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Clissa L, Macaluso A, Morelli R, Occhinegro A, Piscitiello E, Taddei L, Luppi M, Amici R, Cerri M, Hitrec T, Rinaldi L, Zoccoli A. Fluorescent Neuronal Cells v2: multi-task, multi-format annotations for deep learning in microscopy. Sci Data 2024; 11:184. [PMID: 38341463 PMCID: PMC10858880 DOI: 10.1038/s41597-024-03005-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Accepted: 01/26/2024] [Indexed: 02/12/2024] Open
Abstract
Fluorescent Neuronal Cells v2 is a collection of fluorescence microscopy images and the corresponding ground-truth annotations, designed to foster innovative research in the domains of Life Sciences and Deep Learning. This dataset encompasses three image collections wherein rodent neuronal cell nuclei and cytoplasm are stained with diverse markers to highlight their anatomical or functional characteristics. Specifically, we release 1874 high-resolution images alongside 750 corresponding ground-truth annotations for several learning tasks, including semantic segmentation, object detection and counting. The contribution is two-fold. First, thanks to the variety of annotations and their accessible formats, we anticipate our work will facilitate methodological advancements in computer vision approaches for segmentation, detection, feature extraction, unsupervised and self-supervised learning, transfer learning, and related areas. Second, by enabling extensive exploration and benchmarking, we hope Fluorescent Neuronal Cells v2 will catalyze breakthroughs in fluorescence microscopy analysis and promote cutting-edge discoveries in life sciences.
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Affiliation(s)
- Luca Clissa
- National Institute of Nuclear Physics, Bologna, Italy.
- University of Bologna, Department of Physics and Astronomy, Bologna, Italy.
| | - Antonio Macaluso
- German Research Center for Artificial Intelligence (DFKI), Agents and Simulated Reality Department, Saarbruecken, Germany
| | - Roberto Morelli
- University of Bologna, Department of Physics and Astronomy, Bologna, Italy
| | - Alessandra Occhinegro
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Emiliana Piscitiello
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Ludovico Taddei
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Marco Luppi
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Roberto Amici
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Matteo Cerri
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Timna Hitrec
- University of Bologna, Department of Biomedical and Neuromotor Sciences, Bologna, Italy
| | - Lorenzo Rinaldi
- National Institute of Nuclear Physics, Bologna, Italy
- University of Bologna, Department of Physics and Astronomy, Bologna, Italy
| | - Antonio Zoccoli
- National Institute of Nuclear Physics, Bologna, Italy
- University of Bologna, Department of Physics and Astronomy, Bologna, Italy
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Aung O, Amorim MR, Mendelowitz D, Polotsky VY. Revisiting the Role of Serotonin in Sleep-Disordered Breathing. Int J Mol Sci 2024; 25:1483. [PMID: 38338762 PMCID: PMC10855456 DOI: 10.3390/ijms25031483] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Revised: 01/22/2024] [Accepted: 01/24/2024] [Indexed: 02/12/2024] Open
Abstract
Serotonin or 5-hydroxytryptamine (5-HT) is a ubiquitous neuro-modulator-transmitter that acts in the central nervous system, playing a major role in the control of breathing and other physiological functions. The midbrain, pons, and medulla regions contain several serotonergic nuclei with distinct physiological roles, including regulating the hypercapnic ventilatory response, upper airway patency, and sleep-wake states. Obesity is a major risk factor in the development of sleep-disordered breathing (SDB), such as obstructive sleep apnea (OSA), recurrent closure of the upper airway during sleep, and obesity hypoventilation syndrome (OHS), a condition characterized by daytime hypercapnia and hypoventilation during sleep. Approximately 936 million adults have OSA, and 32 million have OHS worldwide. 5-HT acts on 5-HT receptor subtypes that modulate neural control of breathing and upper airway patency. This article reviews the role of 5-HT in SDB and the current advances in 5-HT-targeted treatments for SDB.
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Affiliation(s)
- O Aung
- Department of Medicine, Johns Hopkins University, Baltimore, MD 21224, USA; (O.A.); (M.R.A.)
- Medical College of Wisconsin, Milwaukee, WI 53226, USA
- Department of Anesthesiology and Critical Care Medicine, George Washington University, Washington, DC 20037, USA
| | - Mateus R. Amorim
- Department of Medicine, Johns Hopkins University, Baltimore, MD 21224, USA; (O.A.); (M.R.A.)
- Department of Anesthesiology and Critical Care Medicine, George Washington University, Washington, DC 20037, USA
| | - David Mendelowitz
- Department of Pharmacology and Physiology, George Washington University, Washington, DC 20037, USA;
| | - Vsevolod Y. Polotsky
- Department of Medicine, Johns Hopkins University, Baltimore, MD 21224, USA; (O.A.); (M.R.A.)
- Department of Anesthesiology and Critical Care Medicine, George Washington University, Washington, DC 20037, USA
- Department of Pharmacology and Physiology, George Washington University, Washington, DC 20037, USA;
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Soto-Perez J, Cleary CM, Sobrinho CR, Mulkey SB, Carroll JL, Tzingounis AV, Mulkey DK. Phox2b-expressing neurons contribute to breathing problems in Kcnq2 loss- and gain-of-function encephalopathy models. Nat Commun 2023; 14:8059. [PMID: 38052789 PMCID: PMC10698053 DOI: 10.1038/s41467-023-43834-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 11/21/2023] [Indexed: 12/07/2023] Open
Abstract
Loss- and gain-of-function variants in the gene encoding KCNQ2 channels are a common cause of developmental and epileptic encephalopathy, a condition characterized by seizures, developmental delays, breathing problems, and early mortality. To understand how KCNQ2 dysfunction impacts behavior in a mouse model, we focus on the control of breathing by neurons expressing the transcription factor Phox2b which includes respiratory neurons in the ventral parafacial region. We find Phox2b-expressing ventral parafacial neurons express Kcnq2 in the absence of other Kcnq isoforms, thus clarifying why disruption of Kcnq2 but not other channel isoforms results in breathing problems. We also find that Kcnq2 deletion or expression of a recurrent gain-of-function variant R201C in Phox2b-expressing neurons increases baseline breathing or decreases the central chemoreflex, respectively, in mice during the light/inactive state. These results uncover mechanisms underlying breathing abnormalities in KCNQ2 encephalopathy and highlight an unappreciated vulnerability of Phox2b-expressing ventral parafacial neurons to KCNQ2 pathogenic variants.
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Affiliation(s)
- J Soto-Perez
- Dept of Physiology and Neurobiology, University of Connecticut, Storrs, CT, USA
| | - C M Cleary
- Dept of Physiology and Neurobiology, University of Connecticut, Storrs, CT, USA
| | - C R Sobrinho
- Dept of Physiology and Neurobiology, University of Connecticut, Storrs, CT, USA
| | - S B Mulkey
- Prenatal Pediatrics Institute, Children's National Hospital, Departments of Neurology and Pediatrics, The George Washington Univ. School of Medicine and Health Sciences, Washington, DC, USA
| | - J L Carroll
- Dept. of Pediatrics, Univ. Arkansas for Medical Sciences, Little Rock, AR, USA
| | - A V Tzingounis
- Dept of Physiology and Neurobiology, University of Connecticut, Storrs, CT, USA.
| | - D K Mulkey
- Dept of Physiology and Neurobiology, University of Connecticut, Storrs, CT, USA.
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Gonye EC, Bayliss DA. Criteria for central respiratory chemoreceptors: experimental evidence supporting current candidate cell groups. Front Physiol 2023; 14:1241662. [PMID: 37719465 PMCID: PMC10502317 DOI: 10.3389/fphys.2023.1241662] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2023] [Accepted: 08/16/2023] [Indexed: 09/19/2023] Open
Abstract
An interoceptive homeostatic system monitors levels of CO2/H+ and provides a proportionate drive to respiratory control networks that adjust lung ventilation to maintain physiologically appropriate levels of CO2 and rapidly regulate tissue acid-base balance. It has long been suspected that the sensory cells responsible for the major CNS contribution to this so-called respiratory CO2/H+ chemoreception are located in the brainstem-but there is still substantial debate in the field as to which specific cells subserve the sensory function. Indeed, at the present time, several cell types have been championed as potential respiratory chemoreceptors, including neurons and astrocytes. In this review, we advance a set of criteria that are necessary and sufficient for definitive acceptance of any cell type as a respiratory chemoreceptor. We examine the extant evidence supporting consideration of the different putative chemoreceptor candidate cell types in the context of these criteria and also note for each where the criteria have not yet been fulfilled. By enumerating these specific criteria we hope to provide a useful heuristic that can be employed both to evaluate the various existing respiratory chemoreceptor candidates, and also to focus effort on specific experimental tests that can satisfy the remaining requirements for definitive acceptance.
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Affiliation(s)
- Elizabeth C. Gonye
- Department of Pharmacology, University of Virginia, Charlottesville, VA, United States
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Zoccal DB. Past questions, present results, future perspectives: interacting chemosensitive areas and the hypercapnic ventilatory response. J Physiol 2022; 600:2549-2550. [DOI: 10.1113/jp283142] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2022] [Accepted: 04/21/2022] [Indexed: 11/08/2022] Open
Affiliation(s)
- Daniel B. Zoccal
- Department of Physiology and Pathology School of Dentistry of Araraquara São Paulo State University (UNESP)
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