Identifying new small proteins through a molecular biology course-based undergraduate research experience laboratory class

We developed a curriculum for an upper-level molecular biology course-based undergraduate research laboratory class funded by a National Science Foundation CAREER grant that focuses on identifying new small proteins in the bacterium, Escherichia coli. Our CURE class has been continually offered each semester for the last 10 years, with multiple instructors collaboratively developing and implementing their own pedagogical approach while maintaining the same overall scientific goal and experimental strategy. In this paper, we delineate the experimental strategy for our molecular biology CURE laboratory class, describe a range of pedagogical approaches implemented by multiple instructors, and provide recommendations for teaching the class. The purpose of our paper is to share our experiences both in developing and teaching a molecular biology CURE laboratory class based on small protein identification and in creating a curriculum and support system that allows traditional, non-traditional, and under-represented students to participate in authentic research projects.

Effects of whole-body vibration on reproductive physiology in a rat model of whole-body vibration

Findings from epidemiological studies suggest that occupational exposure to whole-body vibration (WBV) may increase the risk of miscarriage and contribute to a reduction in fertility rates in both men and women. However, workers exposed to WBV may also be exposed to other risk factors that contribute to reproductive dysfunction. The goal of this experiment was to examine the effects of WBV on reproductive physiology in a rat model. Male and female rats were exposed to WBV at the resonant frequency of the torso (31.5 Hz, 0.3 g amplitude) for 4 hr/day for 10 days. WBV exposure resulted in a significant reduction in number of developing follicles, and decrease in circulating estradiol concentrations, ovarian luteinizing hormone receptor protein levels, and marked changes in transcript levels for several factors involved in follicular development, cell cycle, and steroidogenesis. In males, WBV resulted in a significant reduction in spermatids and circulating prolactin levels, elevation in number of males having higher circulating testosterone concentrations, and marked alterations in levels of transcripts associated with oxidative stress, inflammation, and factors involved in regulating the cell cycle. Based upon these findings data indicate that occupational exposure to WBV contributes to adverse alterations in reproductive physiology in both genders that may lead to reduction in fertility.

Qualitative evaluation of paediatric surgical otolaryngology content on YouTube

OBJECTIVE

This study evaluated the quality of YouTube content focusing on common paediatric otolaryngology procedures, as this content can influence the opinions and medical decisions of patients.

METHODS

A total of 120 YouTube videos were compiled to review using the terms 'adenoid removal', 'adenoidectomy', 'ear tubes', 'tympanostomy', 'tonsil removal' and 'tonsillectomy'. The Discern criteria was used to rate the quality of health information presented in each video.

RESULTS

The mean bias Discern score was 3.18 and the mean overall Discern score was 2.39. Videos including US board certified physicians were rated significantly higher (p < 0.001) than videos without (bias Discern score = 3.00 vs 2.38; overall Discern score = 3.79 vs 1.55). The videos had been viewed a total of 176 769 549 times.

CONCLUSION

Unbiased, high quality videos on YouTube are lacking. As patients may rely on this information when making medical decisions, it is important that practitioners continually evaluate and improve this video content. Otolaryngologists should be prepared to discuss YouTube content with patients.

Mitochondrial respiratory chain function and content are preserved in the skeletal muscle of active very old men and women

Introduction

The loss of mitochondrial function and content have been implicated in sarcopenia although they have been little studied in the very old, the group in which sarcopenia is most common. In this pilot study, our aim was to determine if mitochondrial respiratory chain function and content are preserved among healthy 85-year-olds.

Methods

We recruited 19 participants (11 female) through their general practitioner and assessed their medical history, functional status and self-reported physical activity. We identified sarcopenia using grip strength, Timed Up-and-Go and bioimpedance analysis. We assessed mitochondrial respiratory chain function using phosphorous magnetic resonance spectroscopy, estimating τ_1/2 PCr, the recovery half-time of phosphocreatine in the calf muscles following a bout of aerobic exercise. We performed a biopsy of the vastus lateralis muscle and assessed mitochondrial respiratory chain content by measuring levels of subunits of complex I and IV of the respiratory chain, expressed as Z-scores relative to that in young controls.

