Yerukala Sathipati Srinivasulu, Shukla Sanjay K, Ho Shinn-Ying
Center for Precision Medicine Research, Marshfield Clinic Research Institute, Marshfield, WI 54449, USA.
Institute of Bioinformatics and Systems Biology, National Yang Ming Chiao Tung University, Hsinchu, Taiwan.
iScience. 2022 Jan 21;25(1):103560. doi: 10.1016/j.isci.2021.103560. Epub 2021 Dec 2.
Knowledge of the host-specific properties of the spike protein is of crucial importance to understand the adaptability of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) to infect multiple species and alter transmissibility, particularly in humans. Here, we propose a spike protein predictor SPIKES incorporating with an inheritable bi-objective combinatorial genetic algorithm to identify the biochemical properties of spike proteins and determine their specificity to human hosts. SPIKES identified 20 informative physicochemical properties of the spike protein, including information measures for alpha helix and relative mutability, and amino acid and dipeptide compositions, which have shown compositional difference at the amino acid sequence level between human and diverse animal coronaviruses. We suggest that alterations of these amino acids between human and animal coronaviruses may provide insights into the development and transmission of SARS-CoV-2 in human and other species and support the discovery of targeted antiviral therapies.
了解刺突蛋白的宿主特异性特性对于理解严重急性呼吸综合征冠状病毒2（SARS-CoV-2）感染多种物种并改变传播性的适应性至关重要，尤其是在人类中。在此，我们提出了一种刺突蛋白预测器SPIKES，它结合了一种可遗传的双目标组合遗传算法，以识别刺突蛋白的生化特性并确定其对人类宿主的特异性。SPIKES识别出了刺突蛋白的20种信息丰富的物理化学特性，包括α螺旋的信息度量、相对突变性以及氨基酸和二肽组成，这些特性在人类和多种动物冠状病毒的氨基酸序列水平上显示出组成差异。我们认为，人类和动物冠状病毒之间这些氨基酸的变化可能为SARS-CoV-2在人类和其他物种中的发展和传播提供见解，并支持发现有针对性的抗病毒疗法。
