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Abstract
PURPOSE This article will briefly review the origins and evolution of functional genomics, first describing the experimental technology, and then some of the approaches applied to data analysis and visualization. It will emphasize application of functional genomics to radiation biology, using examples from the author's work to illustrate several key types of analysis. It concludes with a look at non-coding RNA, alternative reading of the genome, and single-cell transcriptomics, some of the innovative areas that may help to shape future research in radiation biology and oncology. CONCLUSIONS Transcriptomic approaches have provided insight into many areas of radiation biology and medicine, and innovations in technology and data analysis approaches promise continued contributions to radiation science in the future.
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Leduc A, Chaouni S, Pouzoulet F, De Marzi L, Megnin-Chanet F, Corre E, Stefan D, Habrand JL, Sichel F, Laurent C. Differential normal skin transcriptomic response in total body irradiated mice exposed to scattered versus scanned proton beams. Sci Rep 2021; 11:5876. [PMID: 33712719 PMCID: PMC7955113 DOI: 10.1038/s41598-021-85394-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2020] [Accepted: 02/10/2021] [Indexed: 12/13/2022] Open
Abstract
Proton therapy allows to avoid excess radiation dose on normal tissues. However, there are some limitations. Indeed, passive delivery of proton beams results in an increase in the lateral dose upstream of the tumor and active scanning leads to strong differences in dose delivery. This study aims to assess possible differences in the transcriptomic response of skin in C57BL/6 mice after TBI irradiation by active or passive proton beams at the dose of 6 Gy compared to unirradiated mice. In that purpose, total RNA was extracted from skin samples 3 months after irradiation and RNA-Seq was performed. Results showed that active and passive delivery lead to completely different transcription profiles. Indeed, 140 and 167 genes were differentially expressed after active and passive scanning compared to unirradiated, respectively, with only one common gene corresponding to RIKEN cDNA 9930021J03. Moreover, protein-protein interactions performed by STRING analysis showed that 31 and 25 genes are functionally related after active and passive delivery, respectively, with no common gene between both types of proton delivery. Analysis showed that active scanning led to the regulation of genes involved in skin development which was not the case with passive delivery. Moreover, 14 ncRNA were differentially regulated after active scanning against none for passive delivery. Active scanning led to 49 potential mRNA-ncRNA pairs with one ncRNA mainly involved, Gm44383 which is a miRNA. The 43 genes potentially regulated by the miRNA Gm44393 confirmed an important role of active scanning on skin keratin pathway. Our results demonstrated that there are differences in skin gene expression still 3 months after proton irradiation versus unirradiated mouse skin. And strong differences do exist in late skin gene expression between scattered or scanned proton beams. Further investigations are strongly needed to understand this discrepancy and to improve treatments by proton therapy.
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Affiliation(s)
- Alexandre Leduc
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France
| | - Samia Chaouni
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France
| | - Frédéric Pouzoulet
- Institut Curie, RadeXp Platform, centre universitaire, 91405, Orsay, France
| | - Ludovic De Marzi
- Institut Curie, PSL Research University, University Paris Saclay, Laboratoire d'Imagerie Translationnelle en Oncologie, INSERM, 91401, Orsay, France
- Institut Curie, PSL Research University, Radiation Oncology Department, Proton Therapy Centre, Centre Universitaire, 91898, Orsay, France
| | - Frédérique Megnin-Chanet
- INSERM U1196/UMR9187 CMIB, University Paris-Saclay, Institut Curie-Recherche, bât. 112, rue H. Becquerel, 91405, Orsay, France
| | - Erwan Corre
- CNRS, Sorbonne Université, R2424, ABiMS platform, Station Biologique, 29680, Roscoff, France
| | - Dinu Stefan
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France
- Radiotherapy Department, Cancer Centre François Baclesse, 14000, Caen, France
| | - Jean-Louis Habrand
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France
- Radiotherapy Department, Cancer Centre François Baclesse, 14000, Caen, France
| | - François Sichel
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France
| | - Carine Laurent
- Normandie Univ, UNICAEN, UNIROUEN, ABTE-EA4651, ToxEMAC, Cancer Centre François Baclesse, 14000, Caen, France.