Results

Participants had a median (IQR) of 2 (1,3) long-term conditions, reported regular aerobic physical activity, and one participant (5.3%) had sarcopenia. Sixteen participants completed the magnetic resonance protocol and the mean (SD) τ_1/2 PCr of 35.6 (11.3) seconds was in keeping with preserved mitochondrial function. Seven participants underwent muscle biopsy and the mean fibre Z-scores were −0.7 (0.7) and −0.2 (0.4) for complexes I and IV, respectively, suggesting preserved content of mitochondrial respiratory chain enzymes.

Conclusion

Muscle mitochondrial respiratory chain function and content are preserved in a sample of active, well-functioning 85-year-olds, among whom sarcopenia was uncommon. The results from this study will help inform future work examining the association between muscle mitochondrial deficiency and sarcopenia.

The effects of feed force on rivet bucking bar vibrations

Percussive riveting is the primary process for attaching the outer sheet metal "skins" of an aircraft to its airframe. Workers using manually-operated riveting tools (riveting hammers and rivet bucking bars) are exposed to significant levels of hand-transmitted vibration (HTV) and are at risk of developing components of hand-arm vibration syndrome (HAVS). To protect workers, employers can assess and select riveting tools that produce reduced HTV exposures. Researchers at the National Institute for Occupational Safety & Health (NIOSH) have developed a laboratory-based apparatus and methodology to evaluate the vibrations of rivet bucking bars. Using this simulated riveting approach, this study investigated the effects of feed force on the vibrations of several typical rivet bucking bars and that transmitted to the bucking bar operator's wrist. Five bucking bar models were assessed under three levels of feed force. The study results demonstrate that the feed force can be a major influencing factor on bucking bar vibrations. Similar feed force effects were observed at the bucking bar operator's wrist. This study also shows that different bucking bar designs will respond differently to variations in feed force. Some bucking bar designs may offer reduced vibration exposures to the bar operator's fingers while providing little attenuation of wrist acceleration. Knowledge of how rivet bucking bar models respond to riveting hammer vibrations can be important for making informed bucking bar selections. The study results indicate that, to help in the appropriate selection of bucking bars, candidate bar models should be evaluated at multiple feed force levels. The results also indicate that the bucking bar model, feed force level, or the bucking bar operator have no meaningful effects on the vibration excitation (riveting hammer), which further suggests that the test apparatus proposed by NIOSH researchers meets the basic requirements for a stable vibration source in laboratory-based bucking bar vibration assessments. This study provides relevant information that can be used to help develop a standardized laboratory-based bucking bar evaluation methodology and to help in the selection of appropriate bucking bars for various workplace riveting applications.

RELEVANCE TO INDUSTRY

Because the feed force level can affect HTV exposures to bucking bar operators, the feed force required for specific riveting operations should be an important consideration when selecting bucking bar models. This study provides useful information about bucking bar responses to riveting hammer vibrations; this knowledge can improve bucking bar selections.

Population-based cohort study of variation in the use of emergency cholecystectomy for benign gallbladder diseases

Background

The aims of this prospective population-based cohort study were to identify the patient and hospital characteristics associated with emergency cholecystectomy, and the influences of these in determining variations between hospitals.

Methods

Data were collected for consecutive patients undergoing cholecystectomy in acute UK and Irish hospitals between 1 March and 1 May 2014. Potential explanatory variables influencing the performance of emergency cholecystectomy were analysed by means of multilevel, multivariable logistic regression modelling using a two-level hierarchical structure with patients (level 1) nested within hospitals (level 2).

Results

Data were collected on 4744 cholecystectomies from 165 hospitals. Increasing age, lower ASA fitness grade, biliary colic, the need for further imaging (magnetic retrograde cholangiopancreatography), endoscopic interventions (endoscopic retrograde cholangiopancreatography) and admission to a non-biliary centre significantly reduced the likelihood of an emergency cholecystectomy being performed. The multilevel model was used to calculate the probability of receiving an emergency cholecystectomy for a woman aged 40 years or over with an ASA grade of I or II and a BMI of at least 25·0 kg/m2, who presented with acute cholecystitis with an ultrasound scan showing a thick-walled gallbladder and a normal common bile duct. The mean predicted probability of receiving an emergency cholecystectomy was 0·52 (95 per cent c.i. 0·45 to 0·57). The predicted probabilities ranged from 0·02 to 0·95 across the 165 hospitals, demonstrating significant variation between hospitals.

