bluuebunny/crossref_metadata_2025_split huggingface dataset:
Field comparison of Antarctic krill (Euphausia superba) backscatter and aggregation types using NORTEK and SIMRAD echosounders
Authors: Annasawmy Pavanee , Horne John K , Reiss Christian S , Cutter George R , Macaulay Gavin J 
Published: July 2024

Abstract
Temporal distributions of Antarctic krill (Euphausia superba) density and aggregation types were characterized and compared using Nortek Signature100 and SIMRAD Wideband Autonomous Transceiver (WBAT) upward-looking echosounders. Noise varied between the two echosounders. With the Signature100, it was necessary to correct data for background, transient, and impulse noises, while the WBAT data needed to be corrected for background noise only. For selected regions with no visible backscatter, the signal-to-noise ratio of Sv values (i.e. the ratio between the signal and the background noise level) did not vary between the two echosounders. Surface echo backscatter was similar during similar time periods. Descriptive metrics were used to quantify spatial and temporal krill vertical distributions: volume backscatter, mean depth, center of mass, inertia, equivalent area, aggregation index, and proportion occupied. Krill backscatter density differed between the two instruments but was detected at similar mean depths. Krill aggregations were identified at each mooring location and classified in three types based on morphological characteristics. Each type of aggregation shape differed at the two spatially separated moorings, while the acoustic density of each aggregation type was similar. The Signature100 detected a lower number of krill aggregations (n = 133) compared to the WBAT (n = 707). Although both instruments can be used for autonomous deployment and sampling of krill over extended periods, there is a strong caveat for the use of the Signature100 due to significant differences in noise characteristics and krill detection.
Physical and geochemical responses to bottom trawling on naturally disturbed sediments in the eastern Bering Sea
Authors: Stephens J Drew , McConnaughey Robert A 
Published: July 2024

Abstract
Recent concerns that commercial bottom trawling can contribute to a significant release of sequestered marine carbon have highlighted a need for research in this area. Here, a Before-After Control-Impact (BACI) experimental design was utilized in a previously untrawled area of the eastern Bering Sea. Six pairs of experimental and control corridors were sampled before, after, and 1 year after a trawl disturbance. Each experimental corridor was fished four consecutive times over ∼12 h with a commercial otter trawl. Results were contextualized with minimum detectable effects (MDE), and showed no evidence of a trawl effect on total organic carbon (P = .999, MDE ± 0.05% TOC), total nitrogen (P = .999, MDE ± 0.02% TN), δ13C, and δ15N isotope ratios and sediment size classes. Interannual changes observed in δ15N, sand, silt, and clay are attributed to natural variation. The study suggests that the characteristics of the study site, such as storm disturbances, high sand content, and low carbon content, limited the bottom-trawl effect on sediment composition following this initial trawl disturbance. The findings highlight the importance of site-specific studies that account for local conditions to support best management practices for commercial bottom trawling.
Dispersal and connectivity modelling simulations for invertebrate larvae passing through the Strait of Gibraltar
Authors: Pires Rita F T , Peliz Álvaro , dos Santos Antonina 
Published: July 2024

Abstract
The link between the northeastern Atlantic and Mediterranean Sea created by the Strait of Gibraltar and the adjacent Iberian and Moroccan coasts marks remarkable transition areas between distinct environments that harbour a diverse mixture of species. The area is interesting regarding marine connectivity and the transport of pelagic invertebrate larvae, crucial knowledge to manage over-exploited populations, and minimize the impacts of climate change and anthropogenic activities. Biophysical models were developed, combining oceanic and particle-tracking Lagrangian simulations with in situ zooplankton distribution data. The conditions driving the larval exchange between the sub-basins and the connectivity throughout the region were explored, using crustacean decapod larvae as biological references. The potential exchange between both sub-basins was confirmed, although specific larval traits revealed contrasting scenarios. The simulations showed that slope-dwelling and mesopelagic larvae have advantage when crossing from the Alboran into the Atlantic, in comparison with shelf-dwelling and epipelagic larvae. Transport pathways and retention areas were identified, and passive drifts were shown to increase the dispersal range of the simulations. The spatial origin of the larval release, larval duration, vertical distribution, and the interaction of larvae with the oceanic features are presented as the main factors impacting the effective larval input into the Atlantic or Mediterranean basins.
CCR2-dependent placental migration of inflammatory monocytes suppresses abnormal pregnancies caused by Toxoplasma gondii infection
Authors: Kamiyama Naganori , Ueno Mai , Sasaki Yuma , Chalalai Thanyakorn , Sachi Nozomi , Ozaka Sotaro , Soga Yasuhiro , Kagoshima Yomei , Ekronarongchai Supanuch , Okamoto Masaaki , Yamamoto Masahiro , Kobayashi Takashi 
Published: July 2024

