The genetic architecture underlying the evolution of a rare piscivorous life history form in brown trout after secondary contact and strong introgression

Identifying the genetic basis underlying phenotypic divergence and reproductive isolation is a longstanding problem in evolutionary biology. Genetic signals of adaptation and reproductive isolation are often confounded by a wide range of factors, such as variation in demographic history or genomic features. Brown trout ( ) in the Loch Maree catchment, Scotland, exhibit reproductively isolated divergent life history morphs, including a rare piscivorous (ferox) life history form displaying larger body size, greater longevity and delayed maturation compared to sympatric benthivorous brown trout. Using a dataset of 16,066 SNPs, we analyzed the evolutionary history and genetic architecture underlying this divergence. We found that ferox trout and benthivorous brown trout most likely evolved after recent secondary contact of two distinct glacial lineages, and identified 33 genomic outlier windows across the genome, of which several have most likely formed through selection. We further identified twelve candidate genes and biological pathways related to growth, development and immune response potentially underpinning the observed phenotypic differences. The identification of clear genomic signals divergent between life history phenotypes and potentially linked to reproductive isolation, through size assortative mating, as well as the identification of the underlying demographic history, highlights the power of genomic studies of young species pairs for understanding the factors shaping genetic differentiation

Morphological Changes Accompanying the Transition from Juvenile (Atmospheric) to Adult (Tank) Forms in the Mexican Epiphyte Tillandsia Deppeana (Bromeliaceae)

This is the publisher's official version, also available at: http://www.jstor.org/stable/10.2307/2443800.Two distinct morphological forms characterize the ontogenetic development of the epiphytic bromcliad Tillandsia deppeana. Juveniles are characterized by a non-impounding rosette of small, linear leaves covered with elaborate trichomes possessing a 4 + 8 + 16 + 64 shield cell pattern. The broader transitional leaves, which form an impounding rosette prior to the initiation of true adult leaves, also possess trichomes with the 4 + 8 + 16 + 64 cell pattern. Adult individuals have large, broad leaves with overlapping, sheathing bases which impound water and debris. These leaves have trichomes with shields exhibiting a 4 + 8 + 32 cell pattern. Trichome density is fairly uniform in the juvenile leaves with trichomes covering 100% of leaf surfaces, whereas in the adult leaves density is high at the base and diminishes significantly toward the apex. Stomatal density of both juvenile and adult leaves increases from the base to the apex, although this is most pronounced in the adults. Stomata in the adults are also arranged in longitudinal series parallel and abaxial to parallel rows of mesophyll tissue. The results of this study indicate that juveniles of 7". deppeana are more similar morphologically to adult atmospheric-type tillandsioid species than to the tank-forming adults into which they eventually develop

Exploring Pathways from Data to Knowledge to Insights in the Pharmaceutical Industry: ‘Introducing the Pharmaceutical Knowledge Ecosystem’

The ecosystem of how the pharmaceutical industry acquires data, transforms these data into tangible knowledge, and derives valuable insights throughout the process, is highly complex. Data, information, knowledge, and the resulting insights, are necessary to support decision- making, manage risk, problem solve, ensure product realisation, enable continual improvement, and enhance operational effectiveness. Building on the fundamental concepts established in the well-known Data Information Knowledge Wisdom (DIKW) hierarchy, this paper reviews the basic concepts involved in the DIKW pathway and begins to relate these concepts to both established capabilities (e.g., PAT), existing requirements (e.g., data integrity), and emerging trends in the industry (e.g., industry 4.0). This paper introduces additional research studies which the Pharmaceutical Regulatory Science Team (PRST) is considering, regarding how one might apply systems thinking concepts to develop a framework which will enable key stakeholders (Industry, Regulatory and Academia) to better relate the many elements of this ecosystem. The paper concludes by identifying preliminary foundational principles which could form the basis of such a framework, coined by the authors as ‘The pharmaceutical knowledge ecosystem’, and makes the case for further exploration of this concept

Far-infrared vibrational properties of linear C60 polymers: A comparison between neutral and charged materials

We report the far-infrared transmittance spectrum of a pure phase of the orthorhombic high-temperature and high-pressure C-60 polymer and compare the results with a previously published spectrum of the charged RbC60 orthorhombic polymer. Assignments for both spectra are made with the aid of first-principles quantum molecular dynamics simulations of the two materials. We find that the striking spectral differences between the neutral and charged linear fullerene polymers can be fully accounted for by charge effects on the C-60 ball