- SAPHYN/ARCHADE (Advanced Resource Centre for HADrontherapy in Europe), Cancer Centre François Baclesse, 14000, Caen, France.
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Martín L, Kamstra JH, Hurem S, Lindeman LC, Brede DA, Aanes H, Babiak I, Arenal A, Oughton D, Salbu B, Lyche JL, Aleström P. Altered non-coding RNA expression profile in F 1 progeny 1 year after parental irradiation is linked to adverse effects in zebrafish. Sci Rep 2021; 11:4142. [PMID: 33602989 PMCID: PMC7893006 DOI: 10.1038/s41598-021-83345-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2020] [Accepted: 02/02/2021] [Indexed: 01/31/2023] Open
Abstract
Gamma radiation produces DNA instability and impaired phenotype. Previously, we observed negative effects on phenotype, DNA methylation, and gene expression profiles, in offspring of zebrafish exposed to gamma radiation during gametogenesis. We hypothesize that previously observed effects are accompanied with changes in the expression profile of non-coding RNAs, inherited by next generations. Non-coding RNA expression profile was analysed in F1 offspring (5.5 h post-fertilization) by high-throughput sequencing 1 year after parental irradiation (8.7 mGy/h, 5.2 Gy total dose). Using our previous F1-γ genome-wide gene expression data (GSE98539), hundreds of mRNAs were predicted as targets of differentially expressed (DE) miRNAs, involved in pathways such as insulin receptor, NFkB and PTEN signalling, linking to apoptosis and cancer. snRNAs belonging to the five major spliceosomal snRNAs were down-regulated in the F1-γ group, Indicating transcriptional and post-transcriptional alterations. In addition, DEpiRNA clusters were associated to 9 transposable elements (TEs) (LTR, LINE, and TIR) (p = 0.0024), probable as a response to the activation of these TEs. Moreover, the expression of the lincRNAs malat-1, and several others was altered in the offspring F1, in concordance with previously observed phenotypical alterations. In conclusion, our results demonstrate diverse gamma radiation-induced alterations in the ncRNA profiles of F1 offspring observable 1 year after parental irradiation.
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Affiliation(s)
- Leonardo Martín
- grid.441252.40000 0000 9526 034XMorphophysiology Department, Faculty of Agricultural Sciences, University of Camagüey Ignacio Agramonte y Loynaz, 74 650 Camagüey, Cuba ,grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway
| | - Jorke H. Kamstra
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.5477.10000000120346234Institute for Risk Assessment Sciences (IRAS), Utrecht University, Utrecht, The Netherlands
| | - Selma Hurem
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Paraclinical Sciences, Norwegian University of Life Sciences, 0454 Oslo, Norway
| | - Leif C. Lindeman
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Preclinical Sciences and Pathology, Norwegian University of Life Sciences, 0454 Oslo, Norway
| | - Dag A. Brede
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Environmental Science, Norwegian University of Life Sciences, 1433 Ås, Norway
| | - Håvard Aanes
- grid.458778.1PatoGen AS, P.O.box 548, 6001 Ålesund, Norway
| | - Igor Babiak
- grid.465487.cFaculty of Biosciences and Aquaculture, Nord University, 8026 Bodø, Norway
| | - Amilcar Arenal
- grid.441252.40000 0000 9526 034XMorphophysiology Department, Faculty of Agricultural Sciences, University of Camagüey Ignacio Agramonte y Loynaz, 74 650 Camagüey, Cuba
| | - Deborah Oughton
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Environmental Science, Norwegian University of Life Sciences, 1433 Ås, Norway
| | - Brit Salbu
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Environmental Science, Norwegian University of Life Sciences, 1433 Ås, Norway
| | - Jan Ludvig Lyche
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Paraclinical Sciences, Norwegian University of Life Sciences, 0454 Oslo, Norway
| | - Peter Aleström
- grid.19477.3c0000 0004 0607 975XCERAD CoE, Department of Paraclinical Sciences, Norwegian University of Life Sciences, P.O. Box 5003, Ås, Norway ,grid.19477.3c0000 0004 0607 975XDepartment of Preclinical Sciences and Pathology, Norwegian University of Life Sciences, 0454 Oslo, Norway