Abstract
Toxoplasma gondii (T. gondii) is a zoonotic protozoan parasite that causes congenital toxoplasmosis, including fetal death, abortion, stillbirth, morphological abnormalities, and premature birth. Primary T. gondii infection in pregnant women results in congenital toxoplasmosis. C–C chemokine receptor (CCR) 2 is reportedly a critical host defense factor against T. gondii infection. However, details of the role of CCR2 in the host immune response to T. gondii in congenital toxoplasmosis remain unclear. Here, we infected pregnant CCR2-deficient mice with T. gondii, resulting in stillbirth, embryonic resorption, fetal morphological abnormalities, and preterm delivery at significantly higher rates than those in pregnant wild-type (WT) mice. Consistent with the severity of abnormal pregnancy, a large area of placental hemorrhage and a large number of T. gondii infections around the hemorrhagic area were observed in the placentas of CCR2-deficient mice. In addition, the accumulation of inflammatory monocytes in the placenta was reduced in CCR2-deficient mice during infection. We further confirmed that the adoptive transfer of inflammatory monocytes collected from WT mice into T. gondii-infected pregnant CCR2-deficient mice effectively suppressed placental damage and abnormal pregnancy. Collectively, CCR2 contributes to pregnancy maintenance by regulating the migration of inflammatory monocytes into the placenta of T. gondii-infected pregnant mice.
Settler Colonialism and Mortal Dangers: Affective Responses to COVID-19 and the 2021 Israeli Bombings among Young Palestinians in Gaza
Authors: Pasquetti Silvia , Repo Jemima , Shoman Hala 
Published: July 2024

Abstract
The article examines the affective dynamics of collective survival and resistance under Israeli settler colonialism in the Gaza Strip. Focusing on Gaza as an under-researched enclave of Israeli settler colonialism, it analyzes how young Palestinians renegotiated their affective bonds in response to two coinciding deadly events: the COVID-19 pandemic and the 2021 Israeli bombings. Theoretically, we extend the politics of emotions and affect to encompass experiences of settler-colonial violence. Drawing on original interviews with Palestinians in Gaza, we trace how affective bonds were impacted among families, friends, and neighbors and, from a transpersonal perspective, across the political community. We show how settler colonialism shaped responses to the pandemic, deepening existing inequalities and causing social frictions. The bombings, by contrast, triggered a unified response of pure terror and universal concern for collective survival. The military targeting of homes was countered by practices of physical and emotional togetherness in the face of death. Overall, our study shows how (i) different kinds of mortal dangers are experienced politically by colonized people, (ii) these experiences are conditioned by collective histories of colonial violence, and that (iii) they constitute expressions of collective affective life, necessary for the preservation of peoplehood amidst colonial oppression.
Chlamydiae as symbionts of photosynthetic dinoflagellates
Authors: Maire Justin , Collingro Astrid , Tandon Kshitij , Jameson Vanta J , Judd Louise M , Horn Matthias , Blackall Linda L , van Oppen Madeleine J H 
Published: July 2024

Abstract
Chlamydiae are ubiquitous intracellular bacteria and infect a wide diversity of eukaryotes, including mammals. However, chlamydiae have never been reported to infect photosynthetic organisms. Here, we describe a novel chlamydial genus and species, Candidatus Algichlamydia australiensis, capable of infecting the photosynthetic dinoflagellate Cladocopium sp. (originally isolated from a scleractinian coral). Algichlamydia australiensis was confirmed to be intracellular by fluorescence in situ hybridization and confocal laser scanning microscopy and temporally stable at the population level by monitoring its relative abundance across four weeks of host growth. Using a combination of short- and long-read sequencing, we recovered a high-quality (completeness 91.73% and contamination 0.27%) metagenome-assembled genome of A. australiensis. Phylogenetic analyses show that this chlamydial taxon represents a new genus and species within the Simkaniaceae family. Algichlamydia australiensis possesses all the hallmark genes for chlamydiae–host interactions, including a complete type III secretion system. In addition, a type IV secretion system is encoded on a plasmid and has previously been observed for only three other chlamydial species. Twenty orthologous groups of genes are unique to A. australiensis, one of which is structurally similar to a protein known from Cyanobacteria and Archaeplastida involved in thylakoid biogenesis and maintenance, hinting at potential chlamydiae interactions with the chloroplasts of Cladocopium cells. Our study shows that chlamydiae infect dinoflagellate symbionts of cnidarians, the first photosynthetic organism reported to harbor chlamydiae, thereby expanding the breadth of chlamydial hosts and providing a new contribution to the discussion around the role of chlamydiae in the establishment of the primary plastid.
Antibiotic use by clinical presentation across all healthcare providers in rural Burkina Faso: a healthcare visit exit survey
Authors: Valia Daniel , Ingelbeen Brecht , Nassa Guétawendé Job Wilfried , Kaboré Bérenger , Kiemdé François , Rouamba Toussaint , Compaoré Adélaïde , Kouanda Juste Stéphane , Robert Annie , Rodriguez-Villalobos Hector , Van Der Sande Marianne A B , Tinto Halidou 
Published: July 2024

