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  • 1
    Online Resource
    Online Resource
    Centering inclusivity in the design of online conferences—An OHBM–Open Science perspective
    Oxford University Press (OUP) ; 2021
    In:  GigaScience Vol. 10, No. 8 ( 2021-08-20)
    Details
    In: GigaScience, Oxford University Press (OUP), Vol. 10, No. 8 ( 2021-08-20)
    Abstract: As the global health crisis unfolded, many academic conferences moved online in 2020. This move has been hailed as a positive step towards inclusivity in its attenuation of economic, physical, and legal barriers and effectively enabled many individuals from groups that have traditionally been underrepresented to join and participate. A number of studies have outlined how moving online made it possible to gather a more global community and has increased opportunities for individuals with various constraints, e.g., caregiving responsibilities. Yet, the mere existence of online conferences is no guarantee that everyone can attend and participate meaningfully. In fact, many elements of an online conference are still significant barriers to truly diverse participation: the tools used can be inaccessible for some individuals; the scheduling choices can favour some geographical locations; the set-up of the conference can provide more visibility to well-established researchers and reduce opportunities for early-career researchers. While acknowledging the benefits of an online setting, especially for individuals who have traditionally been underrepresented or excluded, we recognize that fostering social justice requires inclusivity to actively be centered in every aspect of online conference design. Here, we draw from the literature and from our own experiences to identify practices that purposefully encourage a diverse community to attend, participate in, and lead online conferences. Reflecting on how to design more inclusive online events is especially important as multiple scientific organizations have announced that they will continue offering an online version of their event when in-person conferences can resume.
    Type of Medium: Online Resource
    ISSN: 2047-217X
    URL: Article
    DOI: 10.1093/gigascience/giab051
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2708999-X
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  • 2
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    PSIV-10 Effects of chronic molybdenum exposure in drinking water or feed on molybdenum and copper status and production performance of gestating and lactating beef cattle consuming a low-quality forage diet
    Oxford University Press (OUP) ; 2021
    In:  Journal of Animal Science Vol. 99, No. Supplement_3 ( 2021-10-08), p. 294-295
    Details
    In: Journal of Animal Science, Oxford University Press (OUP), Vol. 99, No. Supplement_3 ( 2021-10-08), p. 294-295
    Abstract: The objective of this experiment was to evaluate the effects of Mo source (feed or water) on performance and mineral status of cows and calves fed a forage-based diet for two years (DM basis: 6.6% CP; 0.14% S, 6.7 mg Cu/kg, 2.4 mg Mo/kg). Fifty-four cow-calf pairs were stratified by cow age, BW, and liver Cu and Mo status, and randomly assigned to one of six treatments. Treatments consisted of: 1) Negative control (NC; no supplemental Mo or Cu); 2) Positive control [PC: NC + Cu (3 mg Cu/kg diet DM from CuSO4·5H2O)]; 3) NC + 500 µg Mo/L from MoNa2O4·2H2O in drinking water (Mo 500-water); 4) NC + 1000 µg Mo/L of MoNa2O4·2H2O in drinking water (Mo 1000-water); 5) Mo 1000-water + 3 mg Cu/kg diet DM from CuSO4·5H2O (Mo 1000-water+Cu); and 6) NC + 3 mg Mo/kg diet DM from MoNa2O4·2H2O (3.0 Mo-diet). Cattle were allowed ad-libitum access to feed, water, and a protein supplement throughout the experiment. During the winter months animals were housed in three replicate pens per treatment and during the summer months animals were housed in separate pastures by treatment where cow and calf feed and water intake could be measured separately. Data were analyzed as a completely randomized block design. Throughout the experiment no signs of molybdenosis were observed. There was a treatment x time (P & lt; 0.01) interaction for cow liver Cu concentrations. Cows not receiving supplemental Cu had lower (P & lt; 0.01) liver Cu concentrations than cows receiving supplemental Cu. Cow and calf performance, calf mineral status, cow liver Mo, and plasma and milk Mo and Cu concentrations were similar across treatments. These data indicate that Mo supplemented in water or feed at concentrations used in this experiment had minimal impact on Cu status and overall animal performance.
