Dataset Information

Global analysis of protein lysine lactylation profiles in the marine bacterium Photobacterium damselae

ABSTRACT: Lactylation at lysine residue (Klac) modification is a novel PTM first discovered on histones in mammalian cells in 2019 [8]. It has been observed that Klac modification on histones modulates macrophage polarization and state, and influences cellular metabolic reprogramming in pluripotent stem cells and nonsmall cell lung cancer, and can even induce tumorigenesis [5,6]. Subsequent investigations have shown that Klac modification extends to non-histone proteins in various subcellular compartments and proteins in prokaryotic cells. To date, Klac modification has been extensively identified in various organisms, including humans [8,10-17], mice [18-20], rats [16], insects [21], plants (rice [22] and wheat [23]), fungi (Botrytis cinerea [24] and Phialophora verrucosa [25]), algae (Nannochloropsis oceanica [26]), parasites (Toxoplasma gondii [27] and Trypanosoma brucei [28]), and bacteria (Escherichia coli [5] and Streptococcus mutans [6]). These studies collectively demonstrate the evolutionary conservation of Klac modification across diverse organisms.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Photobacterium Damselae

TISSUE(S): Whole Body

SUBMITTER: Xianliang Ma

LAB HEAD: Yongxiang Yu

PROVIDER: PXD048331 | Pride | 2024-01-30

REPOSITORIES: Pride

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Project description:Limited systems-level understanding of oil synthesis in wild oleaginous algae has hindered the development of microalgal feedstock. Nannochloropsis is a small unicellular microalgae widely distributed in oceans and fresh water. In many large-scale and pilot-scale outdoor cultivation facilities, Nannochloropsis strains have been found to be capable of robust growth when supplied with flue gases, naturally accumulating large quantities of oils in a stationary phase, and exhibiting resistance to environmental contaminants. The rich genomic resources, compact genomes, resistance to foreign DNA invasion, wide ecological adaptation, large collections of natural strains and the demonstrated ability to grow on a large scale suggested Nannochloropsis can serve as research models and platform strains for economical and scalable photosynthetic production of fuels and chemicals. To untangle the intricate genome-wide networks underlying the robust biomass accumulation and oil production in Nannochloropsis, we applied high-throughput mRNA-sequencing and reconstructed the structure and dynamics of the genome-wide functional network underlying robust microalgal triacylglycerol (TAG) production in Nannochloropsis oceanica, by tracking the genome-wide, single-base-resolutiontranscript change for the complete time-courses of nitrogen-depletion-induced TAG synthesis. Nannochloropsis oceanica IMET1 cