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Tallafuss A, Stednitz SJ, Voeun M, Levichev A, Larsch J, Eisen J, Washbourne P. Egr1 Is Necessary for Forebrain Dopaminergic Signaling during Social Behavior. eNeuro 2022; 9:ENEURO.0035-22.2022. [PMID: 35346959 PMCID: PMC8994534 DOI: 10.1523/eneuro.0035-22.2022] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 03/08/2022] [Accepted: 03/12/2022] [Indexed: 12/25/2022] Open
Abstract
Finding the link between behaviors and their regulatory molecular pathways is a major obstacle in treating neuropsychiatric disorders. The immediate early gene (IEG) EGR1 is implicated in the etiology of neuropsychiatric disorders, and is linked to gene pathways associated with social behavior. Despite extensive knowledge of EGR1 gene regulation at the molecular level, it remains unclear how EGR1 deficits might affect the social component of these disorders. Here, we examined the social behavior of zebrafish with a mutation in the homologous gene egr1 Mutant fish exhibited reduced social approach and orienting, whereas other sensorimotor behaviors were unaffected. On a molecular level, expression of the dopaminergic biosynthetic enzyme, tyrosine hydroxylase (TH), was strongly decreased in TH-positive neurons of the anterior parvocellular preoptic nucleus. These neurons are connected with basal forebrain (BF) neurons associated with social behavior. Chemogenetic ablation of around 30% of TH-positive neurons in this preoptic region reduced social attraction to a similar extent as the egr1 mutation. These results demonstrate the requirement of Egr1 and dopamine signaling during social interactions, and identify novel circuitry underlying this behavior.
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Affiliation(s)
| | | | - Mae Voeun
- Institute of Neuroscience, University of Oregon, Eugene, OR 97403
| | | | - Johannes Larsch
- Max Planck Institut für Neurobiologie, Martinsried, D-82152, Munich Germany
| | - Judith Eisen
- Institute of Neuroscience, University of Oregon, Eugene, OR 97403
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Goode C, Voeun M, Ncube D, Eisen J, Washbourne P, Tallafuss A. Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior. J Comp Neurol 2021; 529:2176-2188. [PMID: 33491202 DOI: 10.1002/cne.25084] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 10/30/2020] [Accepted: 11/23/2020] [Indexed: 12/15/2022]
Abstract
As they form, synapses go through various stages of maturation and refinement. These steps are linked to significant changes in synaptic function, potentially resulting in emergence and maturation of behavioral outputs. Synaptotagmins are calcium-sensing proteins of the synaptic vesicle exocytosis machinery, and changes in Synaptotagmin proteins at synapses have significant effects on vesicle release and synaptic function. Here, we examined the distribution of the synaptic vesicle protein Synaptotagmin 2a (Syt2a) during development of the zebrafish nervous system. Syt2a is widely distributed throughout the midbrain and hindbrain early during larval development but very weakly expressed in the forebrain. Later in development, Syt2a expression levels in the forebrain increase, particularly in regions associated with social behavior, and most intriguingly, around the time social behavior becomes apparent. We provide evidence that Syt2a localizes to synapses onto neurons implicated in social behavior in the ventral forebrain and show that Syt2a is colocalized with tyrosine hydroxylase, a biosynthetic enzyme in the dopamine pathway. Our results suggest a developmentally important role for Syt2a in maturing synapses in the forebrain, coinciding with the emergence of social behavior.
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Affiliation(s)
- Collette Goode
- Institute of Neuroscience, University of Oregon, Eugene, USA
| | - Mae Voeun
- Institute of Neuroscience, University of Oregon, Eugene, USA
| | - Denver Ncube
- Institute of Neuroscience, University of Oregon, Eugene, USA
| | - Judith Eisen
- Institute of Neuroscience, University of Oregon, Eugene, USA
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Belk AD, Duarte TL, Coil D, Belk KE, Eisen J, Yang X, Martin J, Metcalf JL. Utilizing Microbiome and Bioinformatic Tools to Reduce Food Waste in Poultry. Meat and Muscle Biology 2019. [DOI: 10.22175/mmb.10784] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
Abstract
ObjectivesIn chicken harvest, the post-harvest chilling process is a crucial step for food safety. Most facilities use either water immersion chilling (WC) or air chilling (AC) to rapidly cool the chicken. A holistic assessment of the consequences of each method to meat quality and shelf life is necessary to determine the impacts of each method. To address this knowledge gap, a multi-faceted project was conducted to determine how the chilling system influenced the microbial ecology and subsequent deterioration of chicken breasts.Materials and MethodsThe study was conducted using a 2 × 2 × 2 factorial design to evaluate the impacts of chilling method (AC vs. WC), fabrication method (bone-in vs. boneless; BI vs. BL), and cold storage period (7 vs. 14 d) on the microbial ecology of chicken breasts. A total of 256 chicken carcasses were used for this study. Carcasses were obtained from a commercial processing plant following dressing and a single antimicrobial treatment. Twenty carcasses were removed for sampling as warm carcasses, and the remaining 236 were divided into eight groups for processing (AC-BI, AC-BL, WC-BI, WC-BL tray-wrapped for 7- and 14-d storage). Collection time-points included: warm, post-chilling, post-fabrication, post-storage, and after 3-d retail display. Microbiome samples were collected at each sampling using a PBS rinsate. Then, samples were further processed for microbiome analysis following standard methods, sequenced for the V4 region of the 16S rRNA gene, and analyzed using the QIIME2 pipeline.ResultsThere were significant differences in microbial diversity between different chilling methods, fabrications methods, and cold storage times. Both chilling methods were different from the warm carcasses based on α diversity metrics, though the two chilling methods were not different from each other. However, there were differences in the β diversity between all three groups. Storage day significantly altered the faith’s phylogenetic α diversity but had no impact on Shannon’s α diversity. By both metrics, the diversity was reduced with increased length of storage, suggesting that a few organisms begin to dominate the product during dark storage. The fabrication methods also resulted in significantly different diversities when phylogenetic metrics (Faith’s, unweighted UniFrac) were used. The products that were sampled prior to dark storage, regardless of chilling method, were dominated by Enterobacteriaceae, while those that were subjected to cold storage were dominated by Pseudomonadaceae. In the stored samples, AC samples tended to have a greater abundance of Moraxellaceae and Enterobacteriaceae than WC.ConclusionThese results suggest that different treatments of chicken breasts, including chilling, fabrication, and storage time, all correspond with changes to the product microbiome. These data will be combined with microbiology, physiochemical, nutritive, and taste and color data as well as a techno-economic analysis to provide a deeper understanding of impacts of processing methods on poultry quality and shelf life.