A comparative evaluation of interactive segmentation algorithms

In this paper we present a comparative evaluation of four popular interactive segmentation algorithms. The evaluation was carried out as a series of user-experiments, in which participants were tasked with extracting 100 objects from a common dataset: 25 with each algorithm, constrained within a time limit of 2 min for each object. To facilitate the experiments, a “scribble-driven” segmentation tool was developed to enable interactive image segmentation by simply marking areas of foreground and background with the mouse. As the participants refined and improved their respective segmentations, the corresponding updated segmentation mask was stored along with the elapsed time. We then collected and evaluated each recorded mask against a manually segmented ground truth, thus allowing us to gauge segmentation accuracy over time. Two benchmarks were used for the evaluation: the well-known Jaccard index for measuring object accuracy, and a new fuzzy metric, proposed in this paper, designed for measuring boundary accuracy. Analysis of the experimental results demonstrates the effectiveness of the suggested measures and provides valuable insights into the performance and characteristics of the evaluated algorithms

The Feasibility of the Use of Video Capture, Feedback Process in the Obstetrics and Gynecology Residents

The Feasibility of the use of Video Capture, Feedback Process in the Obstetrics and Gynecology Residents Sean Adams Martin A. Martino, MD; Joseph E. Patruno, MD; Timothy M. Pellini, MD Abstract Educating a resident and proving that he is capable of consistently performing a procedure is a difficult task. This is vastly important for the patients safety. One of the key parts of becoming a quality surgeon is technical skill. To assess the technical skills of the obstetrics and gynecology residents, myself and four other students performed a video capture, feedback process using a product called SimCapture. This process involved us video recording four different types of surgeries performed by residents. After each case, the resident and attending participated in a feedback process to review the strengths and weaknesses of the resident for that particular case. The feasibility of the process is very significant in helping determine if this method is effective and if it should be used in the future. Often times, we planned on recording a case for our data in which something went wrong such as a resident who didn’t operate at all or a change in the operating room (OR) schedule we were not made aware of. This caused us to miss quite a few cases that we planned on recording. Nurses, attendings, and residents were slightly skeptical about our study initially, but over time they became more comfortable with us recording the surgeries. The consistent issues and obstacles forced us to be very proactive and flexible. Ultimately, we were successful in collecting the research we wanted. Background Becoming an expert surgeon is a long and difficult process including many years of medical school and residency. This calls for thousands of hours of learning information, practicing on simulators, and performing surgeries with an attending surgeon. It is important that the attending surgeon mentors and assists the resident(1). The education of these residents must be maximized for the purpose of patient safety. While there are many factors in determining a surgeons abilities, technical skill is the most related to the outcome of the patient (2). Evaluating the technical skill of residents is an especially challenging subject. An educational program called FLS (The Fundamentals of Laproscopic Surgery) was developed to improve the knowledge and technical skills of residents (3). A study done by three Washington D.C hospitals compared the FLS examination scores of residents to their objective OR skill evaluations (3). The results showed a clear relationship as residents with higher FLS scores also received better evaluations in the OR (3). The FLS test includes a written section to express knowledge of laproscopic surgery as well as skills tests on box trainers (3). Another way to evaluate the technical skill of surgeons is through video analysis. A study done by the Michigan Bariatric Surgery Collaborative (MBSC) had 20 surgeons submit a video of themselves performing a laproscopic gastric bypass (2). The skills of these surgeons were then evaluated by blinded surgeons and rated on a 1 to 5 scale. These scores were then compared to the outcomes of surgeries done by the same 20 surgeons on around 10,000 patients (2). The results showed that the top quartile of scores were related to lower complication rates (2). The bottom quartile were related to higher complication rates (2). The use of videotape assessment is a very effective way for residency programs to improve the technical skill of residents through feedback. It is also a way to determine whether or not their residents are competent performing certain surgical procedures. If hospitals are considering a form of video taping and feedback process, it is important that they know the feasibility of the process. How accepting were the residents and attending surgeons to the process? Were participating in the debriefing after? Was the process overcrowding the OR? Was it difficult to record the cases? A type of video recording technology called SimCapture was purchased by the Lehigh Valley Hospital for the purpose of recording residents. The technology includes a software programmed into a laptop computer that then allows you to record surgeries from a webcam. The data recorded on the webcam and through connection to the endoscopic tower is then stored on the software for further analysis. Purpose The purpose of my project is to determine the feasibility of a video capture, feedback process that will be used to improve and calculate the technical skill of obstetrics and gynecology residents at the Lehigh Valley Hospital. The video capture, feedback process involves recording the surgeries performed by a number of different residents. The attending surgeons will provide feedback based on their real time analysis of the residents performance. The videotapes of each case will be sent out to blinded experts for analysis using the same evaluation forms that were completed by the attending surgeon and resident that were present at the case. In the future, the recorded surgeries could also be used to build a portfolio for each resident to show their competency