Abstract

Background
To guide antibiotic stewardship interventions, understanding for what indications antibiotics are used is essential.

Methods
In rural Burkina Faso, we measured antibiotic dispensing across all healthcare providers. From October 2021 to February 2022, we surveyed patients in Nanoro district, Burkina Faso, following visits to health centres (3), pharmacies (2), informal medicine vendors (5) and inpatients in health centres. We estimated prevalence of antibiotic use and the proportion of Watch group antibiotics by provider type and by clinical presentation, assessing compliance with WHO’s AWaRe Antibiotic Book. We estimated per capita antibiotic use by multiplying prevalence of antibiotic use, mean DDD per adult treatment course, and the rate of healthcare visits per 1000 inhabitants per day, estimated from a prior household survey.

Results
Outpatient antibiotic use was more frequent after health centre visits (54.8%, of which 16.5% Watch, n = 1249) than after visits to pharmacies (26.2%, 16.3% Watch, n = 328) and informal medicine vendors (26.9%, 50.0% Watch, n = 349). The frequency of antibiotic use was highest for bronchitis (79.9% antibiotic use, of which 12.6% Watch), malaria (31.9%, 23.1% Watch), gastroenteritis (76.0%, 31.7% Watch), rhinopharyngitis (40.4%, 8.3% Watch) and undifferentiated fever (77.0%, 44.8% Watch). Compliance with WHO AWaRe guidance could have averted at least 68.4% of all Watch antibiotic use in outpatients at health centres. Community-wide, 2.9 DDD (95% CI 1.9–3.9) were used per 1000 adult inhabitants per day.

Conclusions
Most Watch antibiotic use at community level or primary care deviated from WHO guidance. Antibiotic stewardship should focus on key clinical presentations and include primary care and self-medication.
Analytical and Clinical Validation of a Non-Ristocetin Based VWF Assay on 2 Automated Analyzers in a Large Reference Laboratory
Authors: Kumar Vivek , Goode Debra , Worfolk Laura A , Rhea-McManus Jeanne , Mitsios John V , Wong Edward C C 
Published: July 2024

Abstract

Background
Historically, von Willebrand factor (VWF) activity assays utilized ristocetin despite limitations including poor limits of detection and high imprecision. Newer VWF activity assays such as the INNOVANCE® VWF Ac assay, however, do not rely on ristocetin to measure platelet-dependent VWF function. The purpose of this study was to evaluate the analytical and clinical performance of the Siemens Healthineers INNOVANCE VWF Ac Assay on the Siemens BCS® XP and the Sysmex® CS-2500 systems in a large reference laboratory setting.

Methods
Performance indicators for the INNOVANCE VWF Ac assay were the limit of quantitation (LoQ), precision, and method comparison. Method comparison studies were performed using remnant plasma patient samples from routine coagulation tests and analyzed using both the INNOVANCE VWF Ac assay and the Siemens Healthineers ristocetin-dependent BC von Willebrand Reagent.

Results
Evaluation of the INNOVANCE VWF Ac assay on the BCS® XP and CS-2500 systems demonstrated good precision and a lower LoQ compared to the BC von Willebrand Reagent. Method comparisons support the use of the INNOVANCE VWF Ac assay on the BCS® XP and CS-2500 systems to measure platelet-dependent VWF function. The INNOVANCE VWF Ac assay was able to further assist in von Willebrand disease classification in 6/7 (86%) samples when the result was below the LoQ for the BC von Willebrand Reagent (ristocetin cofactor activity).

