The characterization, mobility, and persistence of roaster-derived arsenic in soils at Giant Mine, NWT
Not Available
Bromstad, Mackenzie J. (ORCID:0000000227751985)↗
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Environmental evaluation of radioactivity levels and associated radiation hazards in groundwater around the WIPP site
Groundwater may contain radioactive substances which can be dangerous to human health. Concentrations of natural radionuclides polonium (Po), thorium (Th), uranium (U), and radium (Ra) isotopes were measured in groundwater samples collected from different locations in the vicinity of the Waste Isolation Pilot Plant (WIPP) site in Carlsbad, New Mexico. The average values of gross activity concentrations of 210 Po, 228 Th, 238 U, 234 U, 226 Ra and 228 Ra isotopes were determined to be 1.62 Bq L -1 in shallow groundwater and 5.88 Bq L -1 in deep groundwater, respectively. The total radioactivity in deep groundwater was higher than that in shallow groundwater, and most of the radioactivity in the water is from 226 Ra. Furthermore, the effective doses for ingestion of natural radionuclides were about 0.333 mSv y–1 for shallow groundwater and about 1.338 mSv y –1 for deep groundwater samples, which are higher than the World Health Organization (WHO, 2017) guideline level (0.1 mSv y –1 ) for drinking water. Ra dominated the total ingestion dose, contributing 93.06 % and 75.40 % of the total effective doses to the deep and shallow groundwater, respectively. The ingrowth and decay of natural radionuclides suggested that 228 Ra/ 226 Ra ratio can be a useful indicator of the source of radioactive contamination. The radioactivity data obtained from the investigated groundwater samples can be used to establish a baseline for radioactivity levels in groundwater around the WIPP site.
63 RADIATION, THERMAL, AND OTHER ENVIRON. POLLUTAN↗
Toxicity of hydraulic fracturing wastewater from black shale natural-gas wells influenced by well maturity and chemical additives
Hydraulic fracturing of deep shale formations generates large volumes of wastewater that must be managed through treatment, reuse, or disposal. Produced wastewater liberates formation-derived radionuclides and contains previously uncharacterized organohalides thought to be generated within the shale well, both posing unknown toxicity to human and ecological health. Here, we assess the toxicity of 42 input media and produced fluid samples collected from four wells in the Utica formation and Marcellus Shale using two distinct endpoint screening assays. Broad spectrum acute toxicity was assessed using a bioluminescence inhibition assay employing the halotolerant bacterium Aliivibrio fischeri, while predictive mammalian cytotoxicity was evaluated using a N-acetylcysteine (NAC) thiol reactivity assay. The acute toxicity and thiol reactivity of early-stage flowback was higher than later produced fluids, with levels diminishing through time as the natural gas wells matured. Acute toxicity of early stage flowback and drilling muds were on par with the positive control, 3,5-dichlorophenol (6.8 mg L -1 ). Differences in both acute toxicity and thiol reactivity between paired natural gas well samples were associated with specific chemical additives. Samples from wells containing a larger diversity and concentration of organic additives resulted in higher acute toxicity, while samples from a well applying a higher composition of ammonium persulfate, a strong oxidizer, showed greater thiol reactivity, predictive of higher mammalian toxicity. Both acute toxicity and thiol reactivity are consistently detected in produced waters, in some cases present up to nine months after hydraulic fracturing. These results support that specific chemical additives, the reactions generated by the additives, or the constituents liberated from the formation by the additives contribute to the toxicity of hydraulic fracturing produced waters and reinforces the need for careful consideration of early produced fluid management.
03 NATURAL GAS↗
Footprints of Worldwide Adaptation in Structured Populations of Drosophila melanogaster Through the Expanded DEST 2.0 Genomic Resource
Abstract Large-scale genomic resources can place genetic variation into an ecologically informed context. To advance our understanding of the population genetics of the fruit fly Drosophila melanogaster, we present an expanded release of the community-generated population genomics resource Drosophila Evolution over Space and Time (DEST 2.0; https://dest.bio/). This release includes 530 high-quality pooled libraries from flies collected across six continents over more than a decade (2009 to 2021), most at multiple time points per year; 211 of these libraries are sequenced and shared here for the first time. We used this enhanced resource to elucidate several aspects of the species' demographic history and identify novel signs of adaptation across spatial and temporal dimensions. For example, we showed that the spatial genetic structure of populations is stable over time, but that drift due to seasonal contractions of population size causes populations to diverge over time. We identified signals of adaptation that vary between continents in genomic regions associated with xenobiotic resistance, consistent with independent adaptation to common pesticides. Moreover, by analyzing samples collected during spring and fall across Europe, we provide new evidence for seasonal adaptation related to loci associated with pathogen response. Furthermore, we have also released an updated version of the DEST genome browser. This is a useful tool for studying spatiotemporal patterns of genetic variation in this classic model system.
