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ABSTRACT: Enhancement of poly-L-lysine production by engineering sucrose metabolism pathway in Streptomyces albulus PD-1 using cane molasses

PROVIDER: PRJNA1165006 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR30842132_1.fastq.gz	Fastqsanger.gz
	SRR30842132_2.fastq.gz	Fastqsanger.gz
	SRR30842133_1.fastq.gz	Fastqsanger.gz
	SRR30842133_2.fastq.gz	Fastqsanger.gz

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An RNA sequencing data set revealing differentially expressed transcripts during ε-poly-L-lysine production in Streptomyces albulus.

Project description:Purpose: Streptomyces albulus is an industrial producer of ε-poly-L-lysine, an antimicrobial cationic homo poly-amino acid used practically as a natural food preservative. Here, we present RNA sequencing data set unveiling differentially expressed transcripts during ε-poly-L-lysine production in the most extensively studied poly-L-Lys producer, S. albulus NBRC14147. Methods: During the poly-L-Lys fermentation, cells grown for 8 hours and 35 hours were harvested as growth phase cells and production phase cells, respectively, and total RNA were extracted individually. A 100-bp paired-end mRNA sequencing was performed for each sample on the Illumina HiSeq 2500 system. Result: Using an optimized data analysis workflow, we were able to map more than 44 million sequence reads per sample to the reference genome (GenBank accession number ASM385166v1). Differential gene expression analysis was performed using the edgeR. The RNA-seq data revealed that a total of 2449 genes were considered to be differentially expressed during poly-L-Lys production using a fold change cutoff of log2 less than -1 and greater than 1 (equivalent to a ±2-fold change). Conclusion: Our data will serve as a primary source for investigating the regulatory mechanism which govern poly-L-Lys production in S. albulus NBRC14147.

2022-01-19 | GSE192684 | GEO

Project description:High-Level Poly-L-Lysine production in Streptomyces albulus by Multi-Omics-Guided Metabolic Engineering

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Integrative transcriptome and proteome revealed high-yielding mechanisms of epsilon-poly-L-lysine by Streptomyces albulus

Project description:ε-poly-L-lysine (ε-PL) is a high value, widely used natural antimicrobial peptide additive for foods and cosmetic products that is mainly produced by S. albulus. In previous work, we developed the high-yield industrial strain S. albulus WG-608 through successive rounds of engineering. Here, we use integrated physiological, transcriptomic, and proteomics association analysis to resolve the complex mechanisms underlying high ε-PL production by comparing WG-608 with the progenitor strain M-Z18. Our results show that key genes in the glycolysis, glyoxylate, and L-lysine biosynthesis pathways are differentially upregulated in WG-608, while genes in the biosynthetic pathways for fatty acids, various branched amino acids, and secondary metabolite by-products are downregulated. This regulatory pattern results in the introduction of more carbon atoms into L-lysine biosynthesis and ε-PL production. Furthermore, transcriptional and translational upregulation of genes involved in the tricarboxylic acid cycle, oxidative phosphorylation, and pentose phosphate pathway also increase the pools of available NADH, ATP, and NADPH. In addition, significant changes in the regulation of DNA replication, transcription, and translation, two component systems, and quorum sensing may facilitate the adaptability to environmental pressure, thus further regulating the ε-PL biosynthesis. This study enables comprehensive understanding of the biosynthetic mechanisms of ε-PL in S. albulus WG-608, while providing a theoretical foundation development of advanced Streptomycetaceae microbial cell factories.

2023-07-20 | PXD036099 | Pride

An RNA sequencing data set revealing differentially expressed transcripts during ε-poly-L-lysine production in Streptomyces albulus.

Project description:An RNA sequencing data set revealing differentially expressed transcripts during ε-poly-L-lysine production in Streptomyces albulus.

| PRJNA792605 | ENA

Project description:Genomic and metabolomic analyses of Streptomyces albulus with enhanced epsilon-poly-L-lysine production through adaptive laboratory evolution

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Project description:Integrative transcriptome and proteome revealed high-yielding mechanisms of epsilon-poly-L-lysine by Streptomyces albulus

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Corynebacterium glutamicum

Project description:Engineering Corynebacterium glutamicum for fast production of lysine and pipecolic acid

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Engineering topology and kinetics of sucrose metabolism in Saccharomyces cerevisiae for improved ethanol yield

Project description:Sucrose is a major carbon source for industrial bioethanol production by Saccharomyces cerevisiae. In yeasts, two modes of sucrose metabolism occur: (i) extracellular hydrolysis by invertase, followed by uptake and metabolism of glucose and fructose, and (ii) uptake via sucrose-H+ symport followed by intracellular hydrolysis and metabolism. Although alternative start codons in the SUC2 gene enable synthesis of extracellular and intracellular invertase isoforms, sucrose hydrolysis in S. cerevisiae predominantly occurs extracellularly. In anaerobic cultures, intracellular hydrolysis theoretically enables a 9 % higher ethanol yield than extracellular hydrolysis, due to energy costs of sucrose-proton symport. This prediction was tested by engineering the promoter and 5’ coding sequences of SUC2, resulting in relocation of invertase to the cytosol. In anaerobic sucrose-limited chemostats, this iSUC2-strain showed an only 4% increased ethanol yield and high residual sucrose concentrations indicated suboptimal sucrose-transport kinetics. To improve sucrose-uptake affinity, it was subjected to 95 generations of anaerobic, sucrose-limited chemostat cultivation, resulting in a 20-fold decrease of residual sucrose concentrations and a 10-fold increase of the sucrose-transport capacity. A single-cell isolate showed an 11 % higher ethanol yield on sucrose in chemostat and batch cultures than an isogenic SUC2 reference strain, while transcriptome analysis revealed elevated expression of AGT1, encoding a disaccharide-proton symporter, and other maltose-related genes. Deletion of AGT1, which had been duplicated during laboratory evolution, restored the growth characteristics of the unevolved iSUC2 strain. This study demonstrates that engineering the topology of sucrose metabolism is an attractive strategy to improve ethanol yields in industrial processes.

2011-09-06 | GSE30535 | GEO

Project description:Continuous Biohydrogen Production from Sugarcane Molasses

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Clostridium beijerinckii NCIMB8052 wild-type cells vs.Clostridium beijerinckii NCIMB8052 degenerated strain cells

Project description:The transcriptome analysis by microarray was applied on wild-type and degenerated strains of C. beijerinckii NCIMB8052 (WT-8052 and DG-8052, respectively) to elucidate its mechanism of degeneration during solvent fermentation. The comparison of gene expression pattern in relation to ABE production is expected to provide insights toward metabolically engineering of C. beijerinckii NCIMB8052 with prevention of degeneration and eventually enhancement of ABE production.

2016-06-15 | GSE63671 | GEO

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