particle sections from locations worldwide to evaluate the implications of gold alloy composition and particle heterogeneity in determining the contributions of detrital and authigenic gold to fluvial placers. We conclude i. the detrital model of placer gold formation is widespread and demonstrable, ii. supergene gold may be a locally important constituent of fluvial placers, iii. gold-rich rims on placer gold particles comprise two distinct components: a surface micron-scale addition of pure Au and a tens- of- micron- scale inner rim formed by Ag depletion, iv. the importance to placer inventories of gold particle formation and modification by biogenic processes is considerably overstated