Biochemistry & Molecular Biology↗
Ascent and emplacement dynamics of obsidian lavas inferred from microlite textures
Here, to assess the eruption and emplacement of volumetrically diverse rhyolite lavas, we measured microlite number densities and orientations from samples collected from nine lavas in Yellowstone Caldera and two from Mono Craters, USA. Microlite populations are composed of Fe-Ti oxides ± alkali feldspar ± clinopyroxene. Number densities range from 10 8.11 ± 0.03 to 10 9.45 ± 0.15 cm -3 and do not correlate with distance from the vent across individual flows and are remarkably similar between large- and small-volume lavas. Together, those observations suggest that number densities are unmodified during emplacement and that ascent rates in the conduit are similar between small domes and large lava flows. Microtextures produced by continuous decompression experiments best replicate natural textures at decompression rates of 1–2 MPa hr -1 . Acicular microlites have a preferred orientation in all natural samples. Because the standard deviation of microlite orientation does not become better aligned with distance travelled, we conclude that microlites exit the conduit aligned and that strain during subaerial flow was insufficient to further align microlites. The orientations of microlite trend and plunge in near-vent samples indicate that pure shear was the dominant style of deformation in the conduit. In conclusion, we speculate that collapsing permeable foam(s) provides a mechanism to concurrently allow microlite formation and alignment in response to the combination of degassing and flattening by pure shear.
58 GEOSCIENCES↗
Biological Sampling Variability Study
There are many sources of variability that exist in the sample collection and analysis process. This paper addresses many, but not all, sources of variability. The main focus of this paper was to better understand and estimate variability due to differences between samplers. Variability between days was also studied, as well as random variability within each sampler. Experiments were performed using multiple surface materials (ceramic and stainless steel), multiple contaminant concentrations (10 spores and 100 spores), and with and without the presence of interfering material. All testing was done with sponge sticks using 10-inch by 10-inch coupons. Bacillus atrophaeus was used as the BA surrogate. Spores were deposited using wet deposition. Grime was coated on the coupons which were planned to include the interfering material (Section 3.3). Samples were prepared and analyzed at PNNL using CDC protocol (Section 3.4) and then cultured and counted. Five samplers were trained so that samples were taken using the same protocol. Each sampler randomly sampled eight coupons each day, four coupons with 10 spores deposited and four coupons with 100 spores deposited. Each day consisted of one material being tested. The clean samples (no interfering materials) were run first, followed by the dirty samples (coated with interfering material). There was a significant difference in recovery efficiency between the coupons with 10 spores deposited (mean of 48.9%) and those with 100 spores deposited (mean of 59.8%). There was no general significant difference between the clean and dirty (containing interfering material) coupons or between the two surface materials; however, there was a significant interaction between concentration amount and presence of interfering material. The recovery efficiency was close to the same for coupons with 10 spores deposited, but for the coupons with 100 spores deposited, the recovery efficiency for the dirty samples was significantly larger (65.9% - dirty vs. 53.6% - clean) (see Figure 4.1). Variance component analysis was used to estimate the amount of variability for each source of variability. There wasn’t much difference in variability for dirty and clean samples, as well as between materials, so these results were pooled together. There was a significant difference in amount of concentration deposited, so results were separated for the 10 spore and 100 spore deposited tests. In each case the within sampler variability was the largest with variances of 426.2 for 10 spores and 173.1 for 100 spores. The within sampler variability constitutes the variability between the four samples of similar material, interfering material, and concentration taken by each sampler. The between sampler variance was estimated to be 0 for 10 spores and 1.2 for 100 spores. The between day variance was estimated to be 42.1 for 10 spores and 78.9 for 100 spores. Standard deviations can be calculated in each case by taking the square root of the variance.
59 BASIC BIOLOGICAL SCIENCES↗
Surfactant assisted growth of MgO films on GaN
Thin epitaxial films of <111> oriented MgO on [0001]-oriented GaN were grown by molecular beam epitaxy and pulsed laser deposition using the assistance of a vapor phase surfactant. In both cases, surfactant incorporation enabled layer-by-layer growth and a smooth terminal surface by stabilizing the {l_brace}111{r_brace} rocksalt facet. Metal-insulator-semiconductor capacitor structures were fabricated on n-type GaN. A comparison of leakage current density for conventional and surfactant-assisted growth reveals a nearly 100 Multiplication-Sign reduction in leakage current density for the surfactant-assisted samples. These data verify numerous predictions regarding the role of H-termination in regulating the habit of rocksalt crystals.
36 MATERIALS SCIENCE↗
Differences in Fe-redox for asbestiform and nonasbestiform amphiboles from the former vermiculite mine, near Libby, Montana, U.S.A.
Abstract not provided
Gunter, Mickey E↗
A Robust and Flexible Design for GCEP Unattended Online Enrichment Monitoring: An OLEM Collection Node Network
Oak Ridge National Laoratory (ORNL) has engineered an on-line enrichment monitor (OLEM) to continuously measure U-235 emissions from the UF6 gas flowing through a unit header pipe of a gas centrifuge enrichment plant (GCEP) as a component of the International Atomic Energy Agency s (IAEA) new generation of technology to support enrichment plant safeguards1. In contrast to other enrichment monitoring approaches, OLEM calibrates and corrects for the pressure and temperature dependent UF6 gas-density without external radiation sources by using the inherent unit header pipe pressure dynamics and combining U-235 gamma-ray spectrometery using a shielded NaI detector with gas pressure and temperature data near the spectrum measurement point to obtain the enrichment of the gas as a function of time. From a safeguards perspective, OLEM can provide early detection of a GCEP being misused for production of highly enriched uranium, but would not detect directly the isolation and use of a cascade within the production unit to produce HEU. OLEM may also reduce the number of samples collected for destructive assay and, if coupled with load cell monitoring, could support isotope mass balance verification and unattended cylinder verification. The earlier paper presented OLEM as one component along with shared load cells and unattended cylinder verification, in the IAEA emering toolbox for unattended instruments at GCEPs1 and described the OLEM concept and how previous modeling studies and field measurements helped confirm the viability of a passive on-line enrichment monitor for meeting IAEA objectives and to support the development of performance targets. Phase I of the United States Support Program (USSP) OLEM project completed a preliminary hardware, software and communications design; phase II will build and test field prototypes in controlled laboratory settings and then at an operational facility. That paper also discussed many of the OLEM collection node commercial off the shelf (COTS) components and summarized the OLEM collection node data security provisions. This paper will discuss a secure and redundant network of OLEM collection nodes, auxiliary detection units and supporting junction boxes distributed throughout a facility for monitoring enrichment on product, feed and tails unit header pipes; the purpose and capability of the built-in Electronic Optical Sealing System (EOSS) network gateway; and a network approach for obtaining reliable and authenticated pressure measurements.
Younkin, James R↗
NARAC Modeling During the Response to the Fukushima Dai-ichi Nuclear Power Plant Emergency
This paper summarizes the activities of the National Atmospheric Release Advisory Center (NARAC) during the Fukushima Dai-ichi nuclear power plant crisis. NARAC provided a wide range of products and analyses as part of its support including: (1) Daily Japanese weather forecasts and hypothetical release (generic source term) dispersion predictions to provide situational awareness and inform planning for U.S. measurement data collection and field operations; (2) Estimates of potential dose in Japan for hypothetical scenarios developed by the Nuclear Regulatory Commission (NRC) to inform federal government considerations of possible actions that might be needed to protect U.S. citizens in Japan; (3) Estimates of possible plume arrival times and dose for U.S. locations; and (4) Plume model refinement and source estimation based on meteorological analyses and available field data. The Department of Energy/National Nuclear Security Administration (DOE/NNSA) deployed personnel to Japan and stood up 'home team' assets across the DOE complex to aid in assessing the consequences of the releases from the Fukushima Dai-ichi Nuclear Power Plant. The DOE Nuclear Incident Team (NIT) coordinated response activities, while DOE personnel provided predictive modeling, air and ground monitoring, sample collection, laboratory analysis, and data assessment and interpretation. DOE deployed the Aerial Measuring System (AMS), Radiological Assistance Program (RAP) personnel, and the Consequence Management Response Team (CMRT) to Japan. DOE/NNSA home team assets included the Consequence Management Home Team (CMHT); National Atmospheric Release Advisory Center (NARAC); Radiation Emergency Assistance Center/Training Site (REAC/TS); and Radiological Triage. NARAC was activated by the DOE/NNSA on March 11, shortly after the Tohoku earthquake and tsunami occurred. The center remained on active operations through late May when DOE ended its deployment to Japan. Over 32 NARAC staff members, supplemented by other LLNL scientists, invested over 5000 person-hours of time and generated over 300 analyses and predictions.
21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
Surveillance for Western equine encephalitis St. Louis encephalitis and West Nile viruses using reverse transcription loop-mediated isothermal amplification
In this study, collection of mosquitoes and testing for vector-borne viruses is a key surveillance activity that directly influences the vector control efforts of public health agencies, including determining when and where to apply insecticides. Vector control districts in California routinely monitor for three human pathogenic viruses including West Nile virus (WNV), Western equine encephalitis virus (WEEV), and St. Louis encephalitis virus (SLEV). Reverse transcription quantitative polymerase chain reaction (RT-qPCR) offers highly sensitive and specific detection of these three viruses in a single multiplex reaction, but this technique requires costly, specialized equipment that is generally only available in centralized public health laboratories. We report the use of reverse transcription loop-mediated isothermal amplification (RT-LAMP) to detect WNV, WEEV, and SLEV RNA extracted from pooled mosquito samples collected in California, including novel primer sets for specific detection of WEEV and SLEV, targeting the nonstructural protein 4 (nsP4) gene of WEEV and the 3’ untranslated region (3’-UTR) of SLEV. Our WEEV and SLEV RT-LAMP primers allowed detection of <0.1 PFU/reaction of their respective targets in <30 minutes, and exhibited high specificity without cross reactivity when tested against a panel of alphaviruses and flaviviruses. Furthermore, the SLEV primers do not cross-react with WNV, despite both viruses being closely related members of the Japanese encephalitis virus complex. The SLEV and WEEV primers can also be combined in a single RT-LAMP reaction, with discrimination between amplicons by melt curve analysis. Although RT-qPCR is approximately one order of magnitude more sensitive than RT-LAMP for all three targets, the RT-LAMP technique is less instrumentally intensive than RT-qPCR and provides a more cost-effective method of vector-borne virus surveillance.
59 BASIC BIOLOGICAL SCIENCES↗
Inactivation of highly transmissible livestock and avian viruses including influenza A and Newcastle disease virus for molecular diagnostics
There is a critical need for an inactivation method that completely inactivates pathogens at the time of sample collection while maintaining the nucleic acid quality required for diagnostic PCR testing. This inactivation method is required to alleviate concerns about transmission potential, minimize shipping complications and cost, and enable testing in lower containment laboratories, thereby enhancing disease diagnostics through improved turn-around time. This study evaluated a panel of 10 surrogate viruses that represent highly pathogenic animal diseases. These results showed that a commercial PrimeStore® molecular transport media (PSMTM) completely inactivated all viruses tested by >99.99%, as determined by infectivity and serial passage assays. However, the detection of viral nucleic acid by qRT-PCR was comparable in PSMTM and control-treated conditions. These results were consistent when viruses were evaluated in the presence of biological material such as sera and cloacal swabs to mimic diagnostic sample conditions for non-avian and avian viruses, respectively. The results of this study may be utilized by diagnostic testing laboratories for highly pathogenic agents affecting animal and human populations. These results may be used to revise guidance for select agent diagnostic testing and the shipment of infectious substances.
60 APPLIED LIFE SCIENCES↗
Anthropogenic Influences on the Chemical and Mineral Composition in Pond Sediment by X-Ray Absorption Spectroscopy and X-Ray Powder Diffraction
Manmade detention ponds have historically been impacted by anthropogenic activities such as rainwater runoff, car emissions, and drainage from infrastructures, which can lead to complications for pond ecosystems. Sediment samples collected from the northern, southern, western, and eastern regions of a small pond on a suburban high school campus on Long Island, NY, were analyzed for potential chemical changes resulting from an inundation of water by a broken water main. Incorporating synchrotron X-ray techniques, sediment was analyzed using Submicron Resolution Spectroscopy, Tender Energy X-ray Spectroscopy, and X-ray Powder Diffraction to examine heavy metals, light elements, and minerals. Results include a Zn:Cu ratio increase from 4:1 to 10:1 in the eastern zone and a higher heavy metal presence in the western zone for all elements examined, with greater distribution throughout the pond post-inundation. Lighter elements appear to remain relatively unchanged. The appearance of diopside in the eastern zone post-inundation samples suggests contamination from the water main break, while the presence of carbonate minerals in the western zone is consistent with erosion of asphalt material from the adjacent parking lot.