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Affiliation(s)
- A. D. Belk
- Colorado State University Animal Science
| | | | - D. Coil
- University of California, Davis Medical Microbiology and Immunology
| | - K. E. Belk
- Colorado State University Animal Science
| | - J. Eisen
- University of California, Davis Medical Microbiology and Immunology
| | - X. Yang
- University of California, Davis Animal Science
| | - J. Martin
- Colorado State University Animal Science
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Duarte TL, Belk A, Martin JN, Belk K, Eisen J, Coil D, Metcalf JL, Yang X. A Comparison of Water Chilling and Air Chilling on Poultry Shelf Life. Meat and Muscle Biology 2019. [DOI: 10.22175/mmb.10714] [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] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
Abstract
ObjectivesIn the U.S. water immersion chilling (WC) is commonly used to chill poultry, while the E.U. utilizes air chilling (AC). With demand for poultry continuing to rise, poultry products with longer shelf life and less food waste will be needed. Meanwhile, widespread efforts to reduce natural resource and energy expenditures, such as water, as a means of enhancing sustainability, exist across the meat industry, including the poultry industry. Therefore, the objective of this study was to compare the impact of WC and AC on the shelf life and meat quality of bone-in and boneless chicken breast.Materials and MethodsA total of 256 eviscerated non-chilled chicken carcasses were obtained from a commercial processing facility in California and transported to the UC Davis meat laboratory within 2 h. Carcasses were randomly and evenly assigned to either water immersion chilling (WC) or air chilling (AC) and then were evenly assigned to be fabricated into bone-in (BI) or boneless (BL) breast. The breast samples were subsequently packaged onto polystyrene trays, overwrapped, and placed into cardboard boxes for dark storage at 4°C for either 7d (phase 1) or 14d (phase 2). Then breast samples were placed into a retail display case maintained at 4°C for 3d. Instrumental color measurement was performed every 12 h during retail display. Microbial analysis was conducted for samples collected on arrival, post chilling, post-fabrication, after dark storage at 4°C for 7d or 14d and after 3d retail display (n = 10 per sampling point per treatment). A panel of 8 untrained participants were asked to evaluate the color and their willingness to purchase (for example color: desirable, acceptable, unacceptable). Analysis of variance was conducted to evaluate the effect of chilling method and storage time on all dependent variables using Proc Mixed in SAS (version 9.4).ResultsThe WC chicken possessed lower psychrotrophic bacterial counts (1.05 log CFU/g) pre-fabrication than the AC chicken (2.12 log CFU/g), indicating that WC may remove a portion of the psychrotrophic bacteria. However, no difference in mesophilic bacterial counts was observed between the two treatments for pre-fabrication samples. The WC chicken and AC chicken, regardless of fabrication type, reached the end of shelf life (7 log CFU/g) at the 14d. The BL samples, regardless of chilling method, had lower total microbial counts throughout storage and display than the BI samples, since the removal of the skin physically removed the general microbial population as well. In terms of objective color, the a* and b* values were higher for AC breast, suggesting that AC breast was more red and yellow than WC breast through the display time. Chilling method did not have an impact on subjective color measurement. During phase 1, untrained panelist considered the color of BL chicken breasts more desirable than the BI breasts. During phase 2, regardless of chilling method or fabrication type, the desirability of color by untrained panelist decreased as display time increased.ConclusionThe results indicate that chilling method had a minimal impact on the shelf life in terms of the microbial counts. Although AC chicken breast tend to be more yellow based on objective color measurement, consumers did not detect a distinct color difference of chicken treated with air chilling or water chilling.
