bluuebunny/crossref_metadata_2025_split huggingface dataset:
Anaerobes Direct from Blood Culture Bottles Can Be Identified by Early Matrix-Assisted Laser Desorption Ionization/ Time-of-Flight Mass Spectrometry (MALDI-TOF MS) at 24 Hours or Less
Authors: Berg H E , Shannon S , Schuetz A N 
Published: October 2020

Abstract

Introduction/Objective
Matrix-assisted laser desorption ionization/ time-of-flight mass spectrometry (MALDI-TOF MS) direct from positive blood culture bottles has facilitated drastic drops in turn-around times for microorganism identification but has been poorly studied for anaerobes. We investigated the ability of MALDI-TOF to provide early anaerobe identification at 4 hours and 18-24 hours of growth on agar from anaerobic blood culture bottles.
Additionally, we reviewed medical records of such patients to ascertain impact of early identification on antimicrobial treatment.

Methods
Over 9 months, we ran MALDI-TOF on early growth from blood cultures positive for growth in BACTEC™ Lytic/ 10 Anaerobic/F bottles. Broth from each bottle was subbed to sheep blood agar (4 hours, 5% CO2) and 2 CDC (BD-BBL™) anaerobic blood agar plates (examined 18-24 hours and 48 hours). Bruker Biotyper® RUO v7854 and Mayo Clinic Custom MALDI-TOF MS libraries were used for identification.

Results
144/184 (78%) bottles resulted in growth of aerobic bacteria. Of the remaining bottles with growth of anaerobes, 38 were assessed by early MALDI-TOF. Early MALDI-TOF at 4 hours identified 3 Clostridium perfringens (8%) and an additional 26/38 (68%) isolates at 18-24 hours (both Gram-positive and –negative). Routine 48 hour identification was required for 9 (24%) isolates. In 7 cases, early MALDI-TOF resulted in a change to more appropriate antimicrobial therapy, most often for Bacteroides.

Conclusion
29/38 (76%) of anaerobes from blood culture bottles were identified by early MALDI-TOF and reported to the clinician at least 24 hours before routine review of anaerobic sub plates for growth. All C. perfringens and Bacteroides were identified by 4 and 24 hours, respectively. Although early MALDI-TOF resulted in antimicrobial therapy adjustments in a minority of cases, it may allow for more targeted and earlier antimicrobial therapy. Early MALDI-TOF from anaerobic blood culture bottles should be considered for improved patient care and antimicrobial stewardship.
Epidemiology Of Helicobacter Pylori In Delta Egypt
Authors: Abdelmonem M , Elshamsy M , Wasim H , Shedid M , Boraik A 
Published: October 2020

Abstract

Introduction/Objective
Introduction: Helicobacter pylori (H. pylori) infection is one the most prevalent bacterial infection in the world, affecting more than 50% of the world’s population. H. pylori are gram negative bacteria usually found in the stomach, penetrate the lining of the stomach, small intestine, or esophagus. After many years, they can cause sores, called ulcers, in the lining of your stomach or the upper part of your small intestine. For some people, an infection can lead to Gastric cancer which is the second most common cancer worldwide
Objectives: The aim of this study is to predict the prevalence of Helicobacter pylori infection in gastrointestinal tract patients in Egypt.

Methods
Subjects and methods: A total of 1120 patients were enrolled in this study from The Delta region in Egypt. Enzyme-linked immunosorbent assay (ELISA) kits were used to detect H. pylori stool Antigen. Among the 1120 patient; 301 patients (26.9%) were males, 510 patients (45.6%) were females and 309 patients (27.5%) were children with age range from 1 years to 76 years. The mean of the age was 8,35,34 for children, males and females respectively.

Results
The overall prevalence of H. pylori infection was 52%. Among the 1120 patients, 576 patients (48%) were negative while 624 patients (52%) of the patients were Positive. It was observed that 169 patients (51.6%) of males were positive,275 patients (52.9%) of females were positive and 135 patients (41%) of children were positive. Furthermore, 133 patients (48.4%) of males were negative, 227 patients (47.2%) of females were negative and 181 patients 59% of children are negative.

