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ABSTRACT: Bacterial composition in Mayetiola hordei populations

PROVIDER: PRJNA915357 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22988049_1.fastq.gz	Fastqsanger.gz
	SRR22988049_2.fastq.gz	Fastqsanger.gz
	SRR22988050_1.fastq.gz	Fastqsanger.gz
	SRR22988050_2.fastq.gz	Fastqsanger.gz
	SRR22988051_1.fastq.gz	Fastqsanger.gz

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Mayetiola hordei

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Living the sweet life: how Liquorilactobacillus hordei TMW 1.1822 changes its behavior in the presence of sucrose in comparison to glucose

Project description:Liquorilactobacillus (L.) hordei (formerly Lactobacillus hordei) is one of the dominating lactic acid bacteria within the water kefir consortium, being highly adapted to survive in this environment, while producing high molecular weight dextrans from sucrose. In this work, we extensively studied the physiological response of L. hordei TMW 1.1822 to sucrose compared to glucose, applying label-free, quantitative proteomics of cell lysates and exoproteomes. This revealed the differential expression of 53 proteins within cellular proteomes, mostly associated with carbohydrate uptake and metabolism. Supported by growth experiments, this suggests L. hordei TMW 1.1822 to favor fructose over other sugars. The dextransucrase was expressed irrespective of the present carbon source, while it was significantly more released in the presence of sucrose (log2FC = 3.09), being among the most abundant proteins within exoproteomes of sucrose-treated cells. Still, L. hordei TMW 1.1822 expressed other sucrose active enzymes, predictively competing with the dextransucrase reaction. While osmolysis appeared to be unlikely, sucrose led to an increased release of a multitude of cytoplasmic proteins, suggesting that biofilm formation in L. hordei is not only composed of a polysaccharide matrix, but also of proteinaceous nature. Therefore, our study highlights the intrinsic adaptation of water kefir-borne L. hordei to sucrose-rich habitats and provides fundamental knowledge for the use as starter culture in plant-based food fermentations with in situ dextran formation.

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High nucleotide substitution rates associated with retrotransposon proliferation drive dynamic secretome evolution in smut pathogens

Project description:Transposable elements (TEs) play a pivotal role in shaping diversity in eukaryotic genomes. The covered smut pathogen on barley, Ustilago hordei, encountered a recent genome expansion. Using long reads, we assembled genomes of 6 U. hordei strains and 3 sister species, to study this genome expansion. We found that larger genome sizes can mainly be attributed to a higher genome fraction of long terminal repeat retrotransposons (LTR-RTs). In the studied smut genomes, LTR-RTs fractions are the largest in U. hordei and are positively correlated to the mating-type locus sizes, which is up to ~560 kb in U. hordei. Furthermore, LTR-RTs were found to be associated with higher nucleotide substitution levels, as these occur in specific genome regions of smut species with a recent LTR-RT proliferation. Moreover, genes in genome regions with higher nucleotide substitution levels generally reside closer to LTR-RTs than other genome regions. Genome regions with many nucleotide substitutions encountered an especially high fraction of CG substitutions, which is not observed for LTR-RT sequences. The high nucleotide substitution levels particularly accelerate the evolution of secretome genes, as their more accessory nature results that substitutions often lead to amino acid alterations.

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