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Affiliation(s)
| | - A. Belk
- Colorado State University Animal Sciences
| | | | - K. Belk
- Colorado State University Animal Sciences
| | - J. Eisen
- University of California Davis Evolution and Ecology
| | - D. Coil
- University of California Davis Evolution and Ecology
| | | | - X. Yang
- University of California Davis Animal Science
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Duarte TL, Belk A, Martin JN, Belk K, Eisen J, Coil D, Metcalf JL, Yang X. A Comparison of Water Chilling and Air Chilling on Poultry Shelf Life. Meat and Muscle Biology 2019. [DOI: 10.22175/mmb2019.0066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
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Belk AD, Duarte TL, Coil D, Belk KE, Eisen J, Yang X, Martin J, Metcalf JL. Utilizing Microbiome and Bioinformatic Tools to Reduce Food Waste in Poultry. Meat and Muscle Biology 2019. [DOI: 10.22175/mmb2019.0094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
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Kirchner J, Sawicki L, Deuschl C, Eisen J, Ruhlmann V, Erfanian Y, Heusch P, Antoch G, Umutlu L. Nutzen von Kontrastmittelgabe und DWI in der 18F-FDG PET/MRT für die Bestimmung des Tumorstadiums bei Lymphom-Patienten. ROFO-FORTSCHR RONTG 2017. [DOI: 10.1055/s-0037-1600418] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- J Kirchner
- Heinrich-Heine-Universität Düsseldorf, Medizinische Fakultät, Institut für Diagnostische und Interventionelle Radiologie, Düsseldorf
| | - L Sawicki
- Heinrich-Heine-Universität Düsseldorf, Medizinische Fakultät, Institut für Diagnostische und Interventionelle Radiologie, Düsseldorf
| | - C Deuschl
- Universität Duisburg-Essen, Medizinische Fakultät, Institut dür Diagnostische und Interventionelle Radiologie und Neuroradiologie, Essen
| | - J Eisen
- Universität Duisburg-Essen, Medizinische Fakultät, Institut dür Diagnostische und Interventionelle Radiologie und Neuroradiologie, Essen
| | - V Ruhlmann
- Universität Duisburg-Essen, Medizinische Fakultät, Klinik für Nuklearmedizin, Essen
| | - Y Erfanian
- Universität Duisburg-Essen, Medizinische Fakultät, Institut dür Diagnostische und Interventionelle Radiologie und Neuroradiologie, Essen
| | - P Heusch
- Heinrich-Heine-Universität Düsseldorf, Medizinische Fakultät, Institut für Diagnostische und Interventionelle Radiologie, Düsseldorf
| | - G Antoch
- Heinrich-Heine-Universität Düsseldorf, Medizinische Fakultät, Institut für Diagnostische und Interventionelle Radiologie, Düsseldorf
| | - L Umutlu
- Universität Duisburg-Essen, Medizinische Fakultät, Institut dür Diagnostische und Interventionelle Radiologie und Neuroradiologie, Essen
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Tallafuss A, Kelly M, Gay L, Gibson D, Batzel P, Karfilis KV, Eisen J, Stankunas K, Postlethwait JH, Washbourne P. Transcriptomes of post-mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation. BMC Genomics 2015; 16:1100. [PMID: 26699284 PMCID: PMC4690400 DOI: 10.1186/s12864-015-2215-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [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] [Received: 08/19/2015] [Accepted: 11/16/2015] [Indexed: 05/14/2023] Open
Abstract
Background Understanding the mechanisms by which neurons are generated and specified, and how they integrate into functional circuits is key to being able to treat disorders of the nervous system and acute brain trauma. Much of what we know about neuronal differentiation has been studied in developing embryos, but differentiation steps may be very different during adult neurogenesis. For this reason, we compared the transcriptomes of newly differentiated neurons in zebrafish embryos and adults. Results Using a 4tU RNA labeling method, we isolated and sequenced mRNA specifically from cells of one day old embryos and adults expressing the transgene HA-uprt-mcherry under control of the neuronal marker elavl3. By categorizing transcript products into different protein classes, we identified similarities and differences of gene usage between adult and embryonic neuronal differentiation. We found that neurons in the adult brain and in the nervous system of one day old embryos commonly use transcription factors - some of them identical - during the differentiation process. When we directly compared adult differentiating neurons to embryonic differentiating neurons, however, we found that during adult neuronal differentiation, the expression of neuropeptides and neurotransmitter pathway genes is more common, whereas classical developmental signaling through secreted molecules like Hedgehog or Wnt are less enriched, as compared to embryonic stages. Conclusions We conclude that both adult and embryonic differentiating neurons show enriched use of transcription factors compared to surrounding cells. However, adult and embryonic developing neurons use alternative pathways to differentiate. Our study provides evidence that adult neuronal differentiation is distinct from the better characterized embryonic neuronal differentiation process. This important insight and the lists of enriched genes we have identified will now help pave the way to a better understanding of the mechanisms of embryonic and adult neuronal differentiation and how to manipulate these processes. Electronic supplementary material The online version of this article (doi:10.1186/s12864-015-2215-8) contains supplementary material, which is available to authorized users.