performing certain procedures. My complete focus will be on determining the degree of how convenient a video capture, feedback process can be done. Methods For our data collection, we recorded the obstetrics and gynecology residents performing four different types of surgeries. These different surgeries included C section, Hysteroscopy, Robotic Hysterectomy, and Laparoscopic tubal ligation (BTL). Our exact methods for recording the surgeries varied slightly depending on the case. The residents varied in experience from first through fourth year. The fourth year residents would often do large portions of the cases while the less experienced residents did less. The night before the cases, we would look at the OR schedule and plan out the cases we were going to record the next day. A group of two scholars would show up about a half hour before the first surgery. At this time they would find the resident and attending for the case to introduce themselves, tell them about the project, and ask them to participate in a debrief session following the case. The scholars would then enter into the OR to set up the technology. The computer with the Sim Capture program is connected to the endoscopic tower using the appropriate adaptors. This allows us to get an internal view of the patient. A camera attached to an extension chord is mounted on top of an IV pole using a clamp and then angled toward the incision made on the patient. For C sections, there is no endoscopic tower used. For robotic hysterectomy cases, we record the resident’s hands when using the robot instead of the incisions. One scholar then logs into the SimCapture program and runs a new session. To run the session, they have to input information such as the resident number, name of scholar operating the system, and the type of surgery. Once everything is set up, both scholars leave the OR until the patient is all ready to be operated on. Upon re-entering the OR, the scholar working the laptop then starts recording once time out is called. Every time the resident stops or starts operating, an annotation is made in the video tape. The scholar who is not working the SimCapture program fills out the form which keeps track of each time the attending teaches the resident. That scholar also completes the feasibility form which notes if the resident, attending, and other staff were understanding of our study as well as any problems that occurred. Once the surgery is completed, recording is stopped and both scholars disassemble the equipment. After leaving the OR; both scholars, the resident, and the attending participate in a short debriefing session. In this debriefing session, the attending and resident each complete the appropriate OPRS and milestone forms. The resident then discusses what he thought he did well and also what could be improved. The attending follows up with his feedback. Once the debriefing is completed, the scholars then plug all the forms into the SimCapture program and discuss the case. Results Figure 1: Number of cases recorded for each procedure Procedure Number of cases recorded Hysteroscopy 11 Robotic Hysterectomy 8 C section 17 BTL 3 Total 39 Figure 2: Percentage of cases recorded Percentage of Cases Recorded Recorded Missed Total Percent Recorded 39 25 64 61% Figure 4: Summary of feasibility form Average time to set up equipment 5.7 min Average time to disassemble equipment 3.2 min Average time to debrief 3.6 min Percent of cases where debrief occurred 61% Percent of cases where resident was receptive to process 97% Percent of cases where attending was receptive to process 95% Percent of cases where OR staff was receptive to process 97% Conclusion / discussion After about six weeks of collecting data, we were able to record 39 cases as shown in figure 1. You can see in figure 2 that we did miss quite a few of the cases that we had planned on recording. Our 61% success rate had to do with the number of issues and obstacles that occurred throughout the process. Some of the obstacles included technology issues, resident not operating, changes in the OR schedule, surgeon preference, and patient preference. Figure 3 allows you to see the breakdown of how often certain issues occurred in the 25 cases we missed. As we became more comfortable with our video capture feedback process, the issues became less and less frequent. Some of the initial technology issues included delays in the camera feed, one camera not working at all, SimCaptu re not picking up the camera and tower feeds, and not having the correct adaptor to connect the program into the tower. We sorted out almost all of these issues in the first few weeks. Experience also allowed us to perform the process more efficiently, including setting up the equipment. Over time, we had developed a consistent system to record cases and stay out of the way of the staff. This allowed our process to gain acceptance by attendings, residents, and OR staff. After performing a number of cases, they became more comfortable with us recording the cases in the OR. Figure 4 shows a summary of the results for the feasibility forms we completed for each case. One of the other key difficulties of our process was getting the resident and attendings to participate in the debriefing after the case. This is shown by the fact that only 61% of the cases had debriefings. The attendings, residents, or both of them were often needed elsewhere and had little time after the cases.Throughout the 6 weeks, we were forced to make quite and few innovations and be flexible with our process. For example, we needed to purchase an adaptor that would allow us to connect the SimCapture program into the endoscopic tower. Often times, the nurses and OR staff got very nervous about all the wires that we were bringing into the OR. We often had to be innovative by attaching the camera to the IV pole to get a good angle and laying a mat over all the wires. Even with all these issues, we were able to record a very good amount of cases over the 6 week period. This shows that a video capture, feedback process using a system such as SimCapture can be very effective in evaluating the technical skills of residents. References Levy, B. (2012). Experience Counts. American College of Obstetricians and Gynecologists, 119(4), 693-694. Birkmeyer, J. (2013, October 10). Surgical Skill and Complication Rates after Bariatric Surgery. www.nejm.org. 3. Antosh, D. (2012, December 8). Blinded Assessment of Operative Performance After Fundamentals of Laparoscopic Surgery in Gynecology Training. www.jmig.org