54 ENVIRONMENTAL SCIENCES↗
Distribution of chemical elements in soils and stream sediments in the area of abandoned Sb–As–Tl Allchar mine, Republic of Macedonia
The aim of this study was to investigate the distribution of some toxic elements in topsoil and subsoil, focusing on the identification of natural and anthropogenic element sources in the small region of rare As–Sb–Tl mineralization outcrop and abandoned mine Allchar known for the highest natural concentration of Tl in soil worldwide. The samples of soil and sediments after total digestion were analyzed by inductively coupled plasma–mass spectrometry (ICP–MS) and inductively coupled plasma–atomic emission spectrometry (ICP–AES). Factor analysis (FA) was used to identify and characterize element associations. Six associations of elements were determined by the method of multivariate statistics: Rb–Ta–K–Nb–Ga–Sn–Ba–Bi–Li–Be–(La–Eu)–Hf–Zr–Zn–In–Pd–Ag–Pt–Mg; Tl–As–Sb–Hg; Te–S–Ag–Pt–Al–Sc–(Gd–Lu)–Y; Fe–Cu–V–Ge–Co–In; Pd–Zr–Hf–W–Be and Ni–Mn–Co–Cr–Mg. The purpose of the assessment was to determine the nature and extent of potential contamination as well as to broadly assess possible impacts to human health and the environment. The results from the analysis of the collected samples in the vicinity of the mine revealed that As and Tl elements have the highest median values. Higher median values for Sb are obviously as a result of the past mining activities and as a result of area surface phenomena in the past. - Highlights: • Soil and river sediments were analyzed from Sb–As–Tl Allchar locality. • An increased content of certain toxic elements for environment was determined. • Highest As and Tl contents are obtained in the close vicinity of Allchar mine. • River sediments portray 160 times higher content of Sb than EU values. • The results classify Allchar as probably the highest natural Tl-deposit worldwide.
54 ENVIRONMENTAL SCIENCES↗
Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth
Iron-reducing bacteria (FeRB) play key roles in anaerobic metal and carbon cycling and carry out biogeochemical transformations that can be harnessed for environmental bioremediation. A subset of FeRB require direct contact with Fe(III) bearing minerals for dissimilatory growth, yet these bacteria must move between mineral particles. Further, they proliferate in planktonic consortia during biostimulation experiments. Thus, a key question is how such organisms can sustain growth under these conditions. Here we characterized planktonic microbial communities sampled from an aquifer in Rifle, Colorado, USA close to the peak of iron reduction following in situ acetate amendment. Samples were cryo-plunged on site and subsequently examined using correlated 2- and 3- dimensional cryogenic transmission electron microscopy (cryo-TEM) and scanning transmission X-ray microscopy (STXM). Most cells had their outer membranes decorated with up to 150 nm diameter aggregates composed of a few nm wide amorphous, Fe-rich nanoparticles. Fluorescent in situ hybridization of lineage-specific probes applied to rRNA of cells subsequently imaged via cryo-TEM identified Geobacter spp., a well studied group of FeRB. STXM results at the Fe L2,3 absorption edges indicate that nanoparticle aggregates contain a variable mixture of Fe(II)-Fe(III), and are generally enriched in Fe(III). Geobacter bemidjiensis cultivated anaerobically in the laboratory on acetate and hydrous ferric oxyhydroxides also accumulated mixed valence nanoparticle aggregates. In field-collected samples, FeRB with a wide variety of morphologies were associated with nano-aggregates, indicating that cell-surface Fe(III) accumulation may be a general mechanism by which FeRB can grow while in planktonic suspension.
biomineralization↗
Towards performing high-resolution inelastic X-ray scattering measurements at hard X-ray free-electron lasers coupled with energetic laser drivers
High-resolution inelastic X-ray scattering is an established technique in the synchrotron community, used to investigate collective low-frequency responses of materials. When fielded at hard X-ray free-electron lasers (XFELs) and combined with high-intensity laser drivers, it becomes a promising technique for investigating matter at high temperatures and high pressures. This technique gives access to important thermodynamic properties of matter at extreme conditions, such as temperature, material sound speed, and viscosity. The successful realization of this method requires the acquisition of many identical laser-pump/X-ray-probe shots, allowing the collection of a sufficient number of photons necessary to perform quantitative analyses. Here, a 2.5-fold improvement in the energy resolution of the instrument relative to previous works at the Matter in Extreme Conditions (MEC) endstation, Linac Coherent Light Source (LCLS), and the High Energy Density (HED) instrument, European XFEL, is presented. Some aspects of the experimental design that are essential for improving the number of photons detected in each X-ray shot, making such measurements feasible, are discussed. A careful choice of the energy resolution, the X-ray beam mode provided by the XFEL, and the position of the analysers used in such experiments can provide a more than ten-fold improvement in the photometrics. The discussion is supported by experimental data on 10 µm-thick iron and 50 nm-thick gold samples collected at the MEC endstation at the LCLS, and by complementary ray-tracing simulations coupled with thermal diffuse scattering calculations.