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Segaran RC, Chan LY, Wang H, Sethi G, Tang FR. Neuronal Development-Related miRNAs as Biomarkers for Alzheimer's Disease, Depression, Schizophrenia and Ionizing Radiation Exposure. Curr Med Chem 2021; 28:19-52. [PMID: 31965936 DOI: 10.2174/0929867327666200121122910] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2019] [Revised: 09/30/2019] [Accepted: 10/22/2019] [Indexed: 11/22/2022]
Abstract
Radiation exposure may induce Alzheimer's disease (AD), depression or schizophrenia. A number of experimental and clinical studies suggest the involvement of miRNA in the development of these diseases, and also in the neuropathological changes after brain radiation exposure. The current literature review indicated the involvement of 65 miRNAs in neuronal development in the brain. In the brain tissue, blood, or cerebral spinal fluid (CSF), 11, 55, or 28 miRNAs are involved in the development of AD respectively, 89, 50, 19 miRNAs in depression, and 102, 35, 8 miRNAs in schizophrenia. We compared miRNAs regulating neuronal development to those involved in the genesis of AD, depression and schizophrenia and also those driving radiation-induced brain neuropathological changes by reviewing the available data. We found that 3, 11, or 8 neuronal developmentrelated miRNAs from the brain tissue, 13, 16 or 14 miRNAs from the blood of patient with AD, depression and schizophrenia respectively were also involved in radiation-induced brain pathological changes, suggesting a possibly specific involvement of these miRNAs in radiation-induced development of AD, depression and schizophrenia respectively. On the other hand, we noted that radiationinduced changes of two miRNAs, i.e., miR-132, miR-29 in the brain tissue, three miRNAs, i.e., miR- 29c-5p, miR-106b-5p, miR-34a-5p in the blood were also involved in the development of AD, depression and schizophrenia, thereby suggesting that these miRNAs may be involved in the common brain neuropathological changes, such as impairment of neurogenesis and reduced learning memory ability observed in these three diseases and also after radiation exposure.
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Affiliation(s)
- Renu Chandra Segaran
- Radiation Physiology Lab, Singapore Nuclear Research and Safety Initiative, National University of Singapore, CREATE Tower, Singapore 138602, Singapore
| | - Li Yun Chan
- Radiation Physiology Lab, Singapore Nuclear Research and Safety Initiative, National University of Singapore, CREATE Tower, Singapore 138602, Singapore
| | - Hong Wang
- Radiation Physiology Lab, Singapore Nuclear Research and Safety Initiative, National University of Singapore, CREATE Tower, Singapore 138602, Singapore
| | - Gautam Sethi
- Department of Pharmacology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117600, Singapore
| | - Feng Ru Tang
- Radiation Physiology Lab, Singapore Nuclear Research and Safety Initiative, National University of Singapore, CREATE Tower, Singapore 138602, Singapore
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Yan Y, Zhang K, Zhou G, Hu W. MicroRNAs Responding to Space Radiation. Int J Mol Sci 2020; 21:ijms21186603. [PMID: 32917057 PMCID: PMC7555309 DOI: 10.3390/ijms21186603] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2020] [Revised: 09/02/2020] [Accepted: 09/07/2020] [Indexed: 12/15/2022] Open
Abstract
High-energy and high-atom-number (HZE) space radiation poses an inevitable potential threat to astronauts on deep space exploration missions. Compared with low-LET radiation, high-energy and high-LET radiation in space is more efficient in inducing clustered DNA damage with more serious biological consequences, such as carcinogenesis, central nervous system injury and degenerative disease. Space radiation also causes epigenetic changes in addition to inducing damage at the DNA level. Considering the important roles of microRNAs in the regulation of biological responses of radiation, we systematically reviewed both expression profiling and functional studies relating to microRNAs responding to space radiation as well as to space compound environment. Finally, the directions for improvement of the research related to microRNAs responding to space radiation are proposed. A better understanding of the functions and underlying mechanisms of the microRNAs responding to space radiation is of significance to both space radiation risk assessment and therapy development for lesions caused by space radiation.
