The emergence of SARS-CoV-2 variants of concern such as the B.1.1.7, B.1.35 and the P.1 have prompted calls for governments worldwide to increase their genomic biosurveillance efforts. Globally, quarantine and outbreak management measures have been implemented to stem the introduction of these variants and to monitor any emerging variants of potential clinical significance domestically. Here, we describe the emergence of a new SARS-CoV-2 lineage, mainly from the Central Visayas region of the Philippines. This emergent variant is characterized by 13 lineage-defining mutations, including the co-occurrence of the E484K, N501Y, and P681H mutations at the spike protein region, as well as three additional radical amino acid replacements towards the C-terminal end of the said protein. A three-amino acid deletion at positions 141 to 143 (LGV141_143del) in the spike protein was likewise seen in a region preceding the 144Y deletion found in the B.1.1.7 variant. A single amino acid replacement, K2Q, at the N-terminus of ORF8 was also shared by all 33 samples sequenced. The mutation profile of this new virus variant warrants closer investigation due to its potential public health implications. The current distribution of this emergent variant in the Philippines and its transmission are being monitored and addressed by relevant public health agencies to stem its spread in nearby islands and regions in the country.

中文翻译：

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从菲律宾中米沙ya地区检测到以多个刺突蛋白突变为特征的新兴SARS-CoV-2变异的基因组测序和分析

令人关注的SARS-CoV-2变体（如B.1.1.7，B.1.35和P.1）的出现促使世界各地的政府呼吁加大其基因组生物监测工作。在全球范围内，已经实施了检疫和疫情管理措施，以阻止这些变异的引入并在国内监测任何具有潜在临床意义的新兴变异。在这里，我们描述了主要来自菲律宾中米沙ya地区的新SARS-CoV-2谱系的出现。该新兴变体的特征在于13种谱系定义突变，包括在刺突蛋白区域上同时出现E484K，N501Y和P681H突变，以及在所述C末端的三个额外的自由基氨基酸置换。蛋白质。同样在B.1.1.7变体中发现的144Y缺失之前的区域中也看到了刺突蛋白中141至143位的三个氨基酸缺失（LGV141_143del）。测序的所有33个样品也共享ORF8 N端的单个氨基酸替代物K2Q。由于其潜在的公共卫生影响，这种新病毒变体的突变特征值得进一步研究。相关的公共卫生机构正在监测并处理这种新出现的变种在菲律宾的分布及其传播情况，以阻止其在该国附近岛屿和地区的传播。由于其潜在的公共卫生影响，这种新病毒变体的突变特征值得进一步研究。相关的公共卫生机构正在监视和处理这种新出现的变种在菲律宾的分布及其传播情况，以阻止其在该国附近岛屿和地区的传播。由于其潜在的公共卫生影响，这种新病毒变体的突变特征值得进一步研究。相关的公共卫生机构正在监视和处理这种新出现的变种在菲律宾的分布及其传播情况，以阻止其在该国附近岛屿和地区的传播。