Conclusion
This study revealed that the incidence and prevalence rates of H. Pylori in Egypt are relatively high. The high H. pylori prevalence is related to poor standard of living, low socio-economic conditions, poor sanitation and fecal contamination of food or water. It is crucial to launch educational awareness program for H. pylori in Egypt.
Leading Laboratory Testing through a Viral Pandemic
Authors: Bradley J A , Thrasher-Stallard L 
Published: October 2020

Abstract

Introduction/Objective
In March, thrown into the 2019 Novel Coronavirus pandemic the first test result was returned on the first suspected of this virus. Since, we implemented numerous plans of action, control measures, test procedures and managed the flow of accurate information to the entire facility.

Methods
Control and leadership engagement were key to our success. Control of collection process, creating collection “kits”, methods of shipment, results reporting and regulated distribution. Key players maintained order and track all samples on a spreadsheet. The spreadsheet utilized was the most vital tool in weeks to come. Daily updates for both supplies and samples. Simultaneously, researching test capabilities with current analyzers. Daily huddles and group meetings to coordinate all efforts which included manning.

Results
Supply counts three times a day at the start and collection “kits” weekly. This measured the capabilities initially. Counting errors lead to numerous redundancies. This was a burden and abandoned. Reference laboratory instructions were verified for all transport media allowed and was as a starting point. Daily usage was subtracted. Patient management was populated with sample specificities, patient demographics and testing locations. Every result called to provider, public health, infectious disease, and a sanitized report to hospital management. This data became “the” source and used as a check against other methods. Later only positives were notified. In April, microbiology implemented Cepheid GeneXpert (Sunnyvale, Ca.). Protocols established changed rapidly. Confusion drove subpar test utilization this created processing errors. Multiple shifts were trained previously and no lag was noted. A back-up, BioFire Torch (Salt Lake City, Utah), was validated.

Conclusion
After eight weeks, over 900 tests, 800 patients and two systems brought online. Overall, a dedicated white board specific to COVID news was established. The “normalcy” phase has hit. Some early protocols have been established as working methods and new members were brought into the fold.
Microbiologic Proof-Of-Concept: A Novel Device Combining UV Light And Ozone For Human Skin Antisepsis
Authors: Maris A , Jacobs J , Van Horn G , Stratton C W , Schmitz J 
Published: October 2020

Abstract

Introduction/Objective
Hand hygiene (HH) decreases healthcare-associated infections (HAI). Available products include alcohol-based gels, foams, wipes, and “gold-standard” hand-washing with soap and water. We tested an investigational device (HyLuxO3; GMI, LLC, patent pending) for antimicrobial effect (AME). HyLuxO3 was engineered to deliver UV-C light energy and high velocity O3 airflow to safely achieve human skin antisepsis within OSHA and EPA regulatory limits. Combined UV and O3 has yet to be evaluated for HH and may demonstrate synergistic AME.

Methods
HyLuxO3 was tested on LB agar to titrate device variables to ascertain intensities for optimal AME; later testing was performed on VITRO-SKIN (Florida Suncare Testing, Bunnell, FL), a human skin surrogate. ATCC strains of MRSA, Klebsiella pneumoniae, Pseudomonas aeruginosa, and Candida albicans were used to test AME vs. vegetative microbes; Bacillus atrophaeus spores were used as a surrogate for C. difficile. Tested variables included time under device, [O3], airflow velocity, 222 and/or 254 nm UV light, sample distance from UV lamp, and UV beam width. Positive controls were used to calculate log-kill curves for AME.

Results
Similar results were seen on LB agar and VITRO-SKIN. &gt;7 log-kill and &gt;5 log-kill were acheived vs. vegetative microbes (&lt;30 sec) and spores (60 sec), respectively, under optimized variables. Presence of UV light and sample distance from and time under the device were the most important variables. 254 nm UV had a significantly better AME than 222 nm; combining both UV lamps had a significant synergistic AME. The narrowest UV beam (2 mm) yielded the greatest AME (total energy input kept constant). Adding O3 to UV had a modest but significant synergistic effect; optimal [O3] was 0.3-0.8 ppm. Changing airflow velocity had no significant effect on AME.

