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Martin S, Clark SE, Gerrand C, Gilchrist K, Lawal M, Maio L, Martins A, Storey L, Taylor RM, Wells M, Whelan JS, Windsor R, Woodford J, Vindrola-Padros C, Fern LA. Patients' Experiences of a Sarcoma Diagnosis: A Process Mapping Exercise of Diagnostic Pathways. Cancers (Basel) 2023; 15:3946. [PMID: 37568761 PMCID: PMC10417695 DOI: 10.3390/cancers15153946] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 07/26/2023] [Accepted: 07/30/2023] [Indexed: 08/13/2023] Open
Abstract
Patients with sarcoma often report prolonged time to diagnosis, which is attributed to the rarity of sarcoma and the low awareness of pre-diagnostic signs and symptoms. AIMS To describe patients' experiences of pre-diagnostic signs/symptoms and pathways to diagnosis, including where help was sought, and the processes involved. METHODS Mixed methods involving quantitative, qualitative and inductive thematic analyses using novel process mapping of patient journey data, as reported by the patients. We examined the time from symptom onset to first professional presentation (patient interval, PI), first consultation to diagnostic biopsy, first consultation to diagnosis (diagnostic interval) and first presentation to diagnosis (total interval). RESULTS A total of 87 interviews were conducted over 5 months in 2017. Of these, 78 (40 males/38 females) were included. The sarcoma subtypes were bone (n = 21), soft tissue (n = 41), head and neck (n = 9) and gastro-intestinal (GIST; n = 7). Age at diagnosis was 13-24 (n = 7), 25-39 (n = 23), 40-64 (n = 34) and 65+ (n = 14) years. The median PI was 13 days (1-4971) and similar between sarcoma subtypes, with the exception of GIST (mPI = 2 days, (1-60). The longest mPI (31 days, range 4-762) was for those aged 13-24 years. The median diagnostic interval was 87.5 (range 0-5474 days). A total of 21 patients were misdiagnosed prior to diagnosis and symptoms were commonly attributed to lifestyle factors. CONCLUSIONS Prolonged times to diagnosis were experienced by the majority of patients in our sample. Further research into the evolution of pre-diagnostic sarcoma symptoms is required to inform awareness interventions.
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Affiliation(s)
- Sam Martin
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London W1W 7TY, UK; (S.M.); (S.E.C.); (K.G.); (L.M.); (C.V.-P.)
| | - Sigrún Eyrúnardóttir Clark
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London W1W 7TY, UK; (S.M.); (S.E.C.); (K.G.); (L.M.); (C.V.-P.)
| | - Craig Gerrand
- Sarcoma Unit, The Royal National Orthopaedic Hospital, Stanmore HA7 4LP, UK; (C.G.); (J.W.)
| | - Katie Gilchrist
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London W1W 7TY, UK; (S.M.); (S.E.C.); (K.G.); (L.M.); (C.V.-P.)
| | - Maria Lawal
- Cancer Clinical Trials Unit, University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK
| | - Laura Maio
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London W1W 7TY, UK; (S.M.); (S.E.C.); (K.G.); (L.M.); (C.V.-P.)
| | - Ana Martins
- Cancer Clinical Trials Unit, University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK
| | - Lesley Storey
- Department of Psychology, Anglia Ruskin University, Cambridge CB1 1PT, UK;
| | - Rachel M. Taylor
- Centre for Nurse, Midwife and Allied Health Profession Research (CNMAR), University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK;
| | - Mary Wells
- Nursing Directorate, Imperial College Healthcare NHS Foundation Trust, London W2 1NY, UK;
| | - Jeremy S. Whelan
- Oncology Division, University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK
| | - Rachael Windsor
- Paediatric Directorate, University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK;
| | - Julie Woodford
- Sarcoma Unit, The Royal National Orthopaedic Hospital, Stanmore HA7 4LP, UK; (C.G.); (J.W.)
| | - Cecilia Vindrola-Padros
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London W1W 7TY, UK; (S.M.); (S.E.C.); (K.G.); (L.M.); (C.V.-P.)
| | - Lorna A. Fern
- Cancer Clinical Trials Unit, University College London Hospitals NHS Foundation Trust, London NW1 2PG, UK
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Deom N, Clark SE, Johnson GA, Vindrola-Padros C. Editorial: Rapid research in action: lessons from the field. Front Sociol 2023; 8:1216834. [PMID: 37408997 PMCID: PMC10319118 DOI: 10.3389/fsoc.2023.1216834] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Accepted: 06/06/2023] [Indexed: 07/07/2023]
Affiliation(s)
- Noémie Deom
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London, United Kingdom
| | | | | | - Cecilia Vindrola-Padros
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London, United Kingdom
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Clark SE, Chisnall G, Vindrola-Padros C. A systematic review of de-escalation strategies for redeployed staff and repurposed facilities in COVID-19 intensive care units (ICUs) during the pandemic. EClinicalMedicine 2022; 44:101286. [PMID: 35156007 PMCID: PMC8820730 DOI: 10.1016/j.eclinm.2022.101286] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Revised: 01/12/2022] [Accepted: 01/17/2022] [Indexed: 01/06/2023] Open
Abstract
BACKGROUND Intensive care units (ICUs) experienced a surge in patient cases during the COVID-19 pandemic. Demand was managed by redeploying healthcare workers (HCWs) and restructuring facilities. The rate of ICU admissions has subsided in many regions, with the redeployed workforce and facilities returning to usual functions. Previous literature has focused on the escalation of ICUs, limited research exists on de-escalation. This study aimed to identify the supportive and operational strategies used for the flexible de-escalation of ICUs in the context of COVID-19. METHODS The systematic review was developed by searching eight databases in April and November 2021. Papers discussing the return of redeployed staff and facilities and the training, wellbeing, and operational strategies were included. Excluded papers were non-English and unrelated to ICU de-escalation. Quality was assessed using the mixed methods appraisal tool (MMAT) and authority, accuracy, coverage, objectivity, date, and significance (AACODS) checklist, findings were developed using narrative synthesis and thematic analysis. FINDINGS Fifteen papers were included from six countries covering wellbeing and training themes encompassing; time off, psychological follow-up, gratitude, identification of training needs, missed training catch-up, and continuation of ICU and disaster management training. Operational themes included management of rotas, retainment of staff, division of ICU facilities, leadership changes, traffic light systems, and preparation for re-expansion. INTERPRETATION The review provided an overview of the landscape of de-escalation strategies that have taken place in six countries. Limited empirical evidence was available that evaluated the effectiveness of such strategies. Empirical and evaluative research from a larger array of countries is needed to be able to make global recommendations on ICU de-escalation practices.