Conclusion

Patients with similar characteristics presenting to different hospitals with acute gallbladder pathology do not receive comparable care.

Sub-Femto-g Free Fall for Space-Based Gravitational Wave Observatories: LISA Pathfinder Results

We report the first results of the LISA Pathfinder in-flight experiment. The results demonstrate that two free-falling reference test masses, such as those needed for a space-based gravitational wave observatory like LISA, can be put in free fall with a relative acceleration noise with a square root of the power spectral density of 5.2±0.1  fm s^{-2}/sqrt[Hz], or (0.54±0.01)×10^{-15}  g/sqrt[Hz], with g the standard gravity, for frequencies between 0.7 and 20 mHz. This value is lower than the LISA Pathfinder requirement by more than a factor 5 and within a factor 1.25 of the requirement for the LISA mission, and is compatible with Brownian noise from viscous damping due to the residual gas surrounding the test masses. Above 60 mHz the acceleration noise is dominated by interferometer displacement readout noise at a level of (34.8±0.3)  fm/sqrt[Hz], about 2 orders of magnitude better than requirements. At f≤0.5  mHz we observe a low-frequency tail that stays below 12  fm s^{-2}/sqrt[Hz] down to 0.1 mHz. This performance would allow for a space-based gravitational wave observatory with a sensitivity close to what was originally foreseen for LISA.

Antivibration gloves: effects on vascular and sensorineural function, an animal model

Anti-vibration gloves have been used to block the transmission of vibration from powered hand tools to the user, and to protect users from the negative health consequences associated with exposure to vibration. However, there are conflicting reports as to the efficacy of gloves in protecting workers. The goal of this study was to use a characterized animal model of vibration-induced peripheral vascular and nerve injury to determine whether antivibration materials reduced or inhibited the effects of vibration on these physiological symptoms. Rats were exposed to 4 h of tail vibration at 125 Hz with an acceleration 49 m/s(2). The platform was either bare or covered with antivibrating glove material. Rats were tested for tactile sensitivity to applied pressure before and after vibration exposure. One day following the exposure, ventral tail arteries were assessed for sensitivity to vasodilating and vasoconstricting factors and nerves were examined histologically for early indicators of edema and inflammation. Ventral tail artery responses to an α2C-adrenoreceptor agonist were enhanced in arteries from vibration-exposed rats compared to controls, regardless of whether antivibration materials were used or not. Rats exposed to vibration were also less sensitive to pressure after exposure. These findings are consistent with experimental findings in humans suggesting that antivibration gloves may not provide protection against the adverse health consequences of vibration exposure in all conditions. Additional studies need to be done examining newer antivibration materials.

Splenic laceration with a twist: a lesson learnt from gastric volvulus

Acute gastric volvulus is an uncommon entity that requires prompt diagnosis and management to prevent potential life threatening complications. We present a rare case of splenic laceration secondary to acute gastric volvulus.

Integrating quality postnatal care into PMTCT in Swaziland

Swaziland's prevention of mother-to-child transmission (PMTCT) programme is linked to maternal and newborn health (MNH) services, but is mainly focussed on HIV/AIDS. Existing MNH services are inadequate, especially postnatal care (PNC) of mothers and babies, with delayed postnatal visits occurring at 4-6 weeks after delivery. Fifty-seven percent of staff in seven Swazi health facilities were trained in promoting and providing early PNC. A final evaluation showed a 20-fold increase in the number of visits coming for an early postnatal visit (within the first three days after birth). A direct observation of the client-provider interaction showed a significant increase in the competence of the health workers related to postnatal examinations, and care of mothers and babies (p<0.05- < 0.01). The percentage of women breastfeeding within one hour of delivery increased by 41% in HIV-positive mothers and 52% in HIV-negative mothers. Cotrimoxazole prophylaxis for HIV-exposed infants increased by 24%. Although, health workers were observed providing counselling, maternal recall of messages was deficient, suggesting the need for additional strategies for promoting healthy behaviours. High-quality integrated PMTCT programmes and MNH postnatal services are feasible and acceptable, and can result in promoting early postnatal visits and improved care of both HIV-positive and HIV-negative mothers and their babies.