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Affiliation(s)
| | | | - Guangming Zhou
- Correspondence: (G.Z.); (W.H.); Tel.: +86-512-65884829 (G.Z.); +86-512-65882451 (W.H.)
| | - Wentao Hu
- Correspondence: (G.Z.); (W.H.); Tel.: +86-512-65884829 (G.Z.); +86-512-65882451 (W.H.)
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Lebedeva-Georgievskaya KB, Kokhan VS, Shurtakova AK, Perevezentsev AA, Kudrin VS, Shtemberg AS, Bazyan AS. The Neurobiological Effects of the Combined Impact of Anti-Orthostatic Hanging and Different Ionizing Irradiations. NEUROCHEM J+ 2019. [DOI: 10.1134/s1819712419030103] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Story MD, Durante M. Radiogenomics. Med Phys 2018; 45:e1111-e1122. [DOI: 10.1002/mp.13064] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2018] [Revised: 04/23/2018] [Accepted: 04/27/2018] [Indexed: 12/24/2022] Open
Affiliation(s)
- Michael D. Story
- Department of Radiation Oncology University of Texas, Southwestern Medical Center Dallas TX USA
- Simmons Comprehensive Cancer Center University of Texas, Southwestern Medical Center Dallas TX USA
| | - Marco Durante
- Trento Institute for Fundamental Physics Applications National Institute for Nuclear Physics Trento Italy
- Department of Physics University of Trento Trento Italy
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He Y, Zhang Y, Li H, Zhang H, Li Z, Xiao L, Hu J, Ma Y, Zhang Q, Zhao X. Comparative Profiling of MicroRNAs Reveals the Underlying Toxicological Mechanism in Mice Testis Following Carbon Ion Radiation. Dose Response 2018; 16:1559325818778633. [PMID: 29977176 PMCID: PMC6024298 DOI: 10.1177/1559325818778633] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2017] [Revised: 02/13/2018] [Accepted: 02/13/2018] [Indexed: 01/07/2023] Open
Abstract
This study investigated the toxicity of heavy ion radiation to mice testis by microRNA (miRNA) sequencing and bioinformatics analyses. Testicular indices and histology were measured following enterocoelia irradiation with a 2 Gy carbon ion beam, with the testes exhibiting the most serious injuries at 4 weeks after carbon ion radiation (CIR) exposure. Illumina sequencing technology was used to sequence small RNA libraries of the control and irradiated groups at 4 weeks after CIR. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses implicated differential miRNAs in the regulation of target genes involved in metabolism, development, and reproduction. Here, 8 miRNAs, including miR-34c-5p, miR-138, and 6 let-7 miRNA family members previously reported in testis after radiation, were analyzed by quantitative reverse transcription-polymerase chain reaction (qRT-PCR) to validate miRNA sequencing data. The differentially expressed miRNAs described here provided a novel perspective for the role of miRNAs in testis toxicity following CIR.