    Type of Medium: Online Resource
    ISSN: 0021-8812 , 1525-3163
    URL: Article
    DOI: 10.1093/jas/skab235.541
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 1490550-4
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  • 3
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    PSXVI-22 The influence of Propionibacteria on in vivo rumen fermentation characteristics and in vitro lactic acid clearance rate in fistulated steers fed moderately high concentrate diets
    Oxford University Press (OUP) ; 2021
    In:  Journal of Animal Science Vol. 99, No. Supplement_3 ( 2021-10-08), p. 481-482
    Details
    In: Journal of Animal Science, Oxford University Press (OUP), Vol. 99, No. Supplement_3 ( 2021-10-08), p. 481-482
    Abstract: Six steers fitted with ruminal cannulae were used in a crossover design to examine the impact of direct fed microbial (DFM) supplementation on in vivo rumen fermentation characteristics and in vitro lactic acid clearance. Steers were fed a moderately high concentrate -1∙day-1 of 4.45x 1010 CFU/g of Propionibacteria acidipropionici). Treatments were administered daily, directly into the rumen via the cannula as a single bolus dose at the time of feeding. Rumen contents were sampled two h post-feeding daily and analyzed for short chain fatty acids (SCFA). On d 7 and 14, rumen fluid was collected from all steers and subjected to an in vitro lactic acid clearance challenge. Lactic acid and SCFA concentrations were determined at 3, 6 and 9 h post incubation. After d 14, all cattle received the basal diet for 21 d. On d 22, treatment crossover was implemented and the experiment repeated. Animal was considered the experimental unit and data were analyzed as a crossover design using Proc Mixed in SAS. In vivo propionic acid concentrations were greater (P & lt; 0.05) and total SCFA tended (P & lt; 0.06) to be greater in rumen fluid from steers receiving DFM. D- and total lactic acid concentrations were lesser (P & lt; 0.05) at 3 h post in vitro incubation for steers receiving DFM. D-, L+, and total lactic acid concentrations were similar between treatments at all other timepoints. In vitro propionic acid and total SCFA concentrations were greater (P & lt; 0.05) and acetic acid concentrations lesser (P & lt; 0.05) in steers receiving DFM. These data indicate that the DFM Propionibacteria acidipropionici, alters in vivo and in vitro rumen fermentation characteristics.
    Type of Medium: Online Resource
    ISSN: 0021-8812 , 1525-3163
    URL: Article
    DOI: 10.1093/jas/skab235.849
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 1490550-4
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  • 4
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    PSVIII-13 Influence of Propionibacteria Acidipropionici on Short Chain Fatty Acid and Methane Production in Fistulated Beef Steers
    Oxford University Press (OUP) ; 2022
    In:  Journal of Animal Science Vol. 100, No. Supplement_3 ( 2022-09-22), p. 397-398
    Details
    In: Journal of Animal Science, Oxford University Press (OUP), Vol. 100, No. Supplement_3 ( 2022-09-22), p. 397-398
    Abstract: Twelve steers, fitted with rumen canulae were used in a 4 x 4 Latin square design to examine the impact of the direct fed microbial Propionibacteria acidipropionici (PA) on rumen fermentation characteristics. All steers were housed together in one pen equipped with GrowSafe feed intake monitoring stations and one Greenfeed system used to estimate in vivo methane production. Steers were fed a corn silage-based diet throughout the experiment. Treatments consisted of PA administered at: 1) 0.0; 2) 1.0 x 108; 3)1.0 x 109; and 4) 1.0 x 1010 CFU∙animal-1∙day-1. Treatments were administered directly into the rumen as a single bolus dose daily. On day 7 and 14 of each period, rumen fluid was collected from each steer 2 h post treatment administration for VFA analysis and for determining in vitro fermentation characteristics. Following a 14d washout period, animal treatments were switched, and the experiment repeated. Data were analyzed as a 4 x 4 Latin square design. In vivo propionic acid molar proportions (25.4 vs 23.6±0.24) and total VFA concentrations (125.2 vs 121.3±1.87) were greater (P & lt; 0.05) in steers receiving PA compared with controls. In vitro DM disappearance (P & lt; 0.05; 63.3% vs 59.2%±1.12) and total VFA (P & lt; 0.05; 147.9 vs 145.2±1.76) were greater and methane (ml/g DMD) lesser (P & lt; 0.04; 13.1 vs 15.6±0.11) in fermentation vessels incubated with rumen fluid from animals receiving PA compared with controls. Dry matter disappearance (P & lt; 0.03) and propionic acid (P & lt; 0.04) increased linearly as dose of PA increased. In vitro Total VFA tended (P & lt; 0.08) to increase linearly and methane production tended (P & lt; 0.09) to decrease quadratically in response PA dose. In vivo methane production was similar across treatments. In conclusion, PA addition improved in vivo and in vitro rumen fermentation characteristics.