An evaluation of impact wrench vibration emissions and test methods

In the interest of providing more effective evaluations of impact wrench vibration exposures and the development of improved methods for measuring vibration emissions produced by these tools, this study focused on three variables: acceleration measured at the tool surface, vibration exposure duration per test trial, and the amount of torque required to unseat the nuts following a test trial. For this evaluation, six experienced male impact wrench operators used three samples each of five impact wrench models (four pneumatic models and one battery-powered model) in a simulated work task. The test setup and procedures were based on those provided by an International Organization for Standardization (ISO) Technical Committee overseeing the revision of ISO 8662-7. The work task involved the seating of 10 nuts onto 10 bolts mounted on steel plates. The results indicate that acceleration magnitudes vary not only by tool type but also by individual tools within a type. Thus, evaluators are cautioned against drawing conclusions based on small numbers of tools and/or tool operators. Appropriate sample sizes are suggested. It was further noted that evaluators could draw different conclusions if tool assessments are based on ISO-weighted acceleration as opposed to unweighted acceleration. As expected, vibration exposure durations varied by tool type and by test subject; duration means varied more for study participants than they did for tool types. For the 12 pneumatic tools evaluated in this study, torque varied directly with tool handle acceleration. Therefore, in order to reduce vibration exposure, tools should be selected and adjusted so that they produce no more than the needed torque for the task at hand.

Converting case managers from MD/service to unit-based assignments: a before and after comparison

An ongoing dilemma in acute care case management is whether to assign case managers to a unit or MD/Service-based assignment. There are strong logical arguments to be made on both sides of the decision. There are also strong political reasons why organizations opt for one or the other. This article describes one hospital's rationale and experience in converting from care manager assignments made on the basis of partnering with the MDs/Service, to serving both the point of care nursing unit and the physicians. Of note, the unit-based assignment structure has (1) saved 90 min a day in each care manager's time; (2) allowed care managers to help nursing better plan, pace, and trace care; (3) helped the hospital accommodate a 9% increase in admissions with an additional 140 more referrals to the Transitional Care Unit; and (4) ensured the consistent management of the observation level of care.

Vibration energy absorption (VEA) in human fingers-hand-arm system

A methodology for measuring the vibration energy absorbed into the fingers and the palm exposed to vibration is proposed to study the distribution of the vibration energy absorption (VEA) in the fingers-hand-arm system and to explore its potential association with vibration-induced white finger (VWF). The study involved 12 adult male subjects, constant-velocity sinusoidal excitations at 10 different discrete frequencies in the range of 16-1000 Hz, and four different hand-handle coupling conditions (finger pull-only, hand grip-only, palm push-only, and combined grip and push). The results of the study suggest that the VEA into the fingers is considerably less than that into the palm at low frequencies (< or = 25 Hz). They are, however, comparable under the excitations in the 250-1000 Hz frequency range. The finger VEA at high frequencies (> or = 100 Hz) is practically independent of the hand-handle coupling condition. The coupling conditions affect the VEA into the fingers and the palm very differently. The finger VEA results suggest that the ISO standardized frequency weighting (ISO 5349-1, 2001) may underestimate the effect of high frequency vibration on vibration-induced finger disorders. The proposed method may provide new opportunities to examine VEA and its association with VWF and other types of vibration-induced disorders in the hand-arm system.

Ascaridole-less infusions of Chenopodium ambrosioides contain a nematocide(s) that is(are) not toxic to mammalian smooth muscle

Infusions of Chenopodium ambrosioides (L.) have been used for centuries in the Americas as a popular remedy against intestinal worm infections. The essential oil of Chenopodium ambrosioides contains high levels of ascaridole, which is a potent anthelmintic, but which has also been responsible for human fatalities, leading to its disuse. Almost 90% of the nematocidal activity of Chenopodium ambrosioides infusions was due to a hydrophilic component different from ascaridole. Synthetic ascaridole and the ascaridole from infusions, extracted into hexane, caused a reduction of carbachol-induced contractions in rat gastrointestinal smooth muscle at concentrations required to kill Caenorhabditis elegans (L.). The herbal infusion and the ascaridole-free hexane-extracted aqueous residue of the above infusion, at nematocidal concentrations, had no detectable effect on smooth muscle contraction in the above system. It would appear that the traditional form of usage of Chenopodium ambrosioides infusions as a vermifuge is safer than the use of the herb's essential oil.