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Affiliation(s)
| | - Meghan Kelly
- Institute of Neuroscience, University of Oregon, Eugene, OR, USA.
| | - Leslie Gay
- Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.
| | - Dan Gibson
- Current address: Vollum Institute, Oregon Health and Science University, Portland, OR, USA.
| | - Peter Batzel
- Institute of Neuroscience, University of Oregon, Eugene, OR, USA.
| | - Kate V Karfilis
- Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.
| | - Judith Eisen
- Institute of Neuroscience, University of Oregon, Eugene, OR, USA.
| | - Kryn Stankunas
- Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.
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Eichler K, Bickel TM, Klauke S, Eisen J, Vogl TJ, Zangos S. Magnetic resonance imaging evaluation of lipodystrophy in HIV-positive patients receiving highly active antiretroviral therapy. Int J STD AIDS 2014; 26:582-9. [PMID: 25139003 DOI: 10.1177/0956462414546916] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2014] [Accepted: 07/16/2014] [Indexed: 11/16/2022]
Abstract
We evaluated retrospectively an automated method for the separate detection of subcutaneous and visceral fat in the abdominal region by magnetic resonance studies in HIV-positive patients on highly active antiretroviral therapy. The patients were divided into four different groups: lipoatrophy, lipohypertrophy, mixed and the control group. The use of software for the automated detection of abdominal compartment visceral adipose tissue (VAT), total adipose tissue (TAT) and subcutaneous adipose tissue (SAT) was compared to manual evaluation methods (fuzzy C-mean). The results of ROC analysis showed that the parameters, particularly the VAT, are better than the VAT/TAT and at identifying patients with the symptoms of abdominal fat accumulation. A sensitivity of 80.3% and a specificity of 79.5% resulted from a threshold VAT value of >87 cm(2). Moreover, the manual evaluation method was shown to provide greater values for VAT and the VAT/TAT ratio than those given by the automated method. In the present study, a rapid MRI protocol for the detection and assessment of the course of lipodystrophy was presented and tested on a group of patients with signs of HALS, as well as on an antiretroviral naïve control group.
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Affiliation(s)
- K Eichler
- Institute for Diagnostic and Interventional Radiology, J. W. Goethe University of Frankfurt, Germany
| | - T M Bickel
- Infektiologikum, Frankfurt/Main, Germany
| | - S Klauke
- Infektiologikum, Frankfurt/Main, Germany
| | - J Eisen
- Institute for Diagnostic and Interventional Radiology, J. W. Goethe University of Frankfurt, Germany
| | - T J Vogl
- Institute for Diagnostic and Interventional Radiology, J. W. Goethe University of Frankfurt, Germany
| | - S Zangos
- Institute for Diagnostic and Interventional Radiology, J. W. Goethe University of Frankfurt, Germany
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Tallafuss A, Gibson D, Morcos P, Li Y, Seredick S, Eisen J, Washbourne P. Turning gene function ON and OFF using sense and antisense photo-morpholinos in zebrafish. Development 2012; 139:1691-9. [PMID: 22492359 PMCID: PMC3317972 DOI: 10.1242/dev.072702] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
To understand the molecular mechanisms of development it is essential to be able to turn genes on and off at will and in a spatially restricted fashion. Morpholino oligonucleotides (MOs) are very common tools used in several model organisms with which it is possible to block gene expression. Recently developed photo-activated MOs allow control over the onset of MO activity. However, deactivation of photo-cleavable MO activity has remained elusive. Here, we describe photo-cleavable MOs with which it is possible to activate or de-activate MO function by UV exposure in a temporal and spatial manner. We show, using several different genes as examples, that it is possible to turn gene expression on or off both in the entire zebrafish embryo and in single cells. We use these tools to demonstrate the sufficiency of no tail expression as late as tailbud stage to drive medial precursor cells towards the notochord cell fate. As a broader approach for the use of photo-cleavable MOs, we show temporal control over gal4 function, which has many potential applications in multiple transgenic lines. We demonstrate temporal manipulation of Gal4 transgene expression in only primary motoneurons and not secondary motoneurons, heretofore impossible with conventional transgenic approaches. In another example, we follow and analyze neural crest cells that regained sox10 function after deactivation of a photo-cleavable sox10-MO at different time points. Our results suggest that sox10 function might not be critical during neural crest formation.
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Tallafuss A, Gibson D, Morcos P, Li Y, Seredick S, Eisen J, Washbourne P. Turning gene function ON and OFF using sense and antisense photo-morpholinos in zebrafish. J Cell Sci 2012. [DOI: 10.1242/jcs.111583] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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Abstract
The enteric nervous system (ENS) is composed of neurons and glia that modulate many aspects of intestinal function. The ability to use both forward and reverse genetic approaches and to visualize development in living embryos and larvae has made zebrafish an attractive model in which to study mechanisms underlying ENS development. In this chapter, we review the recent work describing the development and organization of the zebrafish ENS and how this relates to intestinal motility. We also discuss the cellular, molecular, and genetic mechanisms that have been revealed by these studies and how they are providing new insights into human ENS diseases.