    Type of Medium: Online Resource
    ISSN: 0021-8812 , 1525-3163
    URL: Article
    DOI: 10.1093/jas/skac247.727
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2022
    detail.hit.zdb_id: 1490550-4
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  • 5
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    Penicillin-allergy delabelling resources for clinicians practicing in resource-limited settings: a full educational resource review of the grey literature
    Oxford University Press (OUP) ; 2023
    In:  JAC-Antimicrobial Resistance Vol. 5, No. 2 ( 2023-03-02)
    Details
    In: JAC-Antimicrobial Resistance, Oxford University Press (OUP), Vol. 5, No. 2 ( 2023-03-02)
    Abstract: The clinical and financial consequences associated with a penicillin-allergy label are increasingly evident and have garnered support from international organizations to prioritize penicillin-allergy delabelling programmes. Most settings lack access to resources including drug allergy specialists and rely on general practitioners (GPs) and pharmacists. Objectives The aim of this scoping review was to identify and describe freely available penicillin-allergy delabelling materials to guide clinicians practising in resource-limited settings with initiative application. Methods This scoping review searched two grey literature databases, six targeted websites and consulted content experts to identify freely available materials in the English language that provided evidence-based and actionable penicillin-allergy delabelling strategies. Study investigators ranked and voted on which screened resources should be included in the final review. Characteristics of resources were evaluated and compared. Results Out of 1191 total citations, 6 open-access resources were included. Penicillin-allergy toolkits featuring various delabelling strategies were identified in four resources. The toolkits supported a broad range of downloadable and adaptable materials, predominantly targeted towards GPs. Patient educational materials were also provided. Another resource highlighted a point-of-care penicillin-allergy risk assessment calculator via a free mobile app that quickly and accurately identified low-risk penicillin-allergic patients. The final resource, a supplemental instructional video, presented impactful and standardized delabelling strategies that clinicians can adopt into daily practices. Conclusions Limited penicillin-allergy delabelling materials are available in the grey literature but existing resources provide broad and diverse opportunities. Additional support from health protection agencies is critical to augment ongoing delabelling efforts.
    Type of Medium: Online Resource
    ISSN: 2632-1823
    URL: Article
    DOI: 10.1093/jacamr/dlad014
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2023
    detail.hit.zdb_id: 2973194-X
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  • 6
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    The COVID-19 Community Research Partnership: a multistate surveillance platform for characterizing the epidemiology of the SARS-CoV-2 pandemic
    Oxford University Press (OUP) ; 2022
    In:  Biology Methods and Protocols Vol. 7, No. 1 ( 2022-01-10)
    Details
    In: Biology Methods and Protocols, Oxford University Press (OUP), Vol. 7, No. 1 ( 2022-01-10)
    Abstract: The COVID-19 Community Research Partnership (CCRP) is a multisite surveillance platform designed to characterize the epidemiology of the Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-COV-2) pandemic. This article describes the CCRP study design and methodology. The CCRP includes two prospective cohorts, one with six health systems in the mid-Atlantic and southern USA, and the other with six health systems in North Carolina. With enrollment beginning in April 2020, sites invited persons within their healthcare systems as well as community members to participate in daily surveillance for symptoms of COVID-like illnesses, testing, and risk behaviors. Participants with electronic health records (EHRs) were also asked to volunteer data access. Subsets of participants, representative of the general population and including oversampling of populations of interest, were selected for repeated at-home serology testing. By October 2021, 65 739 participants (62 261 adult and 3478 pediatric) were enrolled, with 89% providing syndromic data, 74% providing EHR data, and 70% participating in one of the two serology sub-studies. An average of 62% of the participants completed a daily survey at least once a week, and 55% of the serology kits were returned. The CCRP provides rich regional epidemiologic data and the opportunity to more fully characterize the risks and sequelae of SARS-CoV-2 infection.
    Type of Medium: Online Resource
    ISSN: 2396-8923
    URL: Article
    DOI: 10.1093/biomethods/bpac033
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2022
    detail.hit.zdb_id: 2879161-7
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  • 7
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    Transplantation of CCR5∆32 Homozygous Umbilical Cord Blood in a Child With Acute Lymphoblastic Leukemia and Perinatally Acquired HIV Infection
    Oxford University Press (OUP) ; 2018
    In:  Open Forum Infectious Diseases Vol. 5, No. 5 ( 2018-05-01)
    Details
    In: Open Forum Infectious Diseases, Oxford University Press (OUP), Vol. 5, No. 5 ( 2018-05-01)
    Abstract: Allogeneic hematopoietic cell transplantation (allo-HCT) in a CCR5∆32 homozygous donor resulted in HIV cure. Understanding how allo-HCT impacts the HIV reservoir will inform cure strategies. Methods A 12-year-old with perinatally acquired, CCR5-tropic HIV and acute lymphoblastic leukemia underwent myeloablative conditioning and umbilical cord blood (UCB) transplantation from a CCR5∆32 homozygous donor. Peripheral blood mononuclear cells (PBMCs) and the rectum were sampled pre- and post-transplant. The brain, lung, lymph node (LN), stomach, duodenum, ileum, and colon were sampled 73 days after transplantation (day +73), when the patient died from graft-vs-host disease. Droplet digital polymerase chain reaction (ddPCR) and in situ hybridization (ISH) were used detect the HIV reservoir in tissues. CCR5 and CD3 expression in the LN was assessed using immunohistochemistry (IHC). Results HIV DNA (vDNA) was detected in PBMCs by ddPCR pretransplant but not post-transplant. vDNA was detected by ISH in the rectum at days –8 and +22, and in the LN, colon, lung, and brain day +73. vDNA was also detected in the lung by ddPCR. IHC revealed CCR5+CD3+ cells in the LN postmortem. Conclusions HIV was detected in multiple tissues 73 days after CCR5∆32 homozygous UCB allo-HCT despite myeloablative conditioning and complete donor marrow engraftment. These results highlight the importance of analyzing tissue during HIV cure interventions and inform the choice of assay used to detect HIV in tissue reservoirs.
