Pangenome analysis and “in silico” overview of carbohydrate and vitamin metabolism of Lactiplantibacillus plantarum strain TRA56 obtained from lactic-acid fermented beverage known as Shalgam

Abstract

Lactiplantibacillus plantarum is a highly adaptable and versatile species that can be found in a diverse range of niches. It can generate bioactive compounds, including riboflavin, folic acid, and exopolysaccharides, which contribute to the functional qualities of fermented foods. This study aimed to provide a brief evaluation of the overall genetic characteristics, as well as the carbohydrate and vitamin metabolisms, of the Lb. plantarum TRA56 (The TRA56). Its genome size was 3,242,215 bp with a 44.41% GC content, including 3.030 coding sequences, 62 tRNA genes, 3 rRNA, 4 ncRNA, 1 CRISPR array, 69 pseudogenes, and 2 intact phages. Its genome had 195 singleton genes that differed from those found in other strains analyzed in the pangenome. Moreover, it has been found that TRA56 possesses a facultative heterofermentive carbohydrate metabolism as a result of the existence of 6-phosphofructokinase (pfk) and fructose-bisphosphate aldolase (fbaA) enzymes. The strain's capacity to synthesize vitamins B2, B5, and B9 has been verified using computational tools. Cholesterol assimilation (46.28±1.6%) and antioxidant activity against DPPH (59.04±0.43%) and ABTS+ (77.76±0.33%) were verified via in vitro tests. The study of the TRA56's genetic and metabolic characteristics demonstrated its potential as a probiotic food supplement, offering functional advantages to the host.

Keywords

• Microbial genomics
• CAZYmes
• Vitamins

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