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Affiliation(s)
- Iain Shepherd
- Department of Biology, Emory University Rollins Research Building, Atlanta, Georgia, USA
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Bickel M, Eisen J, Stephan C, Crespi CM, Lutz T, Klauke S, Vogl TJ, Jacobi V, Yang OO, Staszewski S, Zangos S. A standardized, comprehensive magnetic resonance imaging protocol for rapid and precise quantification of HIV-1-associated lipodystrophy. HIV Med 2008; 8:413-9. [PMID: 17760732 DOI: 10.1111/j.1468-1293.2007.00487.x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [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: 11/30/2022]
Abstract
OBJECTIVES Although multiple methods have been proposed, there is no current gold standard for assessing HIV-1-associated lipodystrophy. METHODS HIV-1-infected participants were randomly enrolled and surveyed about changes in the abdomen, thigh, cheek and neck areas. Magnetic resonance imaging (MRI) sequences of these sites were obtained. Participants were grouped according to survey results, and the MRI measurements were compared between groups. RESULTS One hundred participants were included in the study, of whom 79% reported any body fat changes. Persons reporting increased abdominal girth had higher visceral ([mean+/-standard deviation] 142+/-75 vs. 59+/-48 cm2; P<0.0001) and total abdominal adipose tissue than those reporting no change (344+/-119 vs. 201+/-95 cm2; P<0.0001). The amount of localized fat was less for persons reporting sunken cheeks and reduced diameter of the legs compared with those who noted no changes (5.9+/-3.6 vs. 9.3+/-3.8 cm2; P<0.0001, and 35+/-28 vs. 112+/-56 cm2; P<0.0001). Participants reporting increased neck girth had a thicker fat layer in the dorsocervical region compared with those reporting no change (4.0+/-1.8 vs. 2.3+/-1.4 cm; P<0.0002). CONCLUSIONS MRI is a precise method for rapidly surveying body regions affected by HIV-1-associated lipodystrophy. Our proposed protocol provides a rapid, comprehensive survey of these areas, without the need to combine multiple modalities or to expose subjects to radiation.
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Affiliation(s)
- M Bickel
- HIV Medical Treatment and Research Unit, JW Goethe University, Frankfurt, Germany.
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Takayama S, Hostick U, Haendel M, Eisen J, Darimont B. An F-domain introduced by alternative splicing regulates activity of the zebrafish thyroid hormone receptor alpha. Gen Comp Endocrinol 2008; 155:176-89. [PMID: 17583703 PMCID: PMC3758257 DOI: 10.1016/j.ygcen.2007.04.012] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/20/2006] [Revised: 03/19/2007] [Accepted: 04/13/2007] [Indexed: 11/15/2022]
Abstract
Thyroid hormones (THs) play an important role in vertebrate development; however, the underlying mechanisms of their actions are still poorly understood. Zebrafish (Danio rerio) is an emerging vertebrate model system to study the roles of THs during development. In general, the response to THs relies on closely related proteins and mechanisms across vertebrate species, however some species-specific differences exist. In contrast to mammals, zebrafish has two TRalpha genes (thraa, thrab). Moreover, the zebrafish thraa gene expresses a TRalpha isoform (TRalphaA1) that differs from other TRs by containing additional C-terminal amino acids. C-terminal extensions, called "F domains", are common in other members of the nuclear receptor superfamily and modulate the response of these receptors to hormones. Here we demonstrate that the F-domain constrains the transcriptional activity of zebrafish TRalpha by altering the selectivity of this receptor for certain coactivator binding motifs. We found that the F-domain of zebrafish TRalphaA1 is encoded on a separate exon whose inclusion is regulated by alternative splicing, indicating a regulatory role of the F-domain in vivo. Quantitative expression analyses revealed that TRalphaA1 is primarily expressed in reproductive organs whereas TRalphaB and the TRalphaA isoform that lacks the F-domain (TRalphaA1-2) appear to be ubiquitous. The relative expression levels of these TRalpha transcripts differ in a tissue-specific manner suggesting that zebrafish uses both alternative splicing and differential expression of TRalpha genes to diversify the cellular response to THs.
