Meta-transcriptome analysis of a natural spelt sourdough ecosystem during a 10-day spontaneous laboratory fermentation

ABSTRACT: Lactic acid bacteria (LAB) are of industrial importance in the production of fermented foods, among which sourdough-derived products. Despite their limited metabolic capacity LAB contribute considerably to important characteristics of fermented foods, among which extended shelf-life, microbial safety, improved texture, and enhanced organoleptic properties. Thanks to the considerable amount of LAB genomic information that became available during the last years, transcriptome, and by extension meta-transcriptome studies, are the exquisite research approaches to study whole ecosystem gene expression into more detail. In this study, microarray analyses were performed using RNA sampled during four 10-day spontaneous sourdough fermentations carried out in the laboratory, namely two wheat and two spelt fermentations with daily back-slopping. Hereto, the in-house developed functional gene LAB microarray was used, representing 406 genes that play a key role in sugar and nitrogen metabolism, functional metabolite production, stress responses and health and safety characteristics. The results reveal the activation of different key metabolic pathways, the ability to use different energy sources, and successful acid and oxidative stress responses. Also, a new algorithm was developed to compute a net expression profile for each of the represented genes, thereby exceeding the species level.

OTHER RELATED OMICS DATASETS IN: PRJNA123009 PRJNA123017 PRJNA116831 PRJNA123015 PRJNA123013

ORGANISM(S): Lacticaseibacillus casei Companilactobacillus farciminis Limosilactobacillus panis Weissella confusa Lactobacillus helveticus Latilactobacillus curvatus Lentilactobacillus hilgardii Lactococcus lactis Enterococcus mundtii Lentilactobacillus buchneri Streptococcus thermophilus Leuconostoc mesenteroides Lactobacillus gasseri Brevibacterium linens Pediococcus pentosaceus Limosilactobacillus pontis Lactobacillus crispatus Lactobacillus acidophilus Fructilactobacillus sanfranciscensis Latilactobacillus sakei Companilactobacillus alimentarius Lactiplantibacillus pentosus Lactobacillus delbrueckii Enterococcus faecium Bifidobacterium Lacticaseibacillus paracasei Oenococcus oeni Lentilactobacillus parabuchneri Fructilactobacillus fructivorans Companilactobacillus mindensis Lactiplantibacillus plantarum Companilactobacillus paralimentarius Lacticaseibacillus rhamnosus Furfurilactobacillus rossiae Limosilactobacillus fermentum Leuconostoc pseudomesenteroides Enterococcus faecalis Mammaliicoccus lentus Enterococcus casseliflavus Leuconostoc citreum Lactiplantibacillus paraplantarum Lactobacillus johnsonii Pediococcus acidilactici Lactobacillus amylovorus Staphylococcus aureus Enterococcus hirae Limosilactobacillus reuteri Levilactobacillus brevis Limosilactobacillus frumenti

PROVIDER: GSE15691 | GEO | 2010/07/07

SECONDARY ACCESSION(S): PRJNA123013

REPOSITORIES: GEO