Conclusion
HyLuxO3 is a novel device that achieves &gt;7 log-kill vs. common pathogenic vegetative microbes and &gt;5 log-kill vs. spores using combined UV light and [O3] safe for human skin antisepsis (and surface/fomite decontamination)- and- yields such impressive AME on faster timescales than those required by bleach/other chemical products unsuitable for human skin. Future studies on human hands (using many other microbes) will determine if HyLuxO3 meets regulatory and efficacy requirements for use in and beyond healthcare settings, especially with the specter of emerging respiratory viruses.
Multiple B-D Glucan and Cmv Test Ordering By Multiple Physicians – Analysis To Assess The Frequency Of Duplicate Test Orders
Authors: Fathima S , Gardner A R , Sohn A J , Benavides R 
Published: October 2020

Abstract

Introduction/Objective
In teaching hospitals, patients receive direct care from a succession of different physicians, each of whom may order diagnostic tests on the same patient resulting in multiple physicians unknowingly ordering the same test in the same time period, leading to overutilization. We examined the association of test-ordering by multiple physicians with duplication of two tests, Beta D-Glucan (BDG) and CMV Viral Load by PCR non blood, as aid for detection of fungal and cytomegaloviral infections, respectively

Methods
Retrospective medical records at Baylor University Medical Center, Dallas were examined in between 10/1/2019- 10/30/2019. A total 167 test orders were identified for CMV Viral Load non blood and BDG presence in blood. Each medical record was assessed for frequency of ordering along with the physicians who ordered them

Results
A total 167 tests were ordered in which, 120 times BDG was ordered and 52 times CMV was ordered.
Singleton orders were noted in 85(50%) instances of BDG & 30(17%) for CMV.Multiple test orders were 44 (25%) for BDG and 8 (4%) for CMV respectively. Both CMV and BDG were ordered together 57 times. The time stamps of multiple test orders in individual patients was assessed for instances of orders that were less than 3 days apart and analysis showed out of the 44 multiple test orders, 34% (15) test orders were ordered less than 3 days apart and 66%(29) tests were ordered more than 3 days apart for BDG. Upon chart review, most of these quickly successive orders were by different physicians. The estimated costs of the duplicate orders are 4334.0$ & 1104.16$ for BDG and CMV respectively.

Conclusion
CMV and BDG are commonly ordered on many patients. Analysis shows that many times, physicians order testing when the same test has been ordered very recently by a separate physician. Note that for both tests, retesting in less than three days is not normally indicated, however this happens often, especially for BDG. This is most likely due to difficulty in determining within the EHR what tests are drawn and “pending’ but not yet finalized and reported. With usage of prompts/ alerts in EMR that warn of existing “pending’ orders by another caregiver, the frequency of duplicate test ordering for the same patient may be reduced, in turn reducing the costs of healthcare.
Does PD-L1 Positivity in Inflammatory Cells Correlate with PD-L1 Expression in Tumor Cells in Colorectal Adenocarcinoma?
Authors: Broadwater D R , Williams G , Messersmith L , Brady R 
Published: October 2020

Abstract

Introduction/Objective
Drugs targeting the programmed death-1 (PD-1) and programmed death-ligand 1 (PD-L1) checkpoint is an important type of novel immunotherapy. These checkpoint inhibitors are being used in a wide variety of cancers, including colorectal carcinoma (CRC). PD-L1 expression on tumor cells in CRC is predictive of good response to checkpoint inhibitor therapies. PD-L1 expression on tumor infiltrating immune cells (TIIC) is increasingly observed and independently portends good prognosis. The relationship between PD-L1 positivity in TIIC and tumor cells is not well established. In this study, the relationship and correlation of PD-L1 positivity in TIIC and tumor cells were retrospectively reviewed.

Methods
197 sections of CRC from 33 cases (mean of 6 sections/case) with heterogeneous expression of PD-L1 on tumor cells were stained for PD-L1 with immunohistochemistry. None of the patients had received neo-adjuvant therapy. The presence of tumor cells and immune cells with positive PD-L1 expression was noted for each section.

Results
Immune cells were positive in 79% of the sections examined. TIIC were positive in 56% of the sections examined. A Cohen’s correlation study showed correlation between tumor cells and TIIC in 77% of the cases (k=0.51, moderate agreement). There was at least one section with PD-L1 positive TIIC in 97% of cases.

Conclusion
This study shows that PD-L1 is expressed in TIIC in the vast majority of CRC cases designated PD-L1 positive and that PD-L1 is positive in TIIC at a higher rate than in tumor cells. The moderate correlation is interesting, perhaps suggesting that if TIIC are noted to be positive for PD-L1 and tumor cells are not, additional sections of tumor should be stained.
Mycoplasma Genitalium And Streptococcus Agalactiae Colonization In Pregnant Women: An Emerging Relationship
Authors: Hummel K , Dunn J , Muldrew K , Gogia S , Kravitz E , Johnson E , Berra A , Stafford I , Martin I , Munson E 
Published: October 2020

Abstract

Introduction/Objective
Mycoplasma genitalium has been identified as an emerging sexually transmitted infection (STI) causing cervicitis, pelvic inflammatory disease and other gynecologic pathology. The prevalence of M. genitalium in pregnant women has not been determined, nor has frequency of co-infection with Streptococcus agalactiae (GBS). Neonatal sepsis caused by GBS is associated with black race and young maternal age with approximately 10%-30% of pregnant women colonized. The aim of this retrospective study was to investigate the possible association between M. genitalium infection and colonization with GBS in a large cohort of pregnant women from a tertiary care center in Houston, Texas.

