Botthoulath Viengvilaiphone, Dalmacio Ida F, Elegado Francisco B, Uy Lawrence Yves, Lin Hsiang-Chun
Graduate School, University of the Philippines Los Baños (UPLB), Laguna, Philippines.
Microbiology Division, Institute of Biological Sciences, UPLB, Laguna, Philippines.
Microbiologyopen. 2025 Oct;14(5):e70048. doi: 10.1002/mbo3.70048.
Currently, there is an increasing use of whole-genome sequencing (WGS) studies to investigate the molecular taxonomy, metabolic properties, enzyme capabilities, and bioactive substances of lactic acid bacteria (LAB) species. In this study, the genome of strain Pediococcus pentosaceus BBS1 was sequenced using the Illumina HiSeq. 2500 platform to determine its classification, annotate its main features, and evaluate its safety characteristics. Results showed an average nucleotide identity (ANI) value of 99.60% for Pediococcus pentosaceus BBS1. P. pentosaceus BBS1 genome was composed of a 1,840,613 bp circular chromosome with a GC content of 37.23%, which contained 1778 predicted protein-coding sequences (CDSs). Rapid Annotation using Subsystems Technology (RAST) linked to the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that strain BBS1 possesses l-acetate dehydrogenase (l-LDH; EC 1.1.1.27) and d-lactate dehydrogenase (d-LDH; EC 1.1.1.28), which are the genes responsible for lactic acid production. Additionally, it was found to contain linamarase, or β-glucosidases (EC 3.2.1.21), a gene that functions for cyanide degradation. Significantly, the safety studies carried out using WGS confirmed the absence of virulence factors, biogenic amines, and antibiotic-resistance genes in BBS1. Our previous research conducted in this study have shown that BBS1 possesses probiotic features, including tolerance to the simulated artificial gastrointestinal tract, bacterial adhesion, antibacterial activity, and antioxidant function. The findings provided herein significantly enhanced the known information on BBS1, supporting its potential application in promoting health through food products.
目前，全基因组测序（WGS）研究在调查乳酸菌（LAB）物种的分子分类、代谢特性、酶功能和生物活性物质方面的应用越来越广泛。在本研究中，使用Illumina HiSeq. 2500平台对戊糖片球菌BBS1菌株的基因组进行测序，以确定其分类，注释其主要特征，并评估其安全特性。结果显示，戊糖片球菌BBS1的平均核苷酸同一性（ANI）值为99.60%。戊糖片球菌BBS1基因组由一条1,840,613 bp的环状染色体组成，GC含量为37.23%，包含1778个预测的蛋白质编码序列（CDS）。使用与京都基因与基因组百科全书（KEGG）分析相关的子系统技术快速注释（RAST）显示，BBS1菌株具有L-乙酸脱氢酶（L-LDH；EC 1.1.1.27）和D-乳酸脱氢酶（D-LDH；EC 1.1.1.28），这些是负责乳酸产生的基因。此外，还发现它含有亚麻苦苷酶或β-葡萄糖苷酶（EC 3.2.1.21），这是一种具有氰化物降解功能的基因。值得注意的是，使用WGS进行的安全性研究证实，BBS1中不存在毒力因子、生物胺和抗生素抗性基因。我们在本研究中进行的先前研究表明，BBS1具有益生菌特性，包括对模拟人工胃肠道的耐受性、细菌粘附性、抗菌活性和抗氧化功能。本文提供的研究结果显著增加了关于BBS1的已知信息，支持其在通过食品促进健康方面的潜在应用。
