Genetic basis for probiotic yeast phenotypes revealed by nanopore sequencing.

Joseph, H. Collins and Lohith, Kunyeit and Sarah, Weintraub and Nilesh, Sharma and Charlotte, White and Nabeeha, Haq and Anu Appaiah, K. A. and Reeta, P. Rao and Eric, M. Young (2023) Genetic basis for probiotic yeast phenotypes revealed by nanopore sequencing. Genes Genomes Genetics, 13 (8). pp. 1-10.

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Abstract

Probiotic yeasts are emerging as preventative and therapeutic solutions for disease. Often ingested via cultured foods and beverages, they can survive the harsh conditions of the gastrointestinal tract and adhere to it, where they provide nutrients and inhibit pathogens like Candida albicans. Yet, little is known of the genomic determinants of these beneficial traits. To this end, we have sequenced 2 food-derived probiotic yeast isolates that mitigate fungal infections. We find that the first strain, KTP, is a strain of Saccharomyces cerevisiae within a small clade that lacks any apparent ancestry from common European/wine S. cerevisiae strains. Significantly, we show that S. cerevisiae KTP genes involved in general stress, pH tolerance, and adherence are markedly different from S. cerevisiae S288C but are similar to the commercial probiotic yeast species S. boulardii. This suggests that even though S. cerevisiae KTP and S. boulardii are from different clades, they may achieve probiotic effect through similar genetic mechanisms. We find that the second strain, ApC, is a strain of Issatchenkia occidentalis, one of the few of this family of yeasts to be sequenced. Because of the dissimilarity of its genome structure and gene organization, we infer that I. occidentalis ApC likely achieves a probiotic effect through a different mechanism than the Saccharomyces strains. Therefore, this work establishes a strong genetic link among probiotic Saccharomycetes, advances the genomics of Issatchenkia yeasts, and indicates that probiotic activity is not monophyletic and complimentary mixtures of probiotics could enhance health benefits beyond a single species.

Item Type:	Article
Uncontrolled Keywords:	Saccharomyces cerevisiae strain KTP, Issatchenkia occidentalis strain ApC, probiotic traits associated genes, FLO genes
Subjects:	500 Natural Sciences and Mathematics > 07 Life Sciences > 02 Evolution & genetics 600 Technology > 08 Food technology > 29 Microbiological food > 04 Yeast
Divisions:	Food Microbiology
Depositing User:	Food Sci. & Technol. Information Services
Date Deposited:	08 Dec 2023 06:21
Last Modified:	08 Dec 2023 06:21
URI:	http://ir.cftri.res.in/id/eprint/16819

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