    Type of Medium: Online Resource
    ISSN: 2328-8957
    URL: Article
    DOI: 10.1093/ofid/ofy090
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2018
    detail.hit.zdb_id: 2757767-3
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  • 8
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    PSXVI-23 The influence of trace mineral source on digestion, ruminal fermentation characteristics, and mineral solubility in beef cattle fed a high concentrate feedlot diet
    Oxford University Press (OUP) ; 2021
    In:  Journal of Animal Science Vol. 99, No. Supplement_3 ( 2021-10-08), p. 481-481
    Details
    In: Journal of Animal Science, Oxford University Press (OUP), Vol. 99, No. Supplement_3 ( 2021-10-08), p. 481-481
    Abstract: Twelve Angus steers (BW 530.9 ± 22.7kg) fitted with ruminal cannulae were used to determine the impact of trace mineral (TM) source on digestibility and ruminal VFA and soluble concentrations of Cu, Mn, and Zn. Steers were fed a high concentrate diet balanced to meet the requirement of finishing feedlot steers for 21d. Treatments consisted of Cu, Mn, and Zn supplemented at 18, 40, and 90 mg/kg DM, respectively, from either sulfate (STM) or hydroxy trace mineral (HTM) sources (n = 6 steers/treatment; experimental unit = steer). Following a 21-d adaptation period total fecal output was collected for 5 d. Trace mineral sources had no impact on nutrient digestibility. On d 6, rumen fluid was collected at 0, 2, and 4 h post-feeding for VFA analysis. There were no treatment x time interactions for any VFA measured. However, HTM steers had greater (P & lt; 0.05) ruminal molar proportions of propionate and tended (P & lt; 0.07) to have greater molar proportions of valerate compared to STM steers. Steers fed STM had greater (P & lt; 0.05) molar proportions of butyrate compared to HTM steers. Steers were then fed the same high concentrate diet without supplemental Cu, Zn, or Mn for 14 d. On d 15 steers received a pulse dose (via rumen cannula) from either STM or HTM. Ruminal samples were obtained at 2 h intervals starting at -4 and ending at 24 h relative to dosing. There was a treatment x time interaction (P & lt; 0.05) for ruminal soluble Cu concentrations. Ruminal soluble mineral concentrations were greater (P & lt; 0.05) for Cu at 4, 6, 8, and 16 h post-dosing in STM compared to HTM supplemented steers. Results indicate that ruminal solubility of Cu differs between STM and HTM sources and may impact rumen fermentation characteristics.
    Type of Medium: Online Resource
    ISSN: 0021-8812 , 1525-3163
    URL: Article
    DOI: 10.1093/jas/skab235.848
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 1490550-4
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  • 9
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    Large expert-curated database for benchmarking document similarity detection in biomedical literature search
    Oxford University Press (OUP) ; 2019
    In:  Database Vol. 2019 ( 2019-01-01)
    Details
    In: Database, Oxford University Press (OUP), Vol. 2019 ( 2019-01-01)
    Abstract: Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency–Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.
    Type of Medium: Online Resource
    ISSN: 1758-0463
    URL: Article
    DOI: 10.1093/database/baz085
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2019
    detail.hit.zdb_id: 2496706-3
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  • 10
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    The influence of Propionibacteria on in vivo rumen fermentation characteristics and in vitro lactic acid clearance rate in fistulated steers fed moderately high concentrate diets
    Oxford University Press (OUP) ; 2021
    In:  Translational Animal Science Vol. 5, No. Supplement_S1 ( 2021-11-30), p. S115-S119
    Details
    In: Translational Animal Science, Oxford University Press (OUP), Vol. 5, No. Supplement_S1 ( 2021-11-30), p. S115-S119
    Type of Medium: Online Resource
    ISSN: 2573-2102
    URL: Article
    DOI: 10.1093/tas/txab148
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2880940-3
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