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Vera San Juan N, Clark SE, Camilleri M, Jeans JP, Monkhouse A, Chisnall G, Vindrola-Padros C. Training and redeployment of healthcare workers to intensive care units (ICUs) during the COVID-19 pandemic: a systematic review. BMJ Open 2022; 12:e050038. [PMID: 34996785 PMCID: PMC8753114 DOI: 10.1136/bmjopen-2021-050038] [Citation(s) in RCA: 35] [Impact Index Per Article: 17.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Accepted: 12/09/2021] [Indexed: 12/11/2022] Open
Abstract
OBJECTIVES The rapid influx of patients with COVID-19 to intensive care at a rate that exceeds pre-existing staff capacity has required the rapid development of innovative redeployment and training strategies, which considered patient care and infection control. The aim of this study was to provide a detailed understanding of redeployment and training during the first year of the COVID-19 pandemic by capturing and considering the merit of the strategies enlisted and the experiences and needs of redeployed healthcare workers (HCWs). DESIGN The review involved a systematic search of key terms related to intensive care AND training AND redeployment AND healthcare workers within nine databases (Medline, CINAHL, PsychINFO, MedRxiv, Web of Science, The Health Management Consortium database, Social Science Research Network, OpenGrey and TRIP), which took place on 16 July 2021. Analysis consisted of a synthesis of quantitative study outputs and framework-based thematic analysis of qualitative study outputs and grey literature. These results were then combined applying an interpretative synthesis. We followed Preferred Reporting Items for Systematic Reviews and Meta-Analyses, and the review protocol was available online. RESULTS Forty papers were analysed. These took place primarily in the UK (n=15, 37.5%) and USA (n=17, 42.5%). Themes presented in the results are redeployment: implementation strategies and learning; redeployed HCWs' experience and strategies to address their needs; redeployed HCWs' learning needs; training formats offered and training evaluations; and future redeployment and training delivery. Based on this, key principles for successful redeployment and training were proposed. CONCLUSIONS The COVID-19 pandemic presents unique challenges to develop flexible redeployment strategies and deliver training promptly while following infection control recommendations. This review synthesises original approaches to tackle these challenges, which are relevant to inform the development of targeted and adaptative training and redeployment plans considering the needs of HCWs.
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Affiliation(s)
- Norha Vera San Juan
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London, UK
- Health Service and Population Research, King's College London Institute of Psychiatry Psychology and Neuroscience, London, UK
| | | | - Matthew Camilleri
- 33N Ltd, London, UK
- University Hospitals Birmingham NHS Foundation Trust, Birmingham, UK
| | - John Paul Jeans
- 33N Ltd, London, UK
- London North West University Healthcare NHS Trust, London, UK
| | - Alexandra Monkhouse
- 33N Ltd, London, UK
- Anaesthetics Department, St Bartholomew's Hospital, London, UK
| | - Georgia Chisnall
- Rapid Research Evaluation and Appraisal Lab (RREAL), University College London, London, UK
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Clark SE, Agrawal A, Laws S, Graja T, Sheehan LA, Laban C, Scutt F. The investigation and management of unilateral nipple discharge. Ann R Coll Surg Engl 2020; 102:369-374. [PMID: 32233847 DOI: 10.1308/rcsann.2020.0036] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
INTRODUCTION Between 16,000 and 48,000 women are estimated to present to UK breast clinics with nipple discharge each year. The incidence of malignancy in these women is 2.7-24.2%. Currently, there is no consensus on the best way to investigate and manage these women. The aim of this study was to assess the rate of malignancy in women presenting with unilateral nipple discharge, and to evaluate the role of examination, imaging and cytology in reliably predicting outcome. METHODS Breast units were asked to prospectively collect data on all new patients with unilateral nipple discharge. Data collected included discharge colour, whether it was uniductal or multiductal, examination and imaging findings, cytology results and outcome. RESULTS Complete datasets were submitted by 5 units on 228 patients. The incidence of malignancy was 4.4%. Clinical examination was valuable in detecting malignancy and multiductal discharge was not related to malignancy. The positive predictive value for detecting malignancy for an abnormality found on mammography was 53.5% and for ultrasonography, it was 65.2%. The role of cytology in detecting malignancy was inconclusive with positive predictive values of the presence of red blood cells and epithelial cells at 6.1% and 10.7% respectively. CONCLUSIONS A large number of women are investigated for nipple discharge (with huge resource implications) but there is little reliable evidence on the best way to investigate and manage these patients. A larger study is needed to evaluate the role of investigations in nipple discharge to produce guidelines on optimal management.
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Affiliation(s)
- S E Clark
- Poole Hospital NHS Foundation Trust, UK
| | | | - S Laws
- Hampshire Hospitals NHS Foundation Trust, UK
| | - T Graja
- Dorset County Hospital NHS Foundation Trust, UK
| | - L A Sheehan
- Dorset County Hospital NHS Foundation Trust, UK
| | - C Laban
- Royal United Hospitals Bath NHS Foundation Trust, UK
| | - F Scutt
- Portsmouth Hospitals NHS Trust, UK
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Clark SE, Hill JC, Peek JEG, Putman ME, Babler BL. Neutral Hydrogen Structures Trace Dust Polarization Angle: Implications for Cosmic Microwave Background Foregrounds. Phys Rev Lett 2015; 115:241302. [PMID: 26705622 DOI: 10.1103/physrevlett.115.241302] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2015] [Indexed: 06/05/2023]
Abstract
Using high-resolution data from the Galactic Arecibo L-Band Feed Array HI (GALFA-Hi) survey, we show that linear structure in Galactic neutral hydrogen (Hi) correlates with the magnetic field orientation implied by Planck 353 GHz polarized dust emission. The structure of the neutral interstellar medium is more tightly coupled to the magnetic field than previously known. At high Galactic latitudes, where the Planck data are noise dominated, the Hi data provide an independent constraint on the Galactic magnetic field orientation, and hence the local dust polarization angle. We detect strong cross-correlations between template maps constructed from estimates of dust intensity combined with either Hi-derived angles, starlight polarization angles, or Planck 353 GHz angles. The Hi data thus provide a new tool in the search for inflationary gravitational wave B-mode polarization in the cosmic microwave background, which is currently limited by dust foreground contamination.
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Affiliation(s)
- S E Clark
- Department of Astronomy, Columbia University, New York, 10027 New York, USA
| | - J Colin Hill
- Department of Astronomy, Columbia University, New York, 10027 New York, USA
| | - J E G Peek
- Space Telescope Science Institute, Baltimore, 21218 Maryland, USA
| | - M E Putman
- Department of Astronomy, Columbia University, New York, 10027 New York, USA
| | - B L Babler
- University of Wisconsin at Madison, Madison, 53706 Wisconsin, USA
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7
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Clark SE, Everson ET, Schaeffer DB, Bondarenko AS, Constantin CG, Niemann C, Winske D. Enhanced collisionless shock formation in a magnetized plasma containing a density gradient. Phys Rev E Stat Nonlin Soft Matter Phys 2014; 90:041101. [PMID: 25375430 DOI: 10.1103/physreve.90.041101] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2014] [Indexed: 06/04/2023]
Abstract
Two-dimensional hybrid simulations of super-Alfvénic expanding debris plasma interacting with an inhomogeneous ambient plasma are presented. The simulations demonstrate improved collisionless coupling of energy to the ambient ions when encountering a density gradient. Simulations of an expanding cylinder running into a step function gradient are performed and compared to a simple analytical theory. Magnetic flux probe data from a laboratory shock experiment are compared to a simulation with a more realistic debris expansion and ambient ion density. The simulation confirms that a shock is formed and propagates within the high density region of ambient plasma.