Conclusions
These data are consistent with the 2021 American Society of Hematology/International Society on Thrombosis and Haemostasis/National Hemophilia Foundation/World Federation of Hemophilia von Willebrand disease guidelines that suggest using newer assays such as the INNOVANCE VWF Ac assay in place of ristocetin cofactor activity assays.
Differential responses of bell pepper genotypes to indigenous Pseudomonas putida A32 treatment: implications for drought resilience
Authors: Mesaroš Aleksandra , Atanasković Iva , Nedeljković Marija , Stanković Slaviša , Lozo Jelena 
Published: July 2024

Abstract

Aims
This study aimed to evaluate the potential of endophytic plant growth-promoting bacterium (PGPB), Pseudomonas putida A32, to mitigate drought stress in two bell pepper genotypes, Amfora 19 and Amfora 26, and to assess the genotype-specific responses to bacterial treatment.

Methods and results
The isolate P. putida A32 was selected for its remarkable beneficial properties, exhibiting 13 out of 14 traits tested. Under drought conditions, Amfora 26 showed increased relative water content and decreased H2O2 and malondialdehyde following bacterial treatment, while Amfora 19 exhibited enhanced growth parameters but responded less to bacterial treatment regarding drought parameters. However, Amfora 19 displayed inherent drought tolerance mechanisms, as indicated by lower stress parameters compared to Amfora 26.

Conclusions
The study emphasizes the importance of genotype-specific responses to PGPB treatment and the mechanisms of drought tolerance in peppers. Pseudomonas putida A32 effectively mitigated drought stress in both genotypes, with differential responses influenced by plant genotype. Our study confirmed our initial hypothesis that Amfora 19, as a genotype tolerant to biotic stress, is also more tolerant to abiotic stress. Understanding these interactions is crucial for the development of customized strategies to improve plant productivity and tolerance to drought.
Supplementing a Bacillus-based probiotic to high-risk stocker cattle
Authors: Mackey Shea J , Cooke Reinaldo F , Pickett Autumn T , Cappellozza Bruno I , Harvey Kelsey M , Karisch Brandi B 
Published: July 2024

Abstract
This experiment evaluated the performance, health, and physiological responses of high-risk steers receiving a Bacillus-based probiotic during a 90-d grazing period. A total of 240 Angus-influenced steers were used in this experiment that was replicated over 2 yr (120 steers/year). Each year, steers were obtained from an auction yard and transported to the experimental facility (120 km). Steer body weight (BW) was recorded at arrival (day −1), and this value was averaged with BW recorded on day 0 to represent the initial BW (236.6 ± 1.5 kg). On day 0, steers were ranked by BW and allocated to 1 of 12 pastures with stockpiled native grass (4-ha pastures; 10 steers/pasture). Pastures were randomly assigned to receive daily supplementation with dried distillers’ grains at 1% of BW containing either: 1) Bacillus subtilis + B. licheniformis probiotic (BOV; 2 g/steer daily of Bovacillus; Novonesis, Horsholm, Denmark) or 2) no feed additive (CON). Cattle received treatments from days 0 to 90, in addition to free-choice access to water and mineral + vitamin mix without ionophore. Steers were assessed for bovine respiratory disease (BRD) signs daily. Blood samples were collected and full BW was recorded on days 0, 14, 28, 56, and 90. Shrunk BW was recorded on day 91 after 16 h of feed and water restriction, and a 4% pencil shrink was used to calculate the final BW. Average daily gain (ADG) was calculated based on initial and final BW. No treatment effects were detected (P ≥ 0.73) for steer final BW and ADG. A treatment × day interaction was detected (P ≤ 0.05) for plasma haptoglobin concentration, which was greater for CON steers on days 14 and 28 (P ≤ 0.02). Incidence of BRD signs did not differ (P = 0.97) between treatments (51.7% and 51.3% for BOV and CON, respectively; SEM = 7.70). However, steer mortality + removals for health complications were greater (P = 0.01) in CON compared to BOV (0.00% vs. 5.04%, respectively; SEM = 1.41). Supplementing BOV improved (P ≤ 0.04) total pasture-based liveweight change (643 vs. 502 kg/pasture, respectively; SEM = 45) and final pasture-based total liveweight (3,007 vs. 2,869 kg/pasture, respectively; SEM = 46). Collectively, supplementation with a probiotic based on B. subtilis and B. licheniformis to high-risk stocker cattle did not alleviate the incidence of BRD signs nor improved ADG, but decreased acute-phase protein response, reduced steer mortality + removal, and increased pasture-based productivity during a 90-d grazing period.
Effects of feeding hybrid rye grain as a replacement for barley grain on dry matter intake, ruminal fermentation, and the site and extent of nutrient digestion in finishing beef heifers
Authors: Zhang Fuquan , Carey Rachel E , Brattain Rebecca S , Wehrle Herman , Penner Gregory B 
Published: July 2024