Identification of recurrent regions of chromosome loss and gain in vestibular schwannomas using comparative genomic hybridisation

BACKGROUND

Schwannomas are benign tumours of the nervous system that are usually sporadic but also occur in the inherited disorder neurofibromatosis type 2 (NF2). The NF2 gene is a tumour suppressor on chromosome 22. Loss of expression of the NF2 protein product, merlin, is universal in both sporadic and NF2 related schwannomas. The GTPase signalling molecules RhoA and Rac1 regulate merlin function, but to date only mutation in the NF2 gene has been identified as a causal event in schwannoma formation.

METHODS

Comparative genomic hybridisation (CGH) was used to screen 76 vestibular schwannomas from 76 patients (66 sporadic and 10 NF2 related) to identify other chromosome regions that may harbour genes involved in the tumorigenesis.

RESULTS

The most common change was loss on chromosome 22, which was more frequent in sporadic than in NF2 related tumours. Importantly, eight tumours (10%) showed gain of copy number on chromosome 9q34. Each of the two NF2 patients who had received stereotactic radiotherapy had non-chromosome 22 changes, whereas only one of eight non-irradiated NF2 patients had any chromosome changes. Three tumours had gain on 17q, which has also been reported in malignant peripheral nerve sheath tumours that are associated with neurofibromatosis type 1. Other sites that were identified in three or fewer tumours were regions on chromosomes 10, 11, 13, 16, 19, 20, X, and Y.

CONCLUSIONS

These findings should be verified using techniques that can detect smaller genetic changes, such as microarray-CGH.

An Evaluation of the Standardized Chipping Hammer Test Specified in ISO 8662-2

OBJECTIVES

Prolonged exposure to severe chipping hammer vibration may cause hand-arm vibration syndrome. A reliable test method is required to select appropriate tools and assist in the development of better chipping hammers. In the present study, the ISO standardized test method (ISO 8662-2, 1992) was examined through an investigation of the vibration characteristics of chipping hammers operating on the energy absorber specified in the standard.

METHODS

The energy absorber and test setup were designed and constructed based on those specified in the standard. The experiment employed six subjects and used two pneumatic chipping hammers and three different feed forces (50, 100 and 200 N). The subject posture was the same as that specified in the standard.

RESULTS

The vibration emission at the tool dominant frequency (or air blow rate) generally declined with an increase in feed force, thus decreasing the frequency-weighted accelerations. The increase in feed force, however, resulted in an increase in the unweighted vibration emission at high frequencies. The chipping hammer vibration emission operating on the energy absorber at the high feed force (200 N) was inconsistent.

CONCLUSIONS

The measurement method has a good repeatability except at a high feed force. The feed force has a significant effect on the vibration emission. The single feed force specified in the standard may not be sufficient to test the tool behaviors. Multiple levels of feed force should be used for the chipping hammer test. Doing so may provide a more appropriate basis for tool screening.

Comparative evaluation of the VITEK 2 Advanced Expert System (AES) in five UK hospitals

OBJECTIVES

We carried out an evaluation of VITEK 2 in five UK laboratories, comparing results with 'gold standard' agar-dilution MIC data, assessing its ability to recognize resistant phenotypes and comparing results with those generated by routine antimicrobial susceptibility testing methods.

METHODS

Laboratories tested a collection of 82 strains selected on the basis of their challenging and characterized resistance mechanisms.

RESULTS

In comparison with the reference MIC method, VITEK 2 gave an essential agreement of 304/315 (enterococci), 1619/1674 (staphylococci) and 2937/3074 (Gram-negative bacilli): overall 96.0% agreement. Corresponding category (SIR) agreements with VITEK 2 were 247/252, 1496/1561 and 2478/2626 (overall 95.1%). Using five routine methodologies, category agreements ranged from 58/63 to 45/45; 222/232 to 174/174, and 333/372 to 250/259 for the three organism groups with an overall agreement of 95.0%. In contrast to VITEK 2 Advanced Expert System (AES), routine microbiology laboratories did not attempt to detect resistance mechanisms for every antibiotic studied. VITEK 2 AES detected all 19 resistance mechanisms in enterococci: where applicable, routine methods detected 14, 10 and 10. Of 30 resistance mechanisms in staphylococci, VITEK 2 AES detected 25 compared with 23, 20, 17 and 18 detected by routine methods. Finally, of 44 resistance mechanisms in Gram-negative bacilli, VITEK 2 AES detected 30 compared with 30, 23, 15 and 10 detected by routine methods.