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Affiliation(s)
- S E Clark
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - E T Everson
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - D B Schaeffer
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - A S Bondarenko
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - C G Constantin
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - C Niemann
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA
| | - D Winske
- Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
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8
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Haddow JB, Adwan H, Clark SE, Tayeh S, Antonowicz SS, Jayia P, Chicken DW, Wiggins T, Davenport R, Kaptanis S, Fakhry M, Knowles CH, Elmetwally AS, Geddoa E, Nair MS, Naeem I, Adegbola S, Muirhead LJ. Use of the surgical Apgar score to guide postoperative care. Ann R Coll Surg Engl 2014; 96:352-8. [PMID: 24992418 PMCID: PMC4473931 DOI: 10.1308/003588414x13946184900840] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/25/2014] [Indexed: 12/19/2022] Open
Abstract
INTRODUCTION The surgical Apgar score (SAS) can predict 30-day major complications or death after surgery. Studies have validated the score in different patient populations and suggest it should be used to objectively guide postoperative care. We aimed to see whether using the SAS in a decisive approach in a future randomised controlled trial (RCT) would be likely to demonstrate an effect on postoperative care and clinical outcome. METHODS A total of 143 adults undergoing general/vascular surgery in 9 National Health Service hospitals were recruited to a pilot single blinded RCT and the data for 139 of these were analysed. Participants were randomised to a control group with standard postoperative care or to an intervention group with care influenced (but not mandated) by the SAS (decisive approach). The notional primary outcome was 30-day major complications or death. RESULTS Incidence of major complications was similar in both groups (control: 20/69 [29%], intervention: 23/70 [33%], p=0.622). Immediate admissions to the critical care unit was higher in the intervention group, especially in the SAS 0-4 subgroup (4/6 vs 2/7) although this was not statistically significant (p=0.310). Validity was also confirmed in area under the curve (AUC) analysis (AUC: 0.77). CONCLUSIONS This pilot study found that a future RCT to investigate the effect of using the SAS in a decisive approach may demonstrate a difference in postoperative care. However, significant changes to the design are needed if differences in clinical outcome are to be achieved reliably. These would include a wider array of postoperative interventions implemented using a quality improvement approach in a stepped wedge cluster design with blinded collection of outcome data.
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Affiliation(s)
| | - H Adwan
- London Surgical Research Group
| | | | - S Tayeh
- London Surgical Research Group
| | | | - P Jayia
- London Surgical Research Group
| | | | | | | | | | | | | | | | | | - MS Nair
- London Surgical Research Group
| | - I Naeem
- London Surgical Research Group
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Abstract
Development in plants relies largely on the activity of meristems, which are regions at the apices of shoots and roots that are capable of prolonged organogenesis. Developmental patterning and morphogenesis in plants is principally determined by post-embryonic regulation of the shoot, root and flower meristems, which enable plants to modify their form rapidly in response to different environmental conditions. Because meristems are continually generating new organs and tissues, they provide excellent model systems in which to study the processes of cell division, differentiation and organ formation. Here, we describe recent studies and several classic experiments that are helping to uncover the mechanisms controlling meristem development and the role of cell division in morphogenesis and patterning in plants.
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Bondarenko AS, Schaeffer DB, Everson ET, Constantin CG, Clark SE, Niemann C. Feasibility of characterizing laser-ablated carbon plasmas via planar laser induced fluorescence. Rev Sci Instrum 2012; 83:10E515. [PMID: 23127022 DOI: 10.1063/1.4733562] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Planar laser induced fluorescence (PLIF) imaging can potentially assess ion distributions and coupling in the context of super-Alfvénic ablation plasma expansions into magnetized background plasmas. In this feasibility study, we consider the application of PLIF to rapidly expanding carbon plasmas generated via energetic laser ablation of graphite. By utilizing hydrodynamic and collisional-radiative simulations, we identify schemes accessible to commercially available tunable lasers for the C I atom, the C II ion, and the C V ion. We then estimate the signal-to-noise ratios yielded by the schemes under reasonable experimental configurations.
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Affiliation(s)
- A S Bondarenko
- Department of Physics and Astronomy, University of California-Los Angeles, Los Angeles, California 90095, USA.
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Clark SE, Schaeffer DB, Bondarenko AS, Everson ET, Constantin CG, Niemann C. Magnetic field measurements in low density plasmas using paramagnetic Faraday rotator glass. Rev Sci Instrum 2012; 83:10D503. [PMID: 23126847 DOI: 10.1063/1.4728214] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Paramagnetic Faraday rotator glass (rare-earth doped borosilicate) with a high Verdet constant will be used to measure the magnetic field inside of low density Helium plasmas (T(e) ~ 5 eV, T(i) ~ 1 eV) with a density of n ~ 10(12) cm(-3). Linearly polarized light is sent through the glass such that the plane of polarization is rotated by an angle that depends on the strength of the magnetic field in the direction of propagation and the length of the crystal (6 mm). The light is then passed into an analyzer and photo-detector setup to determine the change in polarization angle. This setup can detect magnetic fields up to 5 kG with a resolution of <5 G and a temporal resolution on the order of a nanosecond. The diagnostic will be used to characterize the structure and evolution of laser-driven collisionless shocks in large magnetized plasmas.
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Affiliation(s)
- S E Clark
- Department of Physics and Astronomy, University of California - Los Angeles, Los Angeles, California 90095, USA
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Clark SE, Warwick J, Carpenter R, Bowen RL, Duffy SW, Jones JL. Molecular subtyping of DCIS: heterogeneity of breast cancer reflected in pre-invasive disease. Br J Cancer 2010; 104:120-7. [PMID: 21139586 PMCID: PMC3039794 DOI: 10.1038/sj.bjc.6606021] [Citation(s) in RCA: 94] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
Background: Molecular profiling has identified at least four subtypes of invasive breast carcinoma, which exhibit distinct clinical behaviour. There is good evidence now that DCIS represents the non-obligate precursor to invasive breast cancer and therefore it should be possible to identify similar molecular subtypes at this stage. In addition to a limited five-marker system to identify molecular subtypes in invasive breast cancer, it is evident that other biological molecules may identify distinct tumour subsets, though this has not been formally evaluated in DCIS. Methods: Tissue microarrays were constructed for 188 cases of DCIS. Immunohistochemistry was performed to examine the expression patterns of oestrogen receptor (ER), progesterone receptor (PR), Her2, EGFR, cytokeratin (CK) 5/6, CK14, CK17, CK18, β4-integrin, β6-integrin, p53, SMA, maspin, Bcl-2, topoisomerase IIα and P-cadherin. Hierarchical clustering analysis was undertaken to identify any natural groupings, and the findings were validated in an independent sample series. Results: Each of the intrinsic molecular subtypes described for invasive breast cancer can be identified in DCIS, though there are differences in the relative frequency of subgroups, in particular, the triple negative and basal-like phenotype is very uncommon in DCIS. Hierarchical cluster analysis identified three main subtypes of DCIS determined largely by ER, PR, Her2 and Bcl-2, and this classification is related to conventional prognostic indicators. These subtypes were confirmed in an analysis on independent series of DCIS cases. Conclusion: This study indicates that DCIS may be classified in a similar manner to invasive breast cancer, and determining the relative frequency of different subtypes in DCIS and invasive disease may shed light on factors determining disease progression. It also demonstrates a role for Bcl-2 in classifying DCIS, which has recently been identified in invasive breast cancer.
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Affiliation(s)
- S E Clark
- Centre for Tumour Biology, Institute of Cancer and CR-UK Clinical Centre, Barts and the London School of Medicine and Dentistry, John Vane Science Centre, Charterhouse Square, London EC1M 6BQ, UK.
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13
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Clark SE, Hanson M, Jacob S. A Contralateral Complication of Extra-peritoneal Laparoscopic Inguinal Hernia Repair. J Surg Case Rep 2010; 2010:2. [PMID: 24945505 PMCID: PMC3649080 DOI: 10.1093/jscr/2010.1.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
A 63 year old female underwent an uncomplicated total extraperitoneal repair of a right direct inguinal hernia. One week later she presented with a strangulated left femoral hernia. We believe the dissection of the extraperitoneal space caused bleeding which tracked down through the femoral canal resulting in a femoral hernia. To date there are no reports of such a complication following total extraperitoneal inguinal hernia repair in the literature.