Methods
Remnant endocervical samples collected from pregnant women attending clinics at the Baylor College of Medicine between September 2019 and December 2019 were screened for M. genitalium by transcription mediated amplification (Hologic, Inc. Marlborough, MA). Demographic, STI co-infection [Human papillomavirus (types 16,18), Trichomonas vaginalis, Chlamydia trachomatis, Neisseria gonorrhoeae, Treponema pallidum, and Herpes simplex virus], and GBS status data were recorded. Fisher’s exact test was performed for statistical analysis.

Results
719 total samples were collected and tested for M. genitalium. Of these, 41 (5.7%) were positive. The mean age of infected women was younger than noninfected women (24.9 vs. 28.1 years respectively p = 0.0004). More black women (34.2%) were infected with M. genitalium compared to white (14.6%) or other (51.2%) (p = 0.0003).
Rates of GBS colonization was significantly higher among women infected with M. genitalium compared to women who tested negative (58.3% vs. 16.1% respectively p = 0.002) and increased compared to national reported rates of GBS colonization. M. genitalium also showed a significant association with T. vaginalis (p=0.03), but no other STI co- infections studied.

Conclusion
Our data demonstrates that infection with M. genitalium may be associated with persistent GBS colonization. Further prospective studies are needed to further elucidate this relationship.
Returning the Blood and Saving the Supply, the Veteran Affairs Medical Center (VAMC) Experience
Authors: Petersen J M , Jhala D 
Published: October 2020

Abstract

Introduction/Objective
Blood conservation techniques such as perioperative autologous cell salvage (PACS) can reduce patient usage and exposure to allogeneic blood products during surgery. As all blood transfusions carry risk and cost, the avoidance of transfusion through PACS represents an opportunity to reduce risk of allogeneic transfusion related reactions or complications and reduce costs from blood product utilization. Although the benefits of PACS has been documented in the literature, quality assurance demonstrations of the blood volume returned to veteran patients undergoing surgeries with a high likelihood of significant blood loss are sparse; thus, we present the quality assurance study of PACS usage in a VAMC.

Methods
Quality assurance documentation from the American Red Cross (ARC) that provides autologous cell salvage services at the VAMC were examined from February 2017 to August 2018, for a total of 17 months examined. The procedure, estimated blood loss, and volume returned was documented as part of a quality assurance/improvement project. The volume returned was compared to the typical RBC volume (~250 mL) within a packed red blood cell volume (~350 mL).

Results
A total of 44 procedures took place corresponding usage of PACS. Of these 44 procedures, 15 had no estimated blood loss, and an additional 10 had too little estimated blood loss (&lt;250 mL) for blood volume to be returned. Among the procedures with blood loss, an average of 864 mL of blood was lost (1230 mL when the low blood loss cases are excluded) with an average volume returned of 511 mL or the approximate equivalent of 2 units of RBCs when utilized. Two cases with significant estimated blood loss (5400 mL and 4850 mL) had 2250 mL and 2125 mL or about the equivalent of 9 RBC units each. The total volume returned to all patients was 9700 mL, or the equivalent RBC volume of 38-39 RBC units.

Conclusion
PACS is a procedure that can rapidly provide large quantities of autologous blood in surgeries with significant risk of bleeding. Blood salvage avoids or reduces the risks of allogeneic blood transfusion and reduces cost to the transfusion service as the autologous blood loss would not need to be replaced with allogeneic blood transfusions. PACS in the VAMC returned significant blood volumes to patients undergoing procedures with high risk of blood loss, therefore reducing allogeneic blood transfusion requirements in the veteran population.
What’s in a Name? Comparative Analysis of Laboratory Test Naming Guidelines as Applied to Common Confusing Test Names
Authors: Garnett E , Consortium T , Singh I , Jackson B , Wang J , Procop G , Bierl C 
Published: October 2020

Abstract

Introduction/Objective
Laboratory test names frequently do not enable easy understandability or promote correct test utilization, which leads to difficulty for providers in finding the correct test and results in unnecessary cost and medical errors. Laboratory test names are also largely unstandardized and are not named by a consistent set of conventions. To address these issues, the TRUU-Lab (Test Renaming for Understanding & Utilization) initiative aims to generate a consensus test naming guideline for better human understandability of laboratory test names. These studies address the first aim of the TRUU-Lab initiative: to identify root causes and challenges in understanding and using laboratory test names.