CONCLUSIONS

VITEK 2 performed susceptibility tests accurately and the AES detected and interpreted resistance mechanisms appropriately. Heavy inocula in a liquid medium possibly favour better expression of certain resistance determinants. Although certain routine microbiology methods performed adequately, VITEK 2 AES offers a rapid, standardized method suited to laboratories lacking experience of resistance mechanisms and/or those not testing an appropriate number, or range, of antibiotics to detect resistance phenotypes.

Chromosomal radiosensitivity in young cancer patients: possible evidence of genetic predisposition

PURPOSE

To investigate the G2 chromosomal radiosensitivity of patients with cancers diagnosed when the patients are less than 20 years of age. Earlier studies demonstrated an enhanced sensitivity in substantial proportions of patients with breast or colorectal cancer, and in early onset head and neck cancer cases. Heritability of chromosomal radiosensitivity in families of breast cancer patients was also demonstrated. It is suggested that elevated sensitivity in this assay could be a marker of genetic predisposition to cancer, mediated through inherited genetic determinants of low penetrance.

MATERIALS AND METHODS

Stimulated lymphocytes were exposed to 0.5 Gy X-rays in the G2-phase of the cell cycle and chromatid aberrations were scored in metaphase cells.

RESULTS

The assay was performed on 32 patients with early onset cancers (aged 0.5-19 years) of various types and their sensitivity was compared with that of 41 young normal controls (0.25-19 years) and 32 adult normals (20-60 years). The proportion of cases showing enhanced sensitivity in the three groups was 44, 15 and 10%, respectively. The difference between the young patients and normals was highly significant (p = 0.004).

CONCLUSIONS

The results suggest the possibility that a substantial proportion of early onset cancers are associated with the inheritance of predisposing genes of low penetrance. However, support for this hypothesis requires that the heritability of chromosomal radiosensitivity be demonstrated in family members. In addition, a larger study is now required to investigate the chromosomal radiosensitivity of specific early onset cancers.

Establishing community partnerships: providing better oral health care to underserved children

A community partnership between a dental hygiene school and a social service program was designed to improve oral health outcomes and reduce disparities among children. This resulted in a preventive oral hygiene care project that complimented the dental hygiene program's didactic curriculum. The children received much needed oral health care and education, while the experiences enhanced dental hygiene student learning by applying the principles for planning, implementing, and evaluating dental health programs; establishing a context for understanding the prevalence of oral disease as well the disparity among population subsets; and developing a variety of clinical skills. Oral health professionals and dental hygiene programs may find this partnership a prototype of a highly productive and beneficial community health experience that could be incorporated, in part or in it's entirety, into their own community health projects.

Skin test reactions to Mycobacterium tuberculosis purified protein derivative and Mycobacterium avium sensitin among health care workers and medical students in the United States

SETTING

Health care workers and medical students in the United States subject to annual tuberculin skin testing.

OBJECTIVE

To use skin testing with Mycobacterium avium sensitin (MAS) to determine contemporary rates of infection with non-tuberculous mycobacteria (NTM) and their effect on reactions to M. tuberculosis purified protein derivative (PPD).

DESIGN

Dual skin testing was performed with PPD and MAS on 784 health care workers and medical students in the northern and southern US. MAS reactions that were > or = 5 mm and also > or = 3 mm larger than the PPD reaction were defined as MAS dominant and due to NTM.

RESULTS

MAS reactions were > or = 5 mm in 40% and > or = 15 mm in 18% of subjects; 95% were MAS dominant. MAS dominant reactions were more common in the south than the north (P < 0.001). PPD reactions were > or = 15 mm in 3% of subjects. PPD reactions > or = 15 mm were more common among males, foreign born subjects and subjects with BCG immunization (all P < 0.001). MAS dominant reactions were found in 82% of subjects with 5-9 mm PPD reactions and 50% with 10-14 mm PPD reactions; these reactions were more common among whites (P = 0.046), US-born (P = 0.038) and subjects without BCG immunization (P = 0.004).

CONCLUSIONS

Infections with NTM are responsible for the majority of 5-14 mm PPD reactions among US-born health care workers and medical students subject to annual tuberculin testing.