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Affiliation(s)
- S E Clark
- King George Hospital, Ilford, United Kingdom
| | - M Hanson
- King George Hospital, Ilford, United Kingdom
| | - S Jacob
- King George Hospital, Ilford, United Kingdom
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Abstract
The sentinel lymph node (SLN) is the first lymph node to receive lymphatic drainage from a tumor. SLN biopsy has become a mainstay of breast cancer management and is used when the axilla is clinically clear of disease. Staging of the axilla in breast cancer is used to predict prognosis and in planning adjuvant treatment. SLN biopsy is not used where there has been previous axillary or breast radiotherapy or surgery, locally advanced or inflammatory disease and stage IV disease. Controversies remain in several specific clinical situations, including management of the axilla following detection of a positive SLN. There are no sufficiently robust predictive tumor features to prevent completion axillary dissection in these cases. However, there is evidence that immediate axillary surgery for operable, clinically node-negative breast cancer provides no survival benefit and may be unnecessary for many women. SLN biopsy may have a role after neoadjuvant chemotherapy, sparing some women from axillary node dissection. Further work is required to ascertain SLN biopsy sensitivity prior to its routine use in the clinic for multicentric and multifocal disease.
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Affiliation(s)
- S E Clark
- Institute of Cancer, Barts and the London, Tumor Biology, Charterhouse Square, London EC1M 6BQ, UK.
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Clark SE, Muslin EH, Henson CA. Effect of adding and removing N-glycosylation recognition sites on the thermostability of barley -glucosidase. Protein Eng Des Sel 2004; 17:245-9. [PMID: 15051866 DOI: 10.1093/protein/gzh028] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
The thermostability of alpha-glucosidase is important because the conversion of starch to fermentable sugars during the industrial production of beer and fuel ethanol typically occurs at relatively high temperatures (60-75 degrees C). Barley (Hordeum vulgare) alpha-glucosidase is unstable at these elevated temperatures; however, the alpha-glucosidase from sugar beet (Beta vulgaris) is stable at these temperatures. An alignment of the deduced amino acid sequences of barley and sugar beet alpha-glucosidases revealed considerable differences in the number and position of N-glycosylation recognition sites (NGRS). Other researchers have shown that additions or removals of NGRS resulted in either the stabilization or destabilization of the enzymes at elevated temperatures. NGRS present in the barley sequence and absent in the sugar beet sequence were removed via site-directed mutagenesis from the barley protein. Recognition sites absent in the barley sequence and present in the sugar beet sequence were added via mutagenesis into the barley alpha-glucosidase. Two mutations significantly increased thermostability, one mutation significantly decreased thermostability and five mutations had little effect on alpha-glucosidase thermostability.
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Affiliation(s)
- S E Clark
- Department of Agronomy, University of Wisconsin-Madison, 53706, USA
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Abstract
The thermal stability of alpha-glucosidase is important because the conversion of starch to fermentable sugars during industrial production of ethanol (e.g. brewing, fuel ethanol production) typically takes place at temperatures of 65-73 degrees C. In this study we investigate the thermostability of alpha-glucosidases from four plant species, compare their deduced amino acid sequences, and test the effect of substituting a proline for the residue present in the wild-type enzyme on the thermostability of alpha-glucosidase. The alpha-glucosidase from barley (Hordeum vulgare) was significantly less thermostable than the other three alpha-glucosidases. A comparison of the published deduced amino acid sequences of these four alpha-glucosidases revealed conserved proline residues in the three most thermostable alpha-glucosidases that were not found in the barley enzyme. Site-directed mutagenesis was done on recombinant barley alpha-glucosidase to create proteins with prolines at these conserved positions. The thermostability (T(50)) of one of these mutant enzymes, T340P, was 10 degrees C higher than the non-mutated enzyme.
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Affiliation(s)
- E H Muslin
- Department of Agronomy, University of Wisconsin, 1575 Linden Drive, Madison, WI 53706, USA
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17
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Affiliation(s)
- B J DeYoung
- Department of Biology, University of Michigan, Ann Arbo 48109-1048, USA
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18
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Clark SE, Tunnicliff JL. Selecting lineup foils in eyewitness identification experiments: experimental control and real-world simulation. Law Hum Behav 2001; 25:199-216. [PMID: 11480800 DOI: 10.1023/a:1010753809988] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Experimental research on eyewitness identification follows a standard principle of experimental design. Perpetrator-present and perpetrator-absent lineups are constructed with the same foils, so that the two conditions are identical except for the presence or absence ofthe trueperpetrator ofthe crime. However, this aspect of the design simulates conditions that do not correspond to those of real criminal investigations. Specifically, these conditions can create perp-absent lineups in which the foils are selected based on their similarity to an unknown person--the real perpetrator. Analysis of the similarity relations predicts that when foils for perp-absent lineups are selected based on their match to the perpetrator the false identification rate will be lower than if the foils are selected based on their match to the innocent suspect. This prediction was confirmed in an experiment that compared these two perp-absent lineup conditions. These results suggest that false identification rates in previous experiments would have been higher if the foils had been selected based on their match to the innocent suspect, rather than the absent perpetrator.
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Affiliation(s)
- S E Clark
- Department of Psychology, University of California, Riverside 92521, USA.
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19
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Abstract
The regulation of cell differentiation at meristems is crucial to developmental patterning in plants. Rapid progress has been made in identifying the genes that regulate differentiation and the receptor-mediated signalling events that have a key role in this process. In particular, we are now learning how the CLAVATA receptor kinase signalling pathway promotes stem cell differentiation in balance with the initiation of stem cells by the transcription factor WUSCHEL.
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Affiliation(s)
- S E Clark
- Department of Biology, University of Michigan, Ann Arbor, Michigan 48109-1048, USA.
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20
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Abstract
Group collaboration was examined in item and associative recognition. The present study distinguishes between group effects versus collaborative processes and defines the latter as interactive information exchange among group members. By that definition, many group effects do not involve collaboration. For example, group performance can exceed individual performance by pooling the increased resources of the group. Specifically, a group advantage can be obtained by deferring to a majority vote or to the group's best member. For both item and associative recognition, a group advantage was obtained that could not be accounted for by resource pooling. Collaborative facilitation was shown reliably in recognizing targets but not for rejecting distractors.
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Affiliation(s)
- S E Clark
- Department of Psychology, University of California, Riverside 92521-0426, USA.
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21
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Abstract
All of the cells of the shoot apex are derived from a small number of stem cells in the center of the shoot meristem. Hence, cell lineage plays no role in establishing pattern formation or cell fate at the shoot apex. Growing evidence has implicated a number of cell signaling pathways in regulating shoot meristem development and organ formation. These signaling pathways include receptor-mediated signaling, protein movement via plasmodesmata, and potential feedback loops.
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Affiliation(s)
- S E Clark
- Department of Biology, University of Michigan, Ann Arbor 48109-1048, USA.