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Affiliation(s)
- Sachiko Takayama
- Institutes of Molecular Biology, University of Oregon, Eugene, OR, 97403-1229, USA
| | - Ute Hostick
- Institutes of Molecular Biology, University of Oregon, Eugene, OR, 97403-1229, USA
- Neuroscience, University of Oregon, Eugene, OR, 97403-1229, USA
| | - Melissa Haendel
- Neuroscience, University of Oregon, Eugene, OR, 97403-1229, USA
| | - Judith Eisen
- Neuroscience, University of Oregon, Eugene, OR, 97403-1229, USA
| | - Beatrice Darimont
- Institutes of Molecular Biology, University of Oregon, Eugene, OR, 97403-1229, USA
- Corresponding author: Institute of Molecular Biology University of Oregon Eugene, OR, 97403-1229 Phone: (541) 346-5265 Fax: (541) 346-5891
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Honjo Y, Eisen J. Neural crest migration and dorsal root ganglia formation in zebrafish erbB3 mutant. Dev Biol 2007. [DOI: 10.1016/j.ydbio.2007.03.402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Eisen J, Honjo Y. WITHDRAWN: Neural crest migration and dorsal root ganglia formation in zebrafish erbB3 mutant. Dev Biol 2007. [DOI: 10.1016/j.ydbio.2007.03.397] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Cornell RA, Yemm E, Bonde G, Li W, d'Alençon C, Wegman L, Eisen J, Zahs A. Touchtone promotes survival of embryonic melanophores in zebrafish. Mech Dev 2004; 121:1365-76. [PMID: 15454266 DOI: 10.1016/j.mod.2004.06.005] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2004] [Accepted: 06/09/2004] [Indexed: 01/16/2023]
Abstract
An outstanding problem in the study of vertebrate development is the identification of the genes that direct neural crest precursor cells to adopt and maintain specific differentiated cell fates. In an effort to identify such genes, we have carried out a mutagenesis screen in zebrafish and isolated mutants that lack neural crest-derived melanophores. In this manuscript we describe the phenotype of one such mutant, touchtone(b722) (tct), and the map position of the gene it defines. Analysis of expression of dopachrome tautomerase (dct) and microphthalmia (mitfa) suggests that melanophore precursors are specified normally in homozygous tct mutants. However, differentiated melanophores are pale, small, and about half of them have disappeared by 48 h of development, apparently by cell death. We show that melanophores require Tct function cell autonomously. Signals from the receptor tyrosine kinase receptor C-kit are essential for survival of melanophores in zebrafish and mammals. However, differences in the phenotypes of tct and c-kit homozygous mutants, and an absence of interaction between c-kit and tct heterozygotes, suggest that Tct functions independently of the C-kit pathway. Other neural crest derivatives, including other pigment cell types, appear normal in tct mutants. Interestingly, tct mutant embryos undergo a temporary period of near complete paralyzis during the second day of development, although markers of axons of motor and sensory neurons look normal in this period. A fraction of tct(b722) mutants survive to adulthood, but mutant adults are small, indicating a role for Tct in post-larval growth. The tct gene maps to a small interval near a telomere of chromosome 18. Thus, we have identified a zebrafish gene that when mutated produces semi-viable offspring and that may serve as a model of human diseases that have both pigmentation and neurological symptoms.
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Affiliation(s)
- Robert A Cornell
- Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, 1-532 Bowen Science Building, 52 Newton Rd., Iowa City, IA 52242, USA.
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18
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Affiliation(s)
- Judith Eisen
- Institute of Neuroscience 1254 University of Oregon Eugene, OR 97403-1254, USA.
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Abstract
While symptom status and social functioning have been observed to be correlated in many cross-sectional studies, little is known about the time course of change in functioning after a change in diagnostic status. Using data from a large longitudinal study of anxiety disorders, we present analyses of the time course of seven domains of social functioning up to 18 months before and after remission from panic disorder with or without agoraphobia. The effect of remission from panic disorder varies by domain. Four domains show a change in outcome, usually positive, after remission. The presence of major depressive disorder (MDD) affects the course of functioning for two domains. Generalized anxiety disorder (GAD) was observed to have effects on five of seven domains. For some domains there is improvement at approximately the same time as change in diagnostic status, although progressive change was seen in others. The amount of improvement was modest on average, indicating that other factors beyond panic symptoms may limit post-remission improvement in social functioning.
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Affiliation(s)
- R L Stout
- Department of Psychiatry and Human Behavior, Brown University, Providence, RI, USA
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Nierman WC, Feldblyum TV, Laub MT, Paulsen IT, Nelson KE, Eisen JA, Heidelberg JF, Alley MR, Ohta N, Maddock JR, Potocka I, Nelson WC, Newton A, Stephens C, Phadke ND, Ely B, DeBoy RT, Dodson RJ, Durkin AS, Gwinn ML, Haft DH, Kolonay JF, Smit J, Craven MB, Khouri H, Shetty J, Berry K, Utterback T, Tran K, Wolf A, Vamathevan J, Ermolaeva M, White O, Salzberg SL, Venter JC, Shapiro L, Fraser CM, Eisen J. Complete genome sequence of Caulobacter crescentus. Proc Natl Acad Sci U S A 2001; 98:4136-41. [PMID: 11259647 PMCID: PMC31192 DOI: 10.1073/pnas.061029298] [Citation(s) in RCA: 388] [Impact Index Per Article: 16.9] [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: 11/18/2022] Open
Abstract
The complete genome sequence of Caulobacter crescentus was determined to be 4,016,942 base pairs in a single circular chromosome encoding 3,767 genes. This organism, which grows in a dilute aquatic environment, coordinates the cell division cycle and multiple cell differentiation events. With the annotated genome sequence, a full description of the genetic network that controls bacterial differentiation, cell growth, and cell cycle progression is within reach. Two-component signal transduction proteins are known to play a significant role in cell cycle progression. Genome analysis revealed that the C. crescentus genome encodes a significantly higher number of these signaling proteins (105) than any bacterial genome sequenced thus far. Another regulatory mechanism involved in cell cycle progression is DNA methylation. The occurrence of the recognition sequence for an essential DNA methylating enzyme that is required for cell cycle regulation is severely limited and shows a bias to intergenic regions. The genome contains multiple clusters of genes encoding proteins essential for survival in a nutrient poor habitat. Included are those involved in chemotaxis, outer membrane channel function, degradation of aromatic ring compounds, and the breakdown of plant-derived carbon sources, in addition to many extracytoplasmic function sigma factors, providing the organism with the ability to respond to a wide range of environmental fluctuations. C. crescentus is, to our knowledge, the first free-living alpha-class proteobacterium to be sequenced and will serve as a foundation for exploring the biology of this group of bacteria, which includes the obligate endosymbiont and human pathogen Rickettsia prowazekii, the plant pathogen Agrobacterium tumefaciens, and the bovine and human pathogen Brucella abortus.