36 MATERIALS SCIENCE↗
Syntrophic bacterial and host–microbe interactions in bacterial vaginosis
Bacterial vaginosis (BV) is a common, polymicrobial condition of the vaginal microbiota that is associated with symptoms such as malodor and excessive discharge, along with increased risk of various adverse sequelae. Host–bacteria and bacteria–bacteria interactions are thought to contribute to the condition, but many of these functions have yet to be elucidated. Using untargeted metaproteomics, we identified 1068 host and 1418 bacterial proteins in a set of cervicovaginal lavage samples collected from 20 participants with BV and 9 who were negative for the condition. We identified Dialister micraerophilus as a major producer of malodorous polyamines and identified a syntrophic interaction between this organism and Fannyhessea vaginae that leads to increased production of putrescine, a metabolite characteristic of BV. Although formate synthesis has not previously been noted in BV, we discovered diverse bacteria associated with the condition express pyruvate formate-lyase enzymes in vivo and confirm these organisms secrete formic acid in vitro. Sodium hypophosphite efficiently inhibited this function in multiple taxa. We also found that the fastidious organism Coriobacteriales bacterium DNF00809 can metabolize formic acid secreted by Gardnerella vaginalis, representing another syntrophic interaction. We noted an increased abundance of the host epithelial repair protein transglutaminase 3 in the metaproteomic data, which we confirmed by enzyme-linked immunosorbent assay. Other proteins identified in our samples implicate Finegoldia magna and Parvimonas micra in the production of malodorous trimethylamine. Some bacterial proteins identified represent novel targets for future therapeutics to disrupt BV communities and promote vaginal colonization by commensal lactobacilli.
bacterial vaginosis↗
Identification of a new circulating recombinant form of human immunodeficiency virus type 1, CRF124_cpx involving subtypes A, G, H, and CRF27_cpx in Angola
Angola, located in Central Africa, has around 320,000 (270,000–380,000) people living with human immunodeficiency virus (HIV)/AIDS, equivalent to 1% of the country’s population at the end of 2021. A previous study conducted in 2012, using Angolan samples collected between 2008 and 2010 revealed a high prevalence of HIV-1 recombinants, around 42% of sequences, with 21% showing the same UH profile in partial pol region which were grouped into a monophyletic cluster with high bootstrap support. Thus, the objective of the present work was to obtain complete genomes of those sequences and characterize them, aiming at a description of a new circulating recombinant form (CRF). Whole blood from nine HIV-1 UH pol -infected individuals had their genomic DNA extracted, and nested PCR was used to amplify seven overlapping fragments targeting the full-length HIV-1 genome. The final classification was based on maximum likelihood trees, and recombination analyses were performed using a bootscan from the Simplot program. BLAST and Los Alamos Database inspections were used to search other similar H-like pol sequences. Complete genome amplification was possible for three samples, partial genomes were obtained for the other three, and only pol was available for the remaining three sequences. Bootscan analysis of the two whole-genome and three partial genome sequences retrieved from people living with HIV/AIDS (PLHIVA) without epidemiological linkage showed the same complex recombination profile involving HIV-1 subtypes A/G/H/CRF27_cpx, with a total of six recombinant breakpoints, aiming to classify a new HIV-1 CRF124_cpx. We found no other full-length HIV-1 genomes with the same mosaic profile; however, we identified 33 partial pol sequences, mainly sampled from Angola between 2001 to 2019, with the same H-like profile. Bayesian analysis of H and H-like pol sequences indicates that CRF124_cpx probably originated in Angola at mid-1970s, indicating that this CRF has been circulating in the country for a long time. In summary, our study describes a new CRF circulating principally in Angola and highlights the importance of continuing molecular surveillance studies, especially in countries with high molecular diversity of HIV.
60 APPLIED LIFE SCIENCES↗