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Ilsley GR, Suyama R, Noda T, Satoh N, Luscombe NM. Finding cell-specific expression patterns in the early Ciona embryo with single-cell RNA-seq. Sci Rep 2020; 10:4961. [PMID: 32188910 PMCID: PMC7080732 DOI: 10.1038/s41598-020-61591-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2018] [Accepted: 02/24/2020] [Indexed: 11/09/2022] Open
Abstract
Single-cell RNA-seq has been established as a reliable and accessible technique enabling new types of analyses, such as identifying cell types and studying spatial and temporal gene expression variation and change at single-cell resolution. Recently, single-cell RNA-seq has been applied to developing embryos, which offers great potential for finding and characterising genes controlling the course of development along with their expression patterns. In this study, we applied single-cell RNA-seq to the 16-cell stage of the Ciona embryo, a marine chordate and performed a computational search for cell-specific gene expression patterns. We recovered many known expression patterns from our single-cell RNA-seq data and despite extensive previous screens, we succeeded in finding new cell-specific patterns, which we validated by in situ and single-cell qPCR.
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Affiliation(s)
- Garth R Ilsley
- Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.,European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom
| | - Ritsuko Suyama
- Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.,Graduate School of Frontier Biosciences, Osaka University, 1-3 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Takeshi Noda
- Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan.,Shinshu University, Matsumoto, Nagano, 390-8621, Japan
| | - Nori Satoh
- Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan
| | - Nicholas M Luscombe
- Okinawa Institute of Science and Technology Graduate University, Onna, Okinawa, 904-0495, Japan. .,The Francis Crick Institute, 1 Midland Road, London, NW1 1AT, UK. .,UCL Genetics Institute, University College London, Gower Street, London, WC1E 6BT, UK.
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Dongaonkar RM, Stewart RH, Quick CM, Uray KL, Cox CS, Laine GA. Award article: Microcirculatory Society Award for Excellence in Lymphatic Research: time course of myocardial interstitial edema resolution and associated left ventricular dysfunction. Microcirculation 2013; 19:714-22. [PMID: 22708850 DOI: 10.1111/j.1549-8719.2012.00204.x] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
OBJECTIVE Although the causal relationship between acute myocardial edema and cardiac dysfunction has been established, resolution of myocardial edema and subsequent recovery of cardiac function have not been established. The time to resolve myocardial edema and the degree that cardiac function is depressed after edema resolves are not known. We therefore characterized temporal changes in cardiac function as acute myocardial edema formed and resolved. METHODS Acute myocardial edema was induced in the canine model by elevating coronary sinus pressure for three hours. Myocardial water content and cardiac function were determined before and during coronary sinus pressure elevation, and after coronary sinus pressure restoration. RESULTS Although no change in systolic properties was detected, accumulation of water in myocardial interstitium was associated with increased diastolic stiffness. When coronary sinus pressure was relieved, myocardial edema resolved within 180 minutes. Diastolic stiffness, however, remained significantly elevated compared with baseline values, and cardiac function remained compromised. CONCLUSIONS The present work suggests that the cardiac dysfunction caused by the formation of myocardial edema may persist after myocardial edema resolves. With the advent of new imaging techniques to quantify myocardial edema, this insight provides a new avenue for research to detect and treat a significant cause of cardiac dysfunction.
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Affiliation(s)
- Ranjeet M Dongaonkar
- Michael E DeBakey Institute, Texas A&M University, College Station, Texas 77843-4466, USA
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Abstract
Myocardial blood flow is heterogeneous, whether considered by chamber, by layers of the ventricular walls, or by microregions within layers. There is also variability of myocardial flow reserve, particularly in layers and microregions, even when the heart is arrested. The variability of flow during arrest may be associated with the resistance pathways to each region, but the variability of flows in the beating heart with vascular tone is probably due to regional differences in work and thus oxygen demand. Heterogeneity by layer may be responsible for the subendocardial ischemia that is common to many forms of heart disease. Microheterogeneity may account for the patchy necrosis that occurs with chronic ischemia.