Methods
We conducted survey studies to capture the most problematic laboratory test names, then performed analysis of these names to identify aspects of these names that led to confusion among providers. A subset of these test names were used to evaluate five existing laboratory test naming guidelines (LOINC, ONC TigerTeam, Pan- Canadian iEHR Viewer Name, Standards for Pathology Informatics (Australia), and ARUP Laboratories internal style guides) for their ability to produce understandable test names.

Results
274 survey responses yielded ~100 unique laboratory tests cited as confusing, and highlighted substantial diversity both in the names of these tests between institutions and in respondent opinion on the best alternative names. The top 10 most commonly-cited tests yielded ≥ 3 unique names, and the top 2 tests (Vitamin D and anti- factor Xa) yielded ≥ 10 unique names. Post-survey analysis identified eight characteristics associated with poor understandability of a test name, including ambiguity, abbreviations, homophones, multiple indications for a single test, proprietary names, synonyms, truncation, and “panels” where components are obfuscated. Existing guidelines produced highly variable names given the same prompt, and varied in their ability to avoid pitfalls associated with poor understandability.

Conclusion
These studies highlight aspects of existing laboratory test names that lead to confusion among ordering providers, and identify the inability of existing laboratory test naming practices to adequately address these issues. Efforts are ongoing within TRUU-Lab to use these results to inform novel laboratory test naming guidelines to promote universal human understandability.
Anti-IH Related Hemolytic Reaction in a Sickle Cell Patient and Further Management While Avoiding Transfusion
Authors: Yurtsever N , Wilson-Sandberg K , Dikeman J , Louie J , Fomani K 
Published: October 2020

Abstract

Introduction/Objective
H antigen is a precursor for A and B antigens and is mostly converted except for the O blood group, which has the highest amount of H antigen. I is present on all adult RBCs. Anti-IH is usually an IgM antibody active at cold temperatures, and rarely demonstrates a wide thermal amplitude and can cause a significant hemolytic transfusion reaction.

Methods
Data was collected from patient information and transfusion management systems.

Results
38 year old female with sickle cell disease presented to the emergency room with dizziness, tachypnea and Hgb: 5.9 g/dl Hct:19.1%. Upon further review, patient chart showed that she had received an emergency RBC exchange transfusion 21 days prior to this admission for acute chest syndrome. She was B positive. The units for RBC exchange consisted of 5 group B and 1 group O units and an additional 1 group O unit later. All RBC units were matched for her phenotype; Rh, K, Duffy & Kidd, except anti-S which was ruled out. At the time of discharge, Hgb was 9.3 g/dl and Hct was 27.7%. The drop in Hgb between discharge and the present admission prompted a suspicion for delayed hemolytic reaction/hyperhemolysis. The sample sent to the local Reference Laboratory came back as follows: DAT/Coombs Positive, DAT C3 positive; positive for cold auto-anti-IH antibody. A thermal amplitude test indicated that the anti-IH was reactive at 30 C and therefore had the potential to be of clinical significance. Her Hgb continued to drop and 3 days later Hb=3.7 g/dl with instructions not to transfuse unless clinically emergent. With treatment of IVIG and steroids, reducing further blood draws and monitoring the patient for clinical symptoms only, her Hgb/Hct started to rise and the patient was discharged 4 days later with Hgb: 6.4 g/dl, and no symptoms of anemia.

Conclusion
Our case study is important in two ways: Firstly, it raises awareness of the severity of a cold autoantibody, i.e. anti-IH, with a wide thermal amplitude. Specifically, in this case, our attempt to provide phenotypically similar RBCs resulted in the destruction of all the type O donor cells as well as some of the B donor cells. Secondly, even with Hgb counts as low as 3.7, treating the patient and not the number proved to be better clinical practice. In conclusion, a good monitoring protocol for sickle cell patients is required to transfuse less and avoid serious complications.