基因组的混乱程度究竟如何？
How Chaotic Is Genome Chaos?
作者信息
Shapiro James A
机构信息
Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL 60637, USA.
出版信息
Cancers (Basel). 2021 Mar 17;13(6):1358. doi: 10.3390/cancers13061358.
Abstract
Cancer genomes evolve in a punctuated manner during tumor evolution. Abrupt genome restructuring at key steps in this evolution has been called "genome chaos." To answer whether widespread genome change is truly chaotic, this review (i) summarizes the limited number of cell and molecular systems that execute genome restructuring, (ii) describes the characteristic signatures of DNA changes that result from activity of those systems, and (iii) examines two cases where genome restructuring is determined to a significant degree by cell type or viral infection. The conclusion is that many restructured cancer genomes display sufficiently unchaotic signatures to identify the cellular systems responsible for major oncogenic transitions, thereby identifying possible targets for therapies to inhibit tumor progression to greater aggressiveness.
摘要
癌症基因组在肿瘤进化过程中以间断的方式演变。在这一进化的关键步骤中，突然的基因组重组被称为“基因组混乱”。为了回答广泛的基因组变化是否真的混乱，本综述（i）总结了执行基因组重组的有限数量的细胞和分子系统，（ii）描述了由这些系统的活性导致的DNA变化的特征性特征，以及（iii）研究了两个基因组重组在很大程度上由细胞类型或病毒感染决定的案例。结论是，许多重组的癌症基因组显示出足够不混乱的特征，以识别负责主要致癌转变的细胞系统，从而确定抑制肿瘤进展为更具侵袭性的可能治疗靶点。
相似文献
1
How Chaotic Is Genome Chaos?基因组的混乱程度究竟如何？
Cancers (Basel). 2021 Mar 17;13(6):1358. doi: 10.3390/cancers13061358.
2
Genome chaos: survival strategy during crisis.基因组混乱：危机期间的生存策略。
Cell Cycle. 2014;13(4):528-37. doi: 10.4161/cc.27378. Epub 2013 Dec 3.
3
What we have learned about evolutionary genome change in the past 7 decades.我们在过去 70 年里了解到的进化基因组变化。
Biosystems. 2022 Jun;215-216:104669. doi: 10.1016/j.biosystems.2022.104669. Epub 2022 Mar 28.
4
What can evolutionary biology learn from cancer biology?从癌症生物学中能学到什么进化生物学知识？
Prog Biophys Mol Biol. 2021 Oct;165:19-28. doi: 10.1016/j.pbiomolbio.2021.03.005. Epub 2021 Apr 27.
5
Experimental Induction of Genome Chaos.基因组混乱的实验诱导
Methods Mol Biol. 2018;1769:337-352. doi: 10.1007/978-1-4939-7780-2_21.
6
CtIP-mediated DNA resection is dispensable for IgH class switch recombination by alternative end-joining.CtIP 介导的 DNA 切除对于通过替代末端连接的 IgH 类别转换重组是可有可无的。
Proc Natl Acad Sci U S A. 2020 Oct 13;117(41):25700-25711. doi: 10.1073/pnas.2010972117. Epub 2020 Sep 28.
7
Genes, Proteins, and Biological Pathways Preventing Chromothripsis.预防染色体碎裂的基因、蛋白质和生物途径。
Methods Mol Biol. 2018;1769:231-251. doi: 10.1007/978-1-4939-7780-2_15.
8
HMCES Functions in the Alternative End-Joining Pathway of the DNA DSB Repair during Class Switch Recombination in B Cells.HMCES 在 B 细胞类别转换重组中 DNA DSB 修复的非同源末端连接途径中发挥作用。
Mol Cell. 2020 Jan 16;77(2):384-394.e4. doi: 10.1016/j.molcel.2019.10.031. Epub 2019 Dec 2.
9
Redundant function of DNA ligase 1 and 3 in alternative end-joining during immunoglobulin class switch recombination.DNA连接酶1和3在免疫球蛋白类别转换重组过程中的替代末端连接中的冗余功能。
Proc Natl Acad Sci U S A. 2016 Feb 2;113(5):1261-6. doi: 10.1073/pnas.1521630113. Epub 2016 Jan 19.
10
Chromoanagenesis: a piece of the macroevolution scenario.染色体混乱：宏观进化场景的一部分。
Mol Cytogenet. 2020 Jan 28;13:3. doi: 10.1186/s13039-020-0470-0. eCollection 2020.
引用本文的文献
1
Chromothripsis.染色体碎裂
Methods Mol Biol. 2025;2968:3-33. doi: 10.1007/978-1-0716-4750-9_1.
2
Evolutionary View of Liver Pathology.肝脏病理学的进化观点。
Evol Appl. 2024 Dec 22;17(12):e70059. doi: 10.1111/eva.70059. eCollection 2024 Dec.
3
repeat expansion creates the unstable folate-sensitive fragile site FRA9A.重复扩增产生不稳定的叶酸敏感脆性位点FRA9A。
NAR Mol Med. 2024 Nov 12;1(4):ugae019. doi: 10.1093/narmme/ugae019. eCollection 2024 Oct.