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Affiliation(s)
- J I Hoffman
- University of California San Francisco 94143, USA
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Gattullo D, Linden RJ, Losano G, Pagliaro P, Westerhof N. Ventricular distension and diastolic coronary blood flow in the anaesthetized dog. Basic Res Cardiol 1993; 88:340-9. [PMID: 8240226 DOI: 10.1007/bf00800640] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
There appears to be no agreement as to whether or not an increase in diastolic left ventricular pressure and/or volume can cause a decrease in diastolic coronary blood flow. We investigated the problem in the anaesthetized dog using a flaccid freely distensible latex balloon inserted into the left ventricle with the animal on extracorporeal circulation and the coronary perfusion pressure constant at about 45 mm Hg. Maximal vasodilatation and suppression of autoregulation in coronary vasculature was obtained by the intracoronary infusion of dipyridamole (10-40 mg/h). Ventricular volume was changed in steps of 10 ml from 10 to 70 ml and back to 10 ml, whilst recording coronary blood flow and left ventricular pressure in the left circumflex coronary artery. Over a range of ventricular volumes from 20 to 50 ml and a concomitant rise in diastolic ventricular pressure to about 20 mm Hg there was no change in the diastolic coronary flow. Only when the ventricular volume was more than two times the control value (i.e. exceeded 50 ml) and left ventricular pressure was more than 20 mm Hg, was there a decrease in coronary flow. During the return of the volume to the control level there was a fall in diastolic flow and ventricular contractility with respect to the values obtained when the volume was increased; these two effects were transient lasting less than 10 min. It was not considered that any of the three models of the coronary circulation, waterfall, intramyocardial pump or varying elastance model could explain our results.(ABSTRACT TRUNCATED AT 250 WORDS)
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Affiliation(s)
- D Gattullo
- Dipartimento di Anatomia e Fisiologia Umana, Università di Torino, Italy
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Karam R, Healy BP, Wicker P. Coronary reserve is depressed in postmyocardial infarction reactive cardiac hypertrophy. Circulation 1990; 81:238-46. [PMID: 2137045 DOI: 10.1161/01.cir.81.1.238] [Citation(s) in RCA: 72] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
After a myocardial infarction (MI), the remaining myocardium undergoes a compensatory reactive hypertrophy. Although coronary perfusion to the surviving myocardium can be an important determinant of cardiac function in this setting, there are no available data regarding myocardial blood flow in reactive hypertrophy. Accordingly, we measured coronary blood flow and reserve using radioactive microspheres in rats 4 weeks after induction of an MI by ligation of the left coronary artery. Maximal coronary dilation was induced by Carbochrome, a potent coronary vasodilator, infused at a rate of 0.45 mg/kg/min up to a total dose of 12 mg/kg. Sham-operated rats served as controls. All animals in the infarct group had a large MI affecting 30-51% (average, 41%) of the left ventricle. Left ventricular end-diastolic pressure was significantly elevated (30 +/- 6.5 vs. 8.0 +/- 2.5 mm Hg in sham-operated rats, p less than 0.01) and baseline hemodynamic indexes of cardiac performance were significantly (p less than 0.01) reduced in this group. Myocyte cross-sectional area measurements were used as an index to quantify the degree of reactive hypertrophy and indicated that the infarcted animals had, on average, a 30% hypertrophic response of the surviving left ventricular myocardium. In the infarcted animals, both coronary flow and vasodilator reserve in the surviving myocardium were depressed. Maximal coronary blood flow in the remaining myocardium was significantly lower than that measured in the sham-operated animals (839 and 1,479 ml/min/100 g, respectively; p less than 0.001). Similarly, minimal coronary resistance was significantly higher in the MI group as compared with the sham group (0.12 vs. 0.07 mm Hg/ml/min/100 g, respectively; p less than 0.001).(ABSTRACT TRUNCATED AT 250 WORDS)
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Affiliation(s)
- R Karam
- Research Institute, Cleveland Clinic Foundation, Ohio
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Dyke CM, Brunsting LA, Salter DR, Murphy CE, Abd-Elfattah A, Wechsler AS. Preload dependence of right ventricular blood flow: I. The normal right ventricle. Ann Thorac Surg 1987; 43:478-83. [PMID: 3579407 DOI: 10.1016/s0003-4975(10)60191-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Right ventricular (RV) failure is commonly treated with intravascular volume expansion to increase the RV-left atrial pressure gradient and improve left-sided filling. As RV pressure rises, chamber distention occurs and wall tension increases. These studies were designed to determine if increased wall tension might impede RV myocardial blood flow in the normal canine right ventricle and thus contribute to RV failure. Hemodynamic data, the septal-RV free wall dimension, and RV myocardial blood flow were obtained at low and high levels of preload and in both the autoregulated and vasodilated (adenosine, 2 mg per kilogram of body weight per minute) states. Elevated filling pressure decreased RV myocardial blood flow in both the autoregulated (0.85 +/- 0.18 to 0.67 +/- 0.15 ml/min/gm; p less than .05) and vasodilated (2.25 +/- 0.50 to 0.85 +/- 0.25 ml/min/gm; p less than .05) states but did not change the transmural distribution of blood flow to the right ventricle. Vasodilator reserve was markedly impaired in the high-preload state. These observations suggest that preload is an important determinant of RV myocardial blood flow. Volume loading to treat RV dysfunction may be limited by impairment of RV myocardial blood flow.
