Sharma Anshul, Sharma Neha, Gupta Deepshikha, Lee Hae-Jeung, Park Young-Seo
Department of Food and Nutrition, Gachon University, Seongnam-si 13120, Gyeonggi-do, South Korea.
Department of Food Science and Biotechnology, Gachon University, Seongnam-si 13120, Gyeonggi-do, South Korea.
Comput Struct Biotechnol J. 2022 Aug 27;20:4771-4785. doi: 10.1016/j.csbj.2022.08.032. eCollection 2022.
is mostly found in food, plants, and dairy products. Due to their innate genomic features, such as the presence of carbohydrate-active enzymes, bacteriocins, and plasmids, spp. have great biotechnological potential. In this study, four strains were isolated and identified as SG315 (LA), SG255 (LB), CCK940 (LC), and SBC001 (LD). Comparative analysis was performed using their draft genome sequences. Differences among the four strains were analyzed using the average nucleotide identity, dot plot, and multiple alignments of conserved genomic sequences. Functional profiling revealed 2134, 1917, 1751, and 1816 open reading frames; 2023, 1823, 1655, and 1699 protein-coding genes; 60, 57, 83, and 82 RNA-coding genes; and GC content of 37.5 %, 38.8 %, 43.3 %, and 43.2 %, in LA, LB, LC, and LD, respectively. The total number of genes encoding carbohydrate-active enzymes was 76 (LA), 73 (LB), 57 (LC), and 67 (LD). These results indicate that the four strains shared a large number of genes, but their gene content is different. Furthermore, most genes with unknown functions were observed in the prophage regions of the genome. This study also elucidated the oligosaccharide utilization and folate biosynthesis pathways in spp. Taken together, our findings provide useful information on the genomic diversity of CAZymes in the four strains and suggest that these species could be used for potent exploitation.
主要存在于食物、植物和乳制品中。由于其固有的基因组特征，如存在碳水化合物活性酶、细菌素和质粒，[具体菌种]具有巨大的生物技术潜力。在本研究中，分离并鉴定出四株菌株，分别为SG315（LA）、SG255（LB）、CCK940（LC）和SBC001（LD）。使用它们的基因组草图序列进行了比较分析。利用平均核苷酸同一性、点阵图和保守基因组序列的多重比对分析了这四株菌株之间的差异。功能分析揭示了LA、LB、LC和LD中分别有2134、1917、1751和1816个开放阅读框；2023、1823、1655和1699个蛋白质编码基因；60、57、83和82个RNA编码基因；以及GC含量分别为37.5%、38.8%、43.3%和43.2%。编码碳水化合物活性酶的基因总数分别为76（LA）、73（LB）、57（LC）和67（LD）。这些结果表明这四株菌株共享大量基因，但它们的基因内容不同。此外，在基因组的原噬菌体区域观察到大多数功能未知的基因。本研究还阐明了[具体菌种]中的寡糖利用和叶酸生物合成途径。综上所述，我们的研究结果为这四株[具体菌种]中碳水化合物活性酶的基因组多样性提供了有用信息，并表明这些菌种可用于有效开发。
