Clavijo-Buriticá Diana Carolina, Sosa Chrystian C, Heredia Rafael Cárdenas, Mosquera Arlen James, Álvarez Andrés, Medina Jan, Quimbaya Mauricio
Pontificia Universidad Javeriana Cali, Department of Natural Sciences and Mathematics, Cali, Colombia.
Grupo de Investigación en Evolución, Ecología y Conservación EECO, Programa de Biología, Facultad de Ciencias Básicas y Tecnologías, Universidad del Quindío, Armenia, Colombia.
Heliyon. 2023 Apr 10;9(4):e15367. doi: 10.1016/j.heliyon.2023.e15367. eCollection 2023 Apr.
Model organisms are fundamental in cancer research given that they rise the possibility to characterize in a quantitative-objective fashion the organisms as a whole in ways that are infeasible in humans. From this perspective, model organisms with short generation times and established protocols for genetic manipulation allow the understanding of basic biology principles that might guide carcinogenic onset. The cancer-hallmarks (CHs) approach, a modular perspective for cancer understanding, stands that underlying the variability among different cancer types, critical events support the carcinogenic origin and progression. Thus, CHs as interconnected genetic circuitry, have a causal effect over cancer biogenesis and might represent a comparison scaffold among model organisms to identify and characterize evolutionarily conserved modules to understand cancer. Nevertheless, the identification of novel cancer regulators by comparative genomics approaches relies on selecting specific biological processes or related signaling cascades that limit the type of detected regulators, even more, holistic analysis from a systemic perspective is absent. Similarly, although the plant has been used as a model organism to dissect specific disease-associated mechanisms, given the evolutionary distance between plants and humans, a general concern about the utility of using as a cancer model persists. In the present research, we take advantage of the CHs paradigm as a framework to establish a functional systemic comparison between plants and humans, that allowed the identification not only of specific novel key genetic regulators, but also, biological processes, metabolic systems, and genetic modules that might contribute to the neoplastic transformation. We propose five cancer-hallmarks that overlapped in conserved mechanisms and processes between Arabidopsis and human and thus, represent mechanisms which study can be prioritized in as an alternative model for cancer research. Additionally, derived from network analyses and machine learning strategies, a new set of potential candidate genes that might contribute to neoplastic transformation is described. These findings postulate as a suitable model to dissect, not all, but specific cancer properties, highlighting the importance of using alternative complementary models to understand carcinogenesis.
模式生物在癌症研究中至关重要,因为它们增加了以定量客观方式对生物体整体进行表征的可能性,而这在人类中是不可行的。从这个角度来看,具有短世代时间和成熟遗传操作方案的模式生物有助于理解可能指导致癌作用起始的基本生物学原理。癌症特征(CHs)方法是一种用于理解癌症的模块化观点,认为在不同癌症类型的变异性之下,关键事件支持致癌起源和进展。因此,作为相互关联的遗传电路,CHs对癌症生物发生具有因果作用,并且可能代表模式生物之间的比较框架,以识别和表征进化上保守的模块来理解癌症。然而,通过比较基因组学方法鉴定新的癌症调节因子依赖于选择特定的生物学过程或相关信号级联,这限制了所检测到的调节因子的类型,更重要的是,缺乏从系统角度的整体分析。同样,尽管植物已被用作模式生物来剖析特定的疾病相关机制,但考虑到植物与人类之间的进化距离,对于将其用作癌症模型的实用性仍存在普遍担忧。在本研究中,我们利用CHs范式作为框架,在植物和人类之间建立功能系统比较,这不仅能够识别特定的新型关键遗传调节因子,还能识别可能有助于肿瘤转化的生物学过程、代谢系统和遗传模块。我们提出了五个在拟南芥和人类之间保守机制和过程中重叠的癌症特征,因此代表了在拟南芥中作为癌症研究替代模型可优先研究的机制。此外,通过网络分析和机器学习策略,描述了一组可能有助于肿瘤转化的新的潜在候选基因。这些发现假定拟南芥是剖析特定而非所有癌症特性的合适模型,强调了使用替代互补模型来理解致癌作用的重要性。