Abstract
The objective of this study was to evaluate effects of increasing the inclusion of dry-rolled hybrid rye (HR) as a replacement for dry-rolled barley grain (DRB) on feed intake, ruminal fermentation, and the site and extent of nutrient digestion for finishing cattle. Eight ruminally and duodenally cannulated Hereford-cross heifers were used in a replicated 4 × 4 Latin square design with 21-d periods including 15 d of dietary adaptation and 6 d of data and sample collection. Dietary treatments included a control diet with 10.00% grass hay, 85.21% DRB, 4.51% of a vitamin and mineral supplement, and 0.28% of urea on a dry matter (DM) basis. Hybrid rye grain replaced 33%, 67%, or 100% of the DRB. Feed ingredients, feed refusals, ruminal pH, ruminal fluid, duodenal digesta, and fecal samples were collected from days 18 to 21 in each period. Data were analyzed using the Proc Glimmix procedure of SAS 9.4 (SAS Inst. Inc., Cary, NC) to evaluate the linear, quadratic, and cubic effects of increasing HR inclusion. Increasing HR inclusion as a substitute for DRB linearly decreased (P &lt; 0.01) DM intake, linearly decreased mean ruminal pH (P &lt; 0.01), and increased the duration (P &lt; 0.01) and area (P = 0.02) that ruminal pH was &lt; 5.5. There were no effects of HR inclusion on total short chain fatty acid and lactic acid concentrations in ruminal fluid. Likewise, the molar proportions of acetate and butyrate were not affected by HR inclusion. Propionate was cubically affected by HR inclusion (P = 0.02). Ruminal ash-free neutral detergent fiber (aNDFom) digestibility linearly increased (P = 0.03) with increasing HR, but there was no effect on ruminal starch digestibility averaging 71.1% (SEM = 3.611). Increasing HR inclusion linearly increased intestinal DM digestibility (% of flow to the duodenum; P = 0.03), tended to linearly increase intestinal digestibility of organic matter (P = 0.08), and tended to quadratically affect intestinal digestibility of aNDFom (P = 0.07). Increasing hybrid rye linearly increased apparent total tract DM, organic matter, crude protein, aNDFom, and starch digestibility (P ≤ 0.05). In addition, increasing HR inclusion linearly increased GE digestibility (P &lt; 0.01) and the DE concentration (P &lt; 0.01). Increasing the inclusion rate of HR grain as a substitute for DRB in finishing diets decreased DMI and increased risk for low ruminal pH, which may be influenced by greater digestible energy concentration arising from greater DM, OM, aNDFom, and starch digestibility.
Are osteoblasts multiple cell types? A new diversity in skeletal stem cells and their derivatives
Authors: Bok Seoyeon , Sun Jun , Greenblatt Matthew B 
Published: July 2024

Abstract
Only in the past decade have skeletal stem cells (SSCs), a cell type displaying formal evidence of stemness and serving as the ultimate origin of mature skeletal cell types such as osteoblasts, been defined. Here, we discuss a pair of recent reports that identify that SSCs do not represent a single cell type, but rather a family of related cells that each have characteristic anatomic locations and distinct functions tailored to the physiology of those sites. The distinct functional properties of these SSCs in turn provide a basis for the diseases of their respective locations. This concept emerges from one report identifying a distinct vertebral skeletal stem cell driving the high rate of breast cancer metastasis to the spine over other skeletal sites and a report identifying 2 SSCs in the calvaria that interact to mediate both physiologic calvarial mineralization and pathologic calvarial suture fusion in craniosynostosis. Despite displaying functional differences, these SSCs are each united by shared features including a shared series of surface markers and parallel differentiation hierarchies. We propose that this diversity at the level of SSCs in turn translates into a similar diversity at the level of mature skeletal cell types, including osteoblasts, with osteoblasts derived from different SSCs each displaying different functional and transcriptional characteristics reflecting their cell of origin. In this model, osteoblasts would represent not a single cell type, but rather a family of related cells each with distinct functions, paralleling the functional diversity in SSCs.