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Lee BY, Wilson GJ, Domenech RJ, MacGregor DC. Relative roles of edema versus contracture in the myocardial postischemic "no-reflow" phenomenon. J Surg Res 1980; 29:50-61. [PMID: 7421179 DOI: 10.1016/0022-4804(80)90008-6] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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Ellis AK, Klocke FJ. Effects of preload on the transmural distribution of perfusion and pressure-flow relationships in the canine coronary vascular bed. Circ Res 1980; 46:68-77. [PMID: 7349919 DOI: 10.1161/01.res.46.1.68] [Citation(s) in RCA: 127] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Feldman RL, Nichols WW, Pepine CJ, Conti CR. Influence of aortic insufficiency on the hemodynamic significance of a coronary artery narrowing. Circulation 1979; 60:259-68. [PMID: 156092 DOI: 10.1161/01.cir.60.2.259] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The coronary hemodynamic effects of controlled aortic insufficiency (AI) were studied in 10 dogs. Coronary blood flow (CBF), before and during reactive hyperemia (RH) with graded coronary diameter narrowings (CN), aortic (Ao) and left ventricular (LV) pressures (P), and aortic blood flow (AoF) were recorded. Opening an adjustable basket catheter, positioned across the aortic valve, created reversible AI quantitated from phasic AoF. AI was regulated so that mean CBF was similar with or without AI. During AI, heart rate and systolic AoP were unchanged, but diastolic AoP declined 14 mm Hg (mean) and end-diastolic LVP increased 8 mm Hg, both p less than 0.05. With CN greater than or equal to 85%, mean CBF decreased with or without AI. Coronary resistance was similar with or without AI. During AI with no CN, peak RH CBF declined significantly and was similar to peak RH with 70% CN without AI. Furthermore, AI with 60% CN caused additional reduction in peak RH and was similar to peak RH with 80% CN without AI. These data suggest that CBF reserve, exposed during RH, is decreased during AI. With AI, a given CN has coronary hemodynamic properties similar to higher degrees of CN without AI. These results may relate to clinical findings of ischemia in patients with AI and no or moderate CN.
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Feldman RL, Nichols WW, Pepine CJ, Conetta DA, Richard Conti C. The coronary hemodynamics of left main and branch coronary stenoses. J Thorac Cardiovasc Surg 1979. [DOI: 10.1016/s0022-5223(19)40906-9] [Citation(s) in RCA: 31] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Kärköla P, Saarela E, Tuononen S, Pokela R, Nuutinen L, Kairaluoma MI, Larmi TK. Intraoperative changes in coronary resistance during aortic valve replacement. Ann Thorac Surg 1978; 25:407-12. [PMID: 646510 DOI: 10.1016/s0003-4975(10)63575-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Coronary vascular resistance was investigated in 10 patients undergoing aortic valve replacement using continuous constant-pressure coronary perfusion at 32 degrees C. After coronary flow was initiated, resistance was low but increased steadily until it reached a certain resting level. The plateau was attained faster after a short period of anoxia than after a longer period. The initial postischemic resistance was dependent on the duration preceding anoxia, being of the same magnitude after short and moderate periods of anoxia but significantly higher after a long period. This resistance difference between the groups lasted for the whole perfusion. The total coronary resistance and flow reached a plateau in 30 minutes, while resistance increased threefold but flow decreased to half of the initial postanoxia flow. Our results indicate the importance of initiating coronary perfusion soon after aortic cross-clamping to avoid increase in the initial vascular resistance and subsequent inadequate myocardial flow.
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Comparison of regional myocardial blood flow and metabolism distal to a critical coronary stenosis in the fibrillating heart during alternate periods of pulsatile and nonpulsatile perfusion. J Thorac Cardiovasc Surg 1978. [DOI: 10.1016/s0022-5223(19)41286-5] [Citation(s) in RCA: 37] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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16
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Abstract
There are two mechanical determinants of coronary blood flow and its distribution: resistance and pressure gradient. Resistance is determined by blood viscosity and the anatomy and geometry of the coronary vascular bed. The coronary vascular pressure gradient is the difference between aortic root pressure and intramyocardial pressure. A number of factors such as coronary atherosclerosis, ventricular hypertrophy, and myocardial edema may adversely affect the determinants of coronary flow before, during, or after cardiopulmonary bypass, thereby lowering or eliminating regional or local coronary reserve and promoting the likelihood of a myocardial ischemic injury. The subendocardial layers of the left ventricle appear to be more vulnerable, perhaps in part because they depend entirely on diastolic coronary flow.
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Affiliation(s)
- J P Archie
- Department of Surgery, University of Alabama in Birmingham School of Medicine and Medical Center, Ala
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Abstract
This study shows that noncoronary collateral flow occurs in normal hearts after chronic coronary occlusion and with left ventricular hypertrophy in variable amounts (0.2 to 16 ml/100 gm/min). Luminal--left ventricular flow is greatest when the heart is arrested by aortic cross-clamping, falls significantly when perfusion pressure is lowered to 50 mm Hg, and increases slightly when blood viscosity is reduced (hemodilution). Our findings indicate that the heart which is arrested by aortic cross-clamping may not be anoxic.
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