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Affiliation(s)
- Yuxuan He
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Yong Zhang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Hongyan Li
- Department of Radiation Medicine, Institute of Modern Physics, Chinese Academy of Sciences, Lanzhou, China
| | - Hong Zhang
- Department of Radiation Medicine, Institute of Modern Physics, Chinese Academy of Sciences, Lanzhou, China
| | - Zongshuai Li
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Longfei Xiao
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Junjie Hu
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Youji Ma
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Quanwei Zhang
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
| | - Xingxu Zhao
- College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, China
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Lumniczky K, Szatmári T, Sáfrány G. Ionizing Radiation-Induced Immune and Inflammatory Reactions in the Brain. Front Immunol 2017; 8:517. [PMID: 28529513 PMCID: PMC5418235 DOI: 10.3389/fimmu.2017.00517] [Citation(s) in RCA: 139] [Impact Index Per Article: 19.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 04/18/2017] [Indexed: 01/17/2023] Open
Abstract
Radiation-induced late brain injury consisting of vascular abnormalities, demyelination, white matter necrosis, and cognitive impairment has been described in patients subjected to cranial radiotherapy for brain tumors. Accumulating evidence suggests that various degrees of cognitive deficit can develop after much lower doses of ionizing radiation, as well. The pathophysiological mechanisms underlying these alterations are not elucidated so far. A permanent deficit in neurogenesis, chronic microvascular alterations, and blood–brain barrier dysfunctionality are considered among the main causative factors. Chronic neuroinflammation and altered immune reactions in the brain, which are inherent complications of brain irradiation, have also been directly implicated in the development of cognitive decline after radiation. This review aims to give a comprehensive overview on radiation-induced immune alterations and inflammatory reactions in the brain and summarizes how these processes can influence cognitive performance. The available data on the risk of low-dose radiation exposure in the development of cognitive impairment and the underlying mechanisms are also discussed.
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Affiliation(s)
- Katalin Lumniczky
- Division of Radiation Medicine, National Public Health Centre, National Research Directorate for Radiobiology and Radiohygiene, Budapest, Hungary
| | - Tünde Szatmári
- Division of Radiation Medicine, National Public Health Centre, National Research Directorate for Radiobiology and Radiohygiene, Budapest, Hungary
| | - Géza Sáfrány
- Division of Radiation Medicine, National Public Health Centre, National Research Directorate for Radiobiology and Radiohygiene, Budapest, Hungary
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Kong EY, Cheng SH, Yu KN. Zebrafish as an In Vivo Model to Assess Epigenetic Effects of Ionizing Radiation. Int J Mol Sci 2016; 17:ijms17122108. [PMID: 27983682 PMCID: PMC5187908 DOI: 10.3390/ijms17122108] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2016] [Revised: 12/01/2016] [Accepted: 12/09/2016] [Indexed: 12/14/2022] Open
Abstract
Exposure to ionizing radiations (IRs) is ubiquitous in our environment and can be categorized into “targeted” effects and “non-targeted” effects. In addition to inducing deoxyribonucleic acid (DNA) damage, IR exposure leads to epigenetic alterations that do not alter DNA sequence. Using an appropriate model to study the biological effects of radiation is crucial to better understand IR responses as well as to develop new strategies to alleviate exposure to IR. Zebrafish, Danio rerio, is a scientific model organism that has yielded scientific advances in several fields and recent studies show the usefulness of this vertebrate model in radiation biology. This review briefly describes both “targeted” and “non-targeted” effects, describes the findings in radiation biology using zebrafish as a model and highlights the potential of zebrafish to assess the epigenetic effects of IR, including DNA methylation, histone modifications and miRNA expression. Other in vivo models are included to compare observations made with zebrafish, or to illustrate the feasibility of in vivo models when the use of zebrafish was unavailable. Finally, tools to study epigenetic modifications in zebrafish, including changes in genome-wide DNA methylation, histone modifications and miRNA expression, are also described in this review.
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Affiliation(s)
- Eva Yi Kong
- Department of Physics and Materials Science, City University of Hong Kong, Hong Kong, China.
| | - Shuk Han Cheng
- Department of Biomedical Sciences, City University of Hong Kong, Hong Kong, China.