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22
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Abstract
Midbrain sections taken from Sprague-Dawley rats of varying ages within the first four postnatal weeks were used to determine, immunocytochemically, putative changes of GABA(A) receptor beta2/3 subunits, GABA(B) receptor (R1a and R1b splice variants), and GABA(C) receptor rho1 subunit expression and distribution in the superficial, visual layers of the superior colliculus. Immunoreactivity for the GABA(A) receptor beta2/3 subunits was found in the superficial grey layer from birth. The labelling changed with age, with an overall continuous reduction in the number of cells labelled and a significant increase in the labelling intensity distribution (neuropil vs soma). Further analysis revealed an initial increase in the labelling intensity between postnatal days 0 and 7 in parallel with an overall reduction of labelled neurones. This was followed by a significant decrease in labelling intensity distribution between postnatal days 7 and 16, and a subsequent increase in intensity between postnatal days 16 and 28. The labelling profiles for GABA(B) receptors (R1a and R1b splice variants) and GABA(C) receptors (rho1 subunit) showed similar patterns. Both receptors could be found in the superficial layers of the superior colliculus from birth, and the intensity and distribution of labelling remained constant during the first postnatal month. However, the cell body count showed a significant decrease between postnatal days 7 and 16. These changes may be related to the time-point of eye opening, which occurred approximately two weeks after birth. For all three receptor types, the cell body count remained constant after postnatal day 16. By four weeks of age, there was no significant difference between the cell numbers obtained for the different receptors. Both GABA itself and neurofilament labelling were also obtained in the superficial superior colliculus at birth. Neurofilament, although found at birth, showed very little ordered arrangement until 16days after birth. When slices were double labelled for GABA(C) receptors and neurofilament, some overlap was observed. Double labelling for the presynaptic protein synaptophysin and GABA(C) receptors showed proximity in some places, indicative of a partly synaptic location of GABA(C) receptors. When GABA(C) and GABA(A) receptors were labelled simultaneously, some but not all neurones showed immunoreactivity for both receptor types. In conclusion, all three GABA receptor types were found to be present in the superior colliculus from birth, and all show some form of postnatal modification, with GABA(A) receptors demonstrating the most dramatic changes. However, GABA(B) and GABA(C) receptors are modified significantly around the onset of input-specific activity. Together, this points towards a contribution of the GABAergic system to processes of postnatal maturation in the superficial superior colliculus.
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Affiliation(s)
- S E Clark
- Department of Biomedical Sciences, Aberdeen University, Foresterhill, AB25 2ZD, Aberdeen, UK
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23
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Abstract
While the shoot apical meristem (SAM) is indirectly responsible for the initiation of all above-ground postembryonic organs, in most plants the vast majority of these organs are directly initiated by lateral meristems. In Arabidopsis thaliana, the lateral meristems include flower meristems (FMs), which form on the flanks of the SAM, and lateral shoot meristems (LSMs), which develop in leaf axils. While significant progress has been made on the molecular genetic basis of SAM initiation during embryo development, relatively little is known about the initiation of meristems at lateral positions. Here we have characterized the phenotypic consequences and genetic interactions of mutations in the REVOLUTA (REV) gene, with an emphasis on the role of REV in lateral meristem initiation. Our observations indicate that REV is required for initiation of both LSMs and FMs, and likely acts in the same pathway as, and upstream of, known meristem regulators. We identified the REV gene and found it encodes a predicted homeodomain/leucine zipper transcription factor that also contains a START sterol-lipid binding domain. REV is the same as the IFL gene. REV was expressed at the earliest stages of LSM and FM formation. Within the inflorescence shoot meristem, REV expression appeared to predict 3--5 incipient flower primordia on the flanks of the SAM, and REV expression at stage 1 and stage 2 matched that of WUS and STM, respectively. We propose that REV acts at lateral positions to activate the expression of known meristem regulators.
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Affiliation(s)
- D Otsuga
- Department of Biology, University of Utah, Salt Lake City, UT 84112-0840, USA
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24
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Abstract
While the shoot apical meristem (SAM) is indirectly responsible for the initiation of all above-ground postembryonic organs, in most plants the vast majority of these organs are directly initiated by lateral meristems. In Arabidopsis thaliana, the lateral meristems include flower meristems (FMs), which form on the flanks of the SAM, and lateral shoot meristems (LSMs), which develop in leaf axils. While significant progress has been made on the molecular genetic basis of SAM initiation during embryo development, relatively little is known about the initiation of meristems at lateral positions. Here we have characterized the phenotypic consequences and genetic interactions of mutations in the REVOLUTA (REV) gene, with an emphasis on the role of REV in lateral meristem initiation. Our observations indicate that REV is required for initiation of both LSMs and FMs, and likely acts in the same pathway as, and upstream of, known meristem regulators. We identified the REV gene and found it encodes a predicted homeodomain/leucine zipper transcription factor that also contains a START sterol-lipid binding domain. REV is the same as the IFL gene. REV was expressed at the earliest stages of LSM and FM formation. Within the inflorescence shoot meristem, REV expression appeared to predict 3--5 incipient flower primordia on the flanks of the SAM, and REV expression at stage 1 and stage 2 matched that of WUS and STM, respectively. We propose that REV acts at lateral positions to activate the expression of known meristem regulators.
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Affiliation(s)
- D Otsuga
- Department of Biology, University of Utah, Salt Lake City, UT 84112-0840, USA
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25
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Abstract
Group collaboration was examined in item and associative recognition. The present study distinguishes between group effects versus collaborative processes and defines the latter as interactive information exchange among group members. By that definition, many group effects do not involve collaboration. For example, group performance can exceed individual performance by pooling the increased resources of the group. Specifically, a group advantage can be obtained by deferring to a majority vote or to the group's best member. For both item and associative recognition, a group advantage was obtained that could not be accounted for by resource pooling. Collaborative facilitation was shown reliably in recognizing targets but not for rejecting distractors.
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Affiliation(s)
- S E Clark
- Department of Psychology, University of California, Riverside 92521-0426, USA.
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26
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Abstract
The performance of clinic-referred children aged 6-11 (N = 100) was examined using the Conners' Continuous Performance Test (CPT) and measures of auditory attention (Auditory Continuous Performance Test; ACPT), phonological awareness, visual processing speed, and visual-motor competence. The Conners' CPT overall index was unrelated to measures of visual processing speed or visual-motor competence. Although the Conners' CPT converged with the ACPT, the latter demonstrated age and order effects. Significant variance in Conners' CPT parameters was predicted by phonological awareness measures, suggesting that Reading Disordered (RD) children could be "false positives" on the Conners' CPT. The Conners' CPT overall index, phonological awareness, and visual-motor measures were submitted to a 2 x 2 MANCOVA (ADHD vs. RD, covarying for age and socioeconomic status): a main effect for RD status was found. Children with ADHD did not have higher Conners' CPT scores than did clinical controls; however, children with Reading Disorders did. Phonological measures distinguished RD children from ADHD children and other clinical controls. ADHD children who failed the Conners' CPT were rated by teachers as more hyperactive. Despite the strengths of the Conners' CPT, its utility for differential diagnosis of ADHD is questioned.
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Affiliation(s)
- R A McGee
- Child and Adolescent Mental Health Services, Valley Regional Hospital, Kentville, Nova Scotia, Canada.
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27
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Abstract
The CLAVATA1 (CLV1) and CLAVATA3 (CLV3) proteins form a potential receptor and ligand pair that regulates the balance between cell proliferation and differentiation at the shoot meristem of Arabidopsis. CLV1 encodes a receptor-kinase, and CLV3 encodes a predicted small, secreted polypeptide. We demonstrate that the CLV3 and CLV1 proteins coimmunoprecipitate in vivo, that yeast cells expressing CLV1 and CLV2 bind to CLV3 from plant extracts, and that binding requires CLV1 kinase activity. CLV3 only associates with the presumed active CLV1 protein complex in vivo. More than 75% of CLV3 in cauliflower extracts is bound with CLV1, consistent with hypotheses of ligand sequestration. Soluble CLV3 was found in an approximately 25-kilodalton multimeric complex.