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Affiliation(s)
- W C Nierman
- The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA.
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22
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Read TD, Brunham RC, Shen C, Gill SR, Heidelberg JF, White O, Hickey EK, Peterson J, Utterback T, Berry K, Bass S, Linher K, Weidman J, Khouri H, Craven B, Bowman C, Dodson R, Gwinn M, Nelson W, DeBoy R, Kolonay J, McClarty G, Salzberg SL, Eisen J, Fraser CM. Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39. Nucleic Acids Res 2000; 28:1397-406. [PMID: 10684935 PMCID: PMC111046 DOI: 10.1093/nar/28.6.1397] [Citation(s) in RCA: 580] [Impact Index Per Article: 24.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
The genome sequences of Chlamydia trachomatis mouse pneumonitis (MoPn) strain Nigg (1 069 412 nt) and Chlamydia pneumoniae strain AR39 (1 229 853 nt) were determined using a random shotgun strategy. The MoPn genome exhibited a general conservation of gene order and content with the previously sequenced C.trachomatis serovar D. Differences between C.trachomatis strains were focused on an approximately 50 kb 'plasticity zone' near the termination origins. In this region MoPn contained three copies of a novel gene encoding a >3000 amino acid toxin homologous to a predicted toxin from Escherichia coli O157:H7 but had apparently lost the tryptophan biosyntheis genes found in serovar D in this region. The C. pneumoniae AR39 chromosome was >99.9% identical to the previously sequenced C.pneumoniae CWL029 genome, however, comparative analysis identified an invertible DNA segment upstream of the uridine kinase gene which was in different orientations in the two genomes. AR39 also contained a novel 4524 nt circular single-stranded (ss)DNA bacteriophage, the first time a virus has been reported infecting C. pneumoniae. Although the chlamydial genomes were highly conserved, there were intriguing differences in key nucleotide salvage pathways: C.pneumoniae has a uridine kinase gene for dUTP production, MoPn has a uracil phosphororibosyl transferase, while C.trachomatis serovar D contains neither gene. Chromosomal comparison revealed that there had been multiple large inversion events since the species divergence of C.trachomatis and C.pneumoniae, apparently oriented around the axis of the origin of replication and the termination region. The striking synteny of the Chlamydia genomes and prevalence of tandemly duplicated genes are evidence of minimal chromosome rearrangement and foreign gene uptake, presumably owing to the ecological isolation of the obligate intracellular parasites. In the absence of genetic analysis, comparative genomics will continue to provide insight into the virulence mechanisms of these important human pathogens.
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Affiliation(s)
- T D Read
- The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
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Abstract
The sequences of close to 30 microbial genomes have been completed during the past 5 years, and the sequences of more than 100 genomes should be completed in the next 2 to 4 years. Soon, completed microbial genome sequences will represent a collection of >200,000 predicted coding sequences. While analysis of a single genome provides tremendous biological insights on any given organism, comparative analysis of multiple genomes provides substantially more information on the physiology and evolution of microbial species and expands our ability to better assign putative function to predicted coding sequences.
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Affiliation(s)
- C M Fraser
- The Institute for Genomic Research, Rockville, Maryland 20850, USA.
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Abstract
Systematic studies of course of illness in obsessive-compulsive disorder (OCD) using standardized diagnostic criteria are relatively rare. In the present study, 100 patients diagnosed with OCD were prospectively followed for up to 5 years. Other comorbid conditions included anxiety disorders (76%), major depressive disorder (33%), and at least one personality disorder (33%), mainly in the anxious cluster. Approximately 20% of patients had full remission and 50% had partial remission during follow-up. Significant predictors of partial remission included being married and having lower global severity scores at intake; the presence of major depression was marginally predictive of poorer course. Adequate serotonergic medication was associated with worse course, but findings are likely spurious. Only marital status and global severity were retained as predictors in a final regression model. Findings are discussed with regard to sample characteristics and similarity to other reports on predictors of course and of treatment outcome.
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Affiliation(s)
- G Steketee
- School of Social Work, Boston University, MA 02215, USA.