- State Key Laboratory in Marine Pollution, City University of Hong Kong, Hong Kong, China.
| | - Kwan Ngok Yu
- Department of Physics and Materials Science, City University of Hong Kong, Hong Kong, China.
- State Key Laboratory in Marine Pollution, City University of Hong Kong, Hong Kong, China.
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Diagnostic value of microRNAs in discriminating malignant thyroid nodules from benign ones on fine-needle aspiration samples. Tumour Biol 2014; 35:9343-53. [DOI: 10.1007/s13277-014-2209-1] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2014] [Accepted: 06/06/2014] [Indexed: 01/23/2023] Open
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12
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Xu D, Gao Y, Huang L, Sun Y. Changes in miRNA expression profile of space-flown Caenorhabditis elegans during Shenzhou-8 mission. LIFE SCIENCES IN SPACE RESEARCH 2014; 1:44-52. [PMID: 26432588 DOI: 10.1016/j.lssr.2013.12.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2013] [Revised: 11/20/2013] [Accepted: 11/25/2013] [Indexed: 06/05/2023]
Abstract
Recent advances in the field of molecular biology have demonstrated that small non-coding microRNAs (miRNAs) have a broad effect on gene expression networks and play a key role in biological responses to environmental stressors. However, little is known about how space radiation exposure and altered gravity affect miRNA expression. The "International Space Biological Experiments" project was carried out in November 2011 by an international collaboration between China and Germany during the Shenzhou-8 (SZ-8) mission. To study the effects of spaceflight on Caenorhabditis elegans (C. elegans), we explored the expression profile miRNA changes in space-flown C. elegans. Dauer C. elegans larvae were taken by SZ-8 spacecraft and experienced the 16.5-day shuttle spaceflight. We performed miRNA microarray analysis, and the results showed that 23 miRNAs were altered in a complex space environment and different expression patterns were observed in the space synthetic and radiation environments. Most putative target genes of the altered miRNAs in the space synthetic environment were predicted to be involved in developmental processes instead of in the regulation of transcription, and the enrichment of these genes was due to space radiation. Furthermore, integration analysis of the miRNA and mRNA expression profiles confirmed that twelve genes were differently regulated by seven miRNAs. These genes may be involved in embryonic development, reproduction, transcription factor activity, oviposition in a space synthetic environment, positive regulation of growth and body morphogenesis in a space radiation environment. Specifically, we found that cel-miR-52, -55, and -56 of the miR-51 family were sensitive to space environmental stressors and could regulate biological behavioural responses and neprilysin activity through the different isoforms of T01C4.1 and F18A12.8. These findings suggest that C. elegans responded to spaceflight by altering the expression of miRNAs and some target genes that function in diverse regulatory pathways.
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Affiliation(s)
- Dan Xu
- Institute of Environmental Systems Biology, Dalian Maritime University, Linghai Road 1, Dalian, 116026, PR China.
| | - Ying Gao
- Institute of Environmental Systems Biology, Dalian Maritime University, Linghai Road 1, Dalian, 116026, PR China.
| | - Lei Huang
- Institute of Environmental Systems Biology, Dalian Maritime University, Linghai Road 1, Dalian, 116026, PR China.
| | - Yeqing Sun
- Institute of Environmental Systems Biology, Dalian Maritime University, Linghai Road 1, Dalian, 116026, PR China.
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Chaudhry MA. Radiation-induced microRNA: Discovery, functional analysis, and cancer radiotherapy. J Cell Biochem 2014; 115:436-49. [DOI: 10.1002/jcb.24694] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Accepted: 10/10/2013] [Indexed: 12/26/2022]
Affiliation(s)
- M. Ahmad Chaudhry
- Department of Medical Laboratory and Radiation Sciences; University of Vermont; Burlington Vermont 05405
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