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Affiliation(s)
- A E Trotochaud
- Department of Biology, University of Michigan, Ann Arbor, MI 48109-1048, USA
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28
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Abstract
Mutations at the CLAVATA loci (CLV1, CLV2 and CLV3) result in the accumulation of undifferentiated cells at the shoot and floral meristems. We have isolated three mutant alleles of a novel locus, POLTERGEIST (POL), as suppressors of clv1, clv2 and clv3 phenotypes. All pol mutants were nearly indistinguishable from wild-type plants; however, pol mutations provided recessive, partial suppression of meristem defects in strong clv1 and clv3 mutants, and nearly complete suppression of weak clv1 mutants. pol mutations partially suppressed clv2 floral and pedicel defects in a dominant fashion, and almost completely suppressed clv2 phenotypes in a recessive manner. These observations, along with dominant interactions observed between the pol and wuschel (wus) mutations, indicate that POL functions as a critical regulator of meristem development downstream of the CLV loci and redundantly with WUS. Consistent with this, pol mutations do not suppress clv3 phenotypes by altering CLV1 receptor activation.
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Affiliation(s)
- L P Yu
- Department of Biology, University of Michigan, Ann Arbor, MI 48109-1048, USA
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29
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Abstract
Two experiments directly compare two methods of selecting foils for identification lineups. The suspect-matched method selects foils based on their match to the suspect, whereas the description-matched method selects foils based on their match to the witness's description of the perpetrator. Theoretical analyses and previous results predict an advantage for description-matched lineups both in terms of correctly identifying the perpetrator and minimizing false identification of innocent suspects. The advantage for description-matched lineups should be particularly pronounced if the foils selected in suspect-matched lineups are too similar to the suspect. In Experiment 1, the lineups were created by trained police officers, and in Experiment 2, the lineups were constructed by undergraduate college students. The results of both experiments showed higher suspect-to-foil similarity for suspect-matched lineups than for description-matched lineups. However, neither experiment showed a difference in correct or false identification rates. Both experiments did, however, show that there may be an advantage for suspect-matched lineups in terms of no-pick and rejection responses. From these results, the endorsement of one method over the other seems premature.
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Affiliation(s)
- J L Tunnicliff
- Department of Psychology, University of California, Riverside, USA
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30
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Muslin EH, Kanikula AM, Clark SE, Henson CA. Overexpression, purification, and characterization of a barley alpha-glucosidase secreted by Pichia pastoris. Protein Expr Purif 2000; 18:20-6. [PMID: 10648165 DOI: 10.1006/prep.1999.1160] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
alpha-Glucosidases (EC 3.2.1.20) are recognized as important in starch degradation during cereal seed germination. A barley (Hordeum vulgare) alpha-glucosidase expressed in Pichia pastoris was cultured in flasks; however, the yield was low necessitating the use of multiple batches. Problems arose because of significant variation between batches. We solved these problems by switching to a fermentation system producing a sufficient quantity of a uniform sample. Here we present the expression and purification of a recombinant alpha-glucosidase grown under fermentation conditions. We also present the results of experiments to characterize the thermostability, pH optimum, and substrate specificity of the recombinant enzyme. The optimal pH for the hydrolysis of maltose by recombinant alpha-glucosidase is between 3.5 and 4.5. The thermostability of recombinant alpha-glucosidase was determined at pH 4, where activity is optimal, and at pH 5 and 6, which better mimic the conditions used to convert barley starch to fermentable sugars during industrial processing. The results indicate the enzyme is most thermolabile at pH 4. However, the enzyme is protected from heat inactivation at pH 4 by high concentrations of sucrose. The purified enzyme hydrolyzed maltose three times more rapidly than nigerose and 20 times more rapidly than trehalose and isomaltose. Concentrations of maltose greater than 20 mM inhibited maltose hydrolysis. This is the first report of substrate inhibition for any alpha-glucosidase. The results indicate that the only significant difference between the recombinant enzyme and the previously characterized barley isoforms was the V(max) for maltose hydrolysis.
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Affiliation(s)
- E H Muslin
- Department of Agronomy, University of Wisconsin, 1575 Linden Drive, Madison, Wisconsin, 53706, USA
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31
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Jeong S, Trotochaud AE, Clark SE. The Arabidopsis CLAVATA2 gene encodes a receptor-like protein required for the stability of the CLAVATA1 receptor-like kinase. Plant Cell 1999; 11:1925-34. [PMID: 10521522 PMCID: PMC144110 DOI: 10.1105/tpc.11.10.1925] [Citation(s) in RCA: 452] [Impact Index Per Article: 18.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
The CLAVATA2 (CLV2) gene regulates both meristem and organ development in Arabidopsis. We isolated the CLV2 gene and found that it encodes a receptor-like protein (RLP), with a presumed extracellular domain composed of leucine-rich repeats similar to those found in plant and animal receptors, but with a very short predicted cytoplasmic tail. RLPs lacking cytoplasmic signaling domains have not been previously shown to regulate development in plants. Our prior work has demonstrated that the CLV1 receptor-like kinase (RLK) is present as a disulfide-linked multimer in vivo. We report that CLV2 is required for the normal accumulation of CLV1 protein and its assembly into protein complexes, indicating that CLV2 may form a heterodimer with CLV1 to transduce extracellular signals. Sequence analysis suggests that the charged residue in the predicted transmembrane domain of CLV2 may be a common feature of plant RLPs and RLKs. In addition, the chromosomal region in which CLV2 is located contains an extremely high rate of polymorphism, with 50 nucleotide and 15 amino acid differences between Landsberg erecta and Columbia ecotypes within the CLV2 coding sequence.
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Affiliation(s)
- S Jeong
- Department of Biology, University of Michigan, Ann Arbor, Michigan 48109-1048, USA
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32
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Jeong S, Trotochaud AE, Clark SE. The Arabidopsis CLAVATA2 gene encodes a receptor-like protein required for the stability of the CLAVATA1 receptor-like kinase. Plant Cell 1999; 11:1925-1934. [PMID: 10521522 DOI: 10.2307/3871087] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
The CLAVATA2 (CLV2) gene regulates both meristem and organ development in Arabidopsis. We isolated the CLV2 gene and found that it encodes a receptor-like protein (RLP), with a presumed extracellular domain composed of leucine-rich repeats similar to those found in plant and animal receptors, but with a very short predicted cytoplasmic tail. RLPs lacking cytoplasmic signaling domains have not been previously shown to regulate development in plants. Our prior work has demonstrated that the CLV1 receptor-like kinase (RLK) is present as a disulfide-linked multimer in vivo. We report that CLV2 is required for the normal accumulation of CLV1 protein and its assembly into protein complexes, indicating that CLV2 may form a heterodimer with CLV1 to transduce extracellular signals. Sequence analysis suggests that the charged residue in the predicted transmembrane domain of CLV2 may be a common feature of plant RLPs and RLKs. In addition, the chromosomal region in which CLV2 is located contains an extremely high rate of polymorphism, with 50 nucleotide and 15 amino acid differences between Landsberg erecta and Columbia ecotypes within the CLV2 coding sequence.
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Affiliation(s)
- S Jeong
- Department of Biology, University of Michigan, Ann Arbor, Michigan 48109-1048, USA
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33
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Trotochaud AE, Hao T, Wu G, Yang Z, Clark SE. The CLAVATA1 receptor-like kinase requires CLAVATA3 for its assembly into a signaling complex that includes KAPP and a Rho-related protein. Plant Cell 1999; 11:393-406. [PMID: 10072399 PMCID: PMC144183 DOI: 10.1105/tpc.11.3.393] [Citation(s) in RCA: 187] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
The CLAVATA1 (CLV1) and CLAVATA3 (CLV3) genes are required to maintain the balance between cell proliferation and organ formation at the Arabidopsis shoot and flower meristems. CLV1 encodes a receptor-like protein kinase. We have found that CLV1 is present in two protein complexes in vivo. One is approximately 185 kD, and the other is approximately 450 kD. In each complex, CLV1 is part of a disulfide-linked multimer of approximately 185 kD. The 450-kD complex contains the protein phosphatase KAPP, which is a negative regulator of CLV1 signaling, and a Rho GTPase-related protein. In clv1 and clv3 mutants, CLV1 is found primarily in the 185-kD complex. We propose that CLV1 is present as an inactive disulfide-linked heterodimer and that CLV3 functions to promote the assembly of the active 450-kD complex, which then relays signal transduction through a Rho GTPase.
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Affiliation(s)
- A E Trotochaud
- Department of Biology, University of Michigan, Ann Arbor, Michigan 48109-1048, USA
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34
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Williams RW, Clark SE, Meyerowitz EM. Genetic and physical characterization of a region of Arabidopsis chromosome 1 containing the CLAVATA1 gene. Plant Mol Biol 1999; 39:171-176. [PMID: 10080719 DOI: 10.1023/a:1006127302671] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
With the advance of Arabidopsis as a model system for understanding plant genetics, development and biochemistry, a detailed description of the genome is necessary. As such, focused projects are underway to map and sequence the Arabidopsis nuclear genome. We have characterized a region of chromosome 1, surrounding the CLAVATA1 (CLV1) locus. Three (RFLP) clones were mapped relative to clv1-1, and were used to construct an ca. 700 kb yeast artificial chromosome (YAC) contig. Three cosmids spanning the CLV1 locus were analyzed and ca. 24 kb of genomic DNA was sequenced, including a continuous stretch of 18 kb. In addition to generating clones in this region of chromosome 1, we have analyzed the size, spacing and organization of several contiguous genes.
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Affiliation(s)
- R W Williams
- Division of Biology, California Institute of Technology, Pasadena 91125, USA
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35
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Abstract
Mutations at the CLAVATA2 (CLV2) locus of Arabidopsis result in enlarged shoot and flower meristems, as well as alterations in the development of the gynoecia, flower pedicels, and stamens. The shoot and flower meristem phenotypes of clv2 mutants are similar to weak clv1 and clv3 mutants. We present genetic analysis that CLV2 may function in the same pathway as CLV1 and CLV3 in the regulation of meristem development, but function separately in the regulation of organ development. We also present evidence that clv2 phenotypes are altered when the mutants are grown under short-day light conditions. These alterations include flower-to-shoot transformations, as well as a nearly complete suppression of the flower phenotypes, indicating that the requirement for CLV2 changes in response to different physiological conditions. The stm-1 mutation dominantly suppresses clv2, and clv2 mutations suppress the strong stm-1 allele, but not the weak stm-2 allele.
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Affiliation(s)
- J M Kayes
- Department of Biology, University of Michigan, Ann Arbor, MI 48109-1048, USA
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36
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Stone JM, Trotochaud AE, Walker JC, Clark SE. Control of meristem development by CLAVATA1 receptor kinase and kinase-associated protein phosphatase interactions. Plant Physiol 1998; 117:1217-25. [PMID: 9701578 PMCID: PMC34886 DOI: 10.1104/pp.117.4.1217] [Citation(s) in RCA: 166] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
The CLAVATA1 (CLV1) gene encodes a putative receptor kinase required for the proper balance between cell proliferation and differentiation in Arabidopsis shoot and flower meristems. Impaired CLV1 signaling results in masses of undifferentiated cells at the shoot and floral meristems. Although many putative receptor kinases have been identified in plants, the mechanism of signal transduction mediated by plant receptor-like kinases is largely unknown. One potential effector of receptor kinase signaling is kinase-associated protein phosphatase (KAPP), a protein that binds to multiple plant receptor-like kinases in a phosphorylation-dependent manner. To examine a possible role for KAPP in CLV1-dependent plant development, the interaction of CLV1 and KAPP was investigated in vitro and in vivo. KAPP binds directly to autophosphorylated CLV1 in vitro and co-immunoprecipitates with CLV1 in plant extracts derived from meristematic tissue. Reduction of KAPP transcript accumulation in an intermediate clv1 mutant suppresses the mutant phenotype, and the degree of suppression is inversely correlated with KAPP mRNA levels. These data suggest that KAPP functions as a negative regulator of CLV1 signaling in plant development. This may represent a general model for the interaction of KAPP with receptor kinases.
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Affiliation(s)
- JM Stone
- Division of Biological Sciences, University of Missouri, Columbia, Missouri 65211-7400 (J.M.S., J.C.W.)
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37
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Abstract
The shoot apical meristem is responsible for above-ground organ initiation in higher plants, accomplishing continuous organogenesis by maintaining a pool of undifferentiated cells and directing descendant cells toward organ formation. Normally, proliferation and differentiation are balanced, so that the structure and size of the shoot meristem is maintained. However, Arabidopsis plants homozygous for mutations at the CLAVATA1 (CLV1) locus accumulate excess undifferentiated cells. We describe the molecular cloning and expression pattern of the CLV1 gene. It encodes a putative receptor kinase, suggesting a role in signal transduction. The extracellular domain is composed of 21 tandem leucine-rich repeats that resemble leucine-rich repeats found in animal hormone receptors. We provide evidence that CLV1 expression in the inflorescence is specifically associated with meristematic activity.
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Affiliation(s)
- S E Clark
- Division of Biology, California Institute of Technology, Pasadena 91125, USA
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38
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Abstract
The shoot apical meristem is responsible for above-ground organ initiation in higher plants, accomplishing continuous organogenesis by maintaining a pool of undifferentiated cells and directing descendant cells toward organ formation. Normally, proliferation and differentiation are balanced, so that the structure and size of the shoot meristem is maintained. However, Arabidopsis plants homozygous for mutations at the CLAVATA1 (CLV1) locus accumulate excess undifferentiated cells. We describe the molecular cloning and expression pattern of the CLV1 gene. It encodes a putative receptor kinase, suggesting a role in signal transduction. The extracellular domain is composed of 21 tandem leucine-rich repeats that resemble leucine-rich repeats found in animal hormone receptors. We provide evidence that CLV1 expression in the inflorescence is specifically associated with meristematic activity.
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Affiliation(s)
- S E Clark
- Division of Biology, California Institute of Technology, Pasadena 91125, USA
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39
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Abstract
Women are more depressed than men, and more frequently victimized. We explored the possibility that childhood sexual abuse (CSA) and adult victimization account for the higher levels of depression in women. Depressive symptoms and victimization histories were compared in a sample of 91 men and 76 women seeking out-patient psychotherapy. The women were more depressed, and more likely to have a history of CSA than the men. CSA accounted for a significant proportion of the sex difference in depression levels. The women also were more likely to have been victimized as adults than were the men. However, adult victimization was not associated with higher depression levels, and, therefore, did not account further for the sex difference.