4
The Spiral Model of Evolution: Stable Life Forms of Organisms and Unstable Life Forms of Cancers.螺旋式进化模型：生物体稳定的生命形态与癌症不稳定的生命形态。
Int J Mol Sci. 2024 Aug 23;25(17):9163. doi: 10.3390/ijms25179163.
5
Changing the Landscape of Solid Tumor Therapy from Apoptosis-Promoting to Apoptosis-Inhibiting Strategies.将实体瘤治疗格局从促凋亡策略转变为抗凋亡策略。
Curr Issues Mol Biol. 2024 May 28;46(6):5379-5396. doi: 10.3390/cimb46060322.
6
Unraveling the Drivers of Tumorigenesis in the Context of Evolution: Theoretical Models and Bioinformatics Tools.解析进化背景下肿瘤发生的驱动因素：理论模型和生物信息学工具。
J Mol Evol. 2023 Aug;91(4):405-423. doi: 10.1007/s00239-023-10117-0. Epub 2023 May 29.
7
Cancer and Chaos and the Complex Network Model of a Multicellular Organism.癌症、混沌与多细胞生物体的复杂网络模型
Biology (Basel). 2022 Sep 5;11(9):1317. doi: 10.3390/biology11091317.
8
POLQ suppresses genome instability and alterations in DNA repeat tract lengths.POLQ抑制基因组不稳定性以及DNA重复序列长度的改变。
NAR Cancer. 2022 Jun 29;4(3):zcac020. doi: 10.1093/narcan/zcac020. eCollection 2022 Sep.
9
Genome Chaos, Information Creation, and Cancer Emergence: Searching for New Frameworks on the 50th Anniversary of the "War on Cancer".基因组混沌、信息生成与癌症发生：在“抗癌之战”五十周年之际探寻新框架
Genes (Basel). 2021 Dec 31;13(1):101. doi: 10.3390/genes13010101.
10
Cancer Immunoediting and beyond in 2021.2021 年的癌症免疫编辑及超越
Int J Mol Sci. 2021 Dec 10;22(24):13275. doi: 10.3390/ijms222413275.
本文引用的文献
1
Multiple Chromoanasynthesis in a Rare Case of Sporadic Renal Leiomyosarcoma: A Case Report.散发性肾平滑肌肉瘤罕见病例中的多染色体核型分析：一例报告
Front Oncol. 2020 Aug 19;10:1653. doi: 10.3389/fonc.2020.01653. eCollection 2020.
2
Chromoanasynthesis as a cause of Jacobsen syndrome.染色质合成障碍导致雅各布森综合征。
Am J Med Genet A. 2020 Nov;182(11):2533-2539. doi: 10.1002/ajmg.a.61824. Epub 2020 Aug 25.
3
Extrachromosomal DNA is associated with oncogene amplification and poor outcome across multiple cancers.染色体外 DNA 与多种癌症中的癌基因扩增和不良预后相关。
Nat Genet. 2020 Sep;52(9):891-897. doi: 10.1038/s41588-020-0678-2. Epub 2020 Aug 17.
4
Characterizing the ecological and evolutionary dynamics of cancer.描述癌症的生态和进化动态。
Nat Genet. 2020 Aug;52(8):759-767. doi: 10.1038/s41588-020-0668-4. Epub 2020 Jul 27.
5
BRCA1-associated structural variations are a consequence of polymerase theta-mediated end-joining.BRCA1 相关结构变异是聚合酶θ介导的末端连接的结果。
Nat Commun. 2020 Jul 17;11(1):3615. doi: 10.1038/s41467-020-17455-3.
6
Regulation of the Human Papillomavirus Life Cycle by DNA Damage Repair Pathways and Epigenetic Factors.DNA 损伤修复途径和表观遗传因素对人乳头瘤病毒生命周期的调控。
Viruses. 2020 Jul 10;12(7):744. doi: 10.3390/v12070744.
7
IgCaller for reconstructing immunoglobulin gene rearrangements and oncogenic translocations from whole-genome sequencing in lymphoid neoplasms.IgCaller 用于从淋巴肿瘤的全基因组测序中重建免疫球蛋白基因重排和致癌易位。
Nat Commun. 2020 Jul 7;11(1):3390. doi: 10.1038/s41467-020-17095-7.
8
Strands of evidence about cancer evolution.关于癌症演变的证据链。
Nature. 2020 Jul;583(7815):207-209. doi: 10.1038/d41586-020-01815-6.
9
B Cell Lymphoma.B 细胞淋巴瘤。
Adv Exp Med Biol. 2020;1254:161-181. doi: 10.1007/978-981-15-3532-1_12.
10
Mechanisms generating cancer genome complexity from a single cell division error.从单个细胞分裂错误中产生癌症基因组复杂性的机制。
Science. 2020 Apr 17;368(6488). doi: 10.1126/science.aba0712.
Zotero 插件