Far-infrared vibrational properties of high-pressure-high-temperature C60 polymers and the C60 dimer

We report high-resolution far-infrared transmission measurements of the 2 + 2 cycloaddition C-60 dimer and two-dimensional rhombohedral and one-dimensional orthorhombic high-pressure high-temperature C60 polymers. In the spectral region investigated(20-650 cm(-1)), we see no low-energy interball modes, but symmetry breaking of the linked C-60 balls is evident in the complex spectrum of intramolecular modes. Experimental features suggest large splittings or frequency shifts of some IhC60-derived modes that are activated by symmetry reduction, implying that the balls are strongly distorted in these structures. We have calculated the vibrations of all three systems by first-principles quantum molecular dynamics and use them to assign the predominant IhC60 symmetries of observed modes. Pur calculations show unprecedentedly large downshifts of T-1u(2)-derived modes and extremely large splittings of other modes, both of which are consistent with the experimental spectra. For the rhombohedral and orthorhombic polymers, the T-1u(2)-derived mode that is polarized along the bonding direction is calculated to downshift below any T-1u(1)-derived modes. We also identify a previously unassigned feature near 610 cm(-1) in all three systems as a widely split or shifted mode derived from various silent IhC60 vibrations, confirming a strong perturbation model for these linked fullerene structures

Diffraction of complex molecules by structures made of light

We demonstrate that structures made of light can be used to coherently control the motion of complex molecules. In particular, we show diffraction of the fullerenes C60 and C70 at a thin grating based on a standing light wave. We prove experimentally that the principles of this effect, well known from atom optics, can be successfully extended to massive and large molecules which are internally in a thermodynamic mixed state and which do not exhibit narrow optical resonances. Our results will be important for the observation of quantum interference with even larger and more complex objects.Comment: 4 pages, 3 figure

On the Role of Higher Twist in Polarized Deep Inelastic Scattering

The higher twist corrections $h^N(x)/Q^2$ to the spin dependent proton and neutron structure functions $g_1^N(x, Q^2)$ are extracted in a model independent way from experimental data on $g_1^N$ and found to be non-negligible. It is shown that the NLO QCD polarized parton densities determined from the data on g1, including higher twist effects, are in good agreement with those found earlier from our analysis of the data on g1/F1 and A1 where higher twist effects are negligible. On the contrary, the LO QCD polarized parton densities obtained from the data on g1, including higher twist, differ significantly from our previous results.Comment: 18 pages, latex, 6 figures, final version which will be published in Phys. Rev. D, fig. 5 is changed, misprints in Table 2 are remove