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Affiliation(s)
- V E Whiffen
- School of Psychology, University of Ottawa, Ontario, Canada
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40
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Clark SE, Karn CA, Ahlrichs JA, Wang J, Leitch CA, Leichty EA, Denne SC. Acute changes in leucine and phenylalanine kinetics produced by parenteral nutrition in premature infants. Pediatr Res 1997; 41:568-74. [PMID: 9098862 DOI: 10.1203/00006450-199704000-00019] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
To determine the effect of parenteral nutrition on the balance and catabolism of leucine (by oxidation) and phenylalanine (by hydroxylation) and to assess any acute changes in proteolysis and/or protein synthesis, leucine and phenylalanine kinetics were measured by stable isotope tracer infusions in nine 32-wk gestation premature infants under both basal conditions and in response to an i.v. infusion of glucose, lipid, and amino acids. Leucine and phenylalanine balance both changed from negative to positive during parenteral nutrition. However, leucine and phenylalanine catabolism were differently affected by parenteral nutrition; the rate of leucine oxidation increased 2-fold, whereas the rate of phenylalanine hydroxylation was unchanged from basal values. Phenylalanine utilization for protein synthesis and leucine utilization for protein synthesis (based on both plasma leucine and alpha-ketoisocaproic acid enrichments) increased significantly during parenteral nutrition. The endogenous rates of release of leucine (based on plasma leucine enrichment) and phenylalanine (both reflecting proteolysis) were significantly reduced during parenteral nutrition. The endogenous rate of release of leucine (based on alpha-ketoisocaproic acid enrichment) was slightly but not significantly lower during parenteral nutrition. The substantial increase in leucine oxidation without changes in phenylalanine hydroxylation suggests a possible limitation in the phenylalanine/tyrosine supply during parenteral nutrition. In addition, these results suggest that premature infants respond to parenteral nutrition with acute increases in whole body protein synthesis as well as a probable reduction in proteolysis.
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Affiliation(s)
- S E Clark
- Department of Pediatrics, Indiana University School of Medicine, Indianapolis 46202-5210, USA
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Abstract
The CLAVATA (CLV1 and CLV3) and SHOOT MERISTEMLESS (STM) genes specifically regulate shoot meristem development in Arabidopsis. CLV and STH appear to have opposite functions: c1v1 and Clv3 mutants accumulate excess undifferentiated cells in the shoot and floral meristem, while stm mutants fail to form the undifferentiated cells of the shoot meristem during embryonic development. We have identified a weak allele of stm (stm-2) that reveals STM is not only required for the establish- ment of the shoot meristem, but is also required for the continued maintenance of undifferentiated cells in the shoot meristem and for proper proliferation of cells in the floral meristem. We have found evidence of genetic interactions between the CLV and STM loci. clv1 and c1v3 mutations partially suppressed the stm-1 and stm-2 phenotypes, and were capable of suppression in a dominant fashion. clv stm double mutants and plants homozygous for stm but heterozygous for clv, while still lacking an embryonic shoot meristem, exhibited greatly enhanced postembryonic shoot and floral meristem development. Although stm phenotypes are recessive, stm mutations dominantly suppressed clv homozygous and heterozygous phenotypes. These results indicate that the stm phenotype is sensitive to the levels of CLV activity, while the clv phenotype is sensitive to the level of STM activity. We propose that these genes play related but opposing roles in the regulation of cell division and/or cell differentiation in shoot and floral meristems.
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Affiliation(s)
- S E Clark
- Division of Biology, California Institute of Technology, Pasadena 91125, USA
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42
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Abstract
Two experiments examined forced-choice associative recognition for OLAP and NOLAP test conditions. OLAP test trials consist of pairs with overlapping items (e.g., AB vs. AD), whereas NOLAP test trials contain no overlapping items (e.g., AB vs. CF). Previous results show better performance for NOLAP than for OLAP tests, contrary to the predictions of global memory models. The present experiments varied list length to examine the hypothesis that the NOLAP advantage is produced by recall-like retrieval processes. The use of longer lists either eliminated (Experiment 1) or greatly reduced (Experiment 2) the NOLAP advantage. However, a reliable OLAP advantage was not obtained. Implications for models are discussed.
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Affiliation(s)
- S E Clark
- Department of Psychology, University of California, Riverside, 92521 USA
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43
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Abstract
The search of associative memory (SAM) model of Gillund and Shiffrin (1984) was applied to data of two experiments that examined the generation effect (Slamecka & Graf, 1978). Subjects studied a list of related word pairs, in which they either read both words in the pair or generated the right- hand response term using the left-hand stimulus term plus the response word fragment as generation cues. Experiment 1 manipulated encoding condition within subjects and used an incidental learning procedure. Experiment 2 manipulated encoding condition between subjects and used an intentional learning procedure. Memory was tested with recognition, cued recall, and free recall. A higher order association model gave a better and more parsimonious fit to the results than did an item-level association model. The relationship between various versions of SAM and current accounts of the generation effect are discussed, particulary the two-factor theory of Hirshman and Bjork (1988).
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Affiliation(s)
- S E Clark
- Psychology Department, University of California, Riverside 92521, USA
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Zhou MY, Clark SE, Gomez-Sanchez CE. Universal cloning method by TA strategy. Biotechniques 1995; 19:34-5. [PMID: 7669292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Affiliation(s)
- M Y Zhou
- University of Missouri-Columbia School of Medicine, USA
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45
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Abstract
Recent controlled studies have demonstrated that there are few quantitative, but a number of qualitative differences between those bereaved by suicide and those bereaved in other ways. Observations from participants in a support group of those bereaved through suicide are presented here. Guidelines are offered concerning therapy for those who are so clearly distressed by this mode of death.
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Affiliation(s)
- S E Clark
- Department of Community Medicine, University of Adelaide, South Australia
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Affiliation(s)
- M P Running
- Division of Biology, California Institute of Technology, Pasadena 91125, USA
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47
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Abstract
The effects of list composition and word frequency on cued recall, associative recognition, and item recognition were examined in three experiments. For pure-frequency lists, cued recall and associative recognition show better performance on common high-frequency (HF) words than on rare low-frequency (LF) words. Item recognition, however, shows an advantage for LF words. In mixed lists, consisting of half HF and half LF words, the HF advantage in cued recall disappeared; however, the word frequency effects in item and associative recognition were unchanged. These results are inconsistent with explanations based on differential attention or co-rehearsal of HF and LF words. However, the results are consistent with list strength results which show that recognition is insensitive to strength-based list composition, but that recall is sensitive to list composition.
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Affiliation(s)
- S E Clark
- Psychology Department, University of California, Riverside
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48
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Abstract
We have investigated the effects on plant development of mutations in the Arabidopsis thaliana CLAVATA1 gene. In clavata1 plants, vegetative, inflorescence and floral meristems are all enlarged relative to wild type. The apical meristem can fasciate in the more severe mutant alleles, and this fasciation can occur prior to the transition to flowering. Flowers of clavata1 plants can have increased numbers of organs in all four whorls, and can also have additional whorls not present in wild-type flowers. Double mutant combinations of clavata1 with agamous, apetala2, apetala3 and pistillata indicate that CLAVATA1 controls the underlying floral meristem structure upon which these homeotic genes act. Double mutant combinations of clavata1 with apetala1 and leafy indicate CLAVATA1 plays a role in establishing and maintaining floral meristem identity, in addition to its role in controlling meristem size. In support of this, RNA expression patterns of AGAMOUS and APETALA1 are altered in clavata1 flowers.
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Affiliation(s)
- S E Clark
- Division of Biology 156-29, California Institute of Technology, Pasadena 91125
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49
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Affiliation(s)
- S E Clark
- Department of Community Medicine, University of Adelaide, SA
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50
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Abstract
This study examined the relations among athletic context, i.e., team-sport versus individual-sport, competitive trait anxiety, perceived ability, and self-presentation confidence for 62 men and 34 women athletes. The analyses showed that the athletic context is associated with variations in competitive trait anxiety and self-presentation confidence; however, no main effect or interaction was noted for perceived ability. Results support the notion that aspects of the sports context are significantly related to various precompetitive cognitions.
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Affiliation(s)
- E H Wong
- University of California, Riverside
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