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Adler AJ, Dubinisky I, Eisen J. Does the use of topical lidocaine, epinephrine, and tetracaine solution provide sufficient anesthesia for laceration repair? Acad Emerg Med 1998; 5:108-12. [PMID: 9492129 DOI: 10.1111/j.1553-2712.1998.tb02593.x] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.7] [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: 02/06/2023]
Abstract
OBJECTIVE To determine: 1) the effectiveness of lidocaine, epinephrine, and tetracaine (LET) solution in eliminating or reducing the pain experienced in suturing superficial lacerations in adult patients; and 2) the effectiveness of LET in reducing the pain of local anesthetic injection. METHODS A prospective, randomized, double-blind study in which 60 adult patients with superficial lacerations were entered was conducted in the ED of a community-based teaching hospital affiliated with the University of Toronto. Following application of the LET or placebo (sterile water) solution to the laceration, a visual analog pain scale was recorded by the patient upon needle probing of the wound margin. If probing was painless, the laceration was repaired using LET alone. If injection of local anesthetic was required, an additional pain scale was elicited to quantify the attenuation of the pain of injection by the prior application of LET. RESULTS Pain scale values on needle probing were significantly reduced in the LET group vs the placebo group (medians of 4.0 vs 5.0 cm, respectively; p < 0.05). Only 13 of the 30 patients in the LET group required additional anesthetic, while all 30 patients in the placebo group requested local anesthetic. Pain scale values on injection of local anesthetic were not significantly different between the LET and placebo groups (medians of 3.5 vs 5.0 cm, respectively; p = 0.09), although there was a trend for lower pain scale values for those patients who received LET. No adverse effects were noted after the application of either LET or placebo solution. Follow-up was achieved for 54 of 60 patients with only 1 complication (a wound infection) reported in the LET group. CONCLUSIONS Significantly fewer patients require an injectable anesthetic when LET is applied. Those who do require an injection may experience less discomfort. These advantages should be balanced against the 20 to 30 minutes necessary for the LET to take effect.
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Affiliation(s)
- A J Adler
- University of Toronto, Ontario, Canada
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Eisen J. Guns in the medical literature. J Med Assoc Ga 1994; 83:330. [PMID: 8071626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
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Affiliation(s)
- J Eisen
- University of Toronto, Ontario, Canada
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Totterman S, Weiss SL, Szumowski J, Katzberg RW, Hornak JP, Proskin HM, Eisen J. MR fat suppression technique in the evaluation of normal structures of the knee. J Comput Assist Tomogr 1989; 13:473-9. [PMID: 2723179 DOI: 10.1097/00004728-198905000-00020] [Citation(s) in RCA: 25] [Impact Index Per Article: 0.7] [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: 01/02/2023]
Abstract
The chopper fat suppression (CFS) pulse sequence, which is a phase sensitive implementation of the Dixon fat suppression method and the spin echo (SE) pulse sequence, was used in the evaluation of anatomic structures of the normal knee using 48 sets of imaging sequences in six volunteers using a repetition time/echo time combination of 1,500/30, 60 ms. A demonstration of the CFS technique in 10 patients with suspected knee pathology is also presented. A semiquantitative grading scale was established to rate anatomic visualization and used to compare CFS and SE pulse sequence techniques. The results in normal subjects demonstrate that hyaline cartilage is significantly better visualized by fat suppression pulse sequence than by conventional SE pulse sequence in the coronal and sagittal planes of imaging (p less than 0.001). The preliminary results from patients studies suggest that CFS imaging may be useful in the evaluation of meniscal tears, in the differentiation of hyaline cartilage from joint fluid, and in the detection of both soft tissue and bone injuries.
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Affiliation(s)
- S Totterman
- Department of Radiology, University of Rochester, School of Medicine and Dentistry, NY
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Abstract
Serial sampling of peripheral blood from six healthy adult male volunteers was performed during daytime waking and nighttime sleeping. In addition, sleep physiology was assessed in all subjects (Ss) and sleep stages scored blind by standard criteria. Samples of plasma were analyzed for cortisol (Co) levels, functional interleukin-1 (IL-1), and interleukin-2 (IL-2) activity. Peripheral blood monocytes (PBM) were assayed to evaluate natural killer (NK) activity and mitogen responsiveness. Dramatic increase in IL-1 activity along with changes in other immune functions occurred during sleep and were related to onset of slow wave sleep.
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Freedman ML, Wildman JM, Rosman J, Eisen J, Greenblatt DR. Benzene inhibition of in vitro rabbit reticulocyte haem synthesis at delta aminolaevulinic acid synthetase: reversal of benzene toxicity by pyridoxine. Br J Haematol 1977; 35:49-60. [PMID: 857848 DOI: 10.1111/j.1365-2141.1977.tb00562.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Benzene (0.113 M) inhibited haem and protein synthesis in rabbit reticulocytes. This inhibition of haem synthesis was found when L-2-[14C]-glycine was used as the radioactive precursor. However, when 4-[14C]delta-aminolaevulinic acid (ALA) was used, there was no significant inhibition. Since ALA measures the haem synthetic pathway beyond the enzyme delta-aminolaevulinic acid synthetase (ALA synthetase), these results suggest that benzene inhibits haem synthesis at or before ALA synthetase. This was confirmed by demonstrating that 1 mM ALA both protected against and reversed the benzene inhibition of reticulocyte protein synthesis. In addition, 1 mM pyridoxine both protected against and reversed the benzene inhibition of reticulocyte protein synthesis. In addition, ImM pyridoxine both protected against and reversed the benzene inhibition of reticulocyte haem and protein synthesis. These results indicate that benzene (or a metabolite) either competes with pyridoxal phosphate at ALA synthetase or competes with pyridoxine for pyridoxal phosphokinase. These results are discussed in terms of their implications for the possible roles of ALA synthetase and the haemin-controlled repressor in benzene-induced aplastic anaemia.
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Jenkins ME, Eisen J, Sequin F. Congenital asymmetry and diploid-triploid mosaicism. Am J Dis Child 1971; 122:80-4. [PMID: 5567414 DOI: 10.1001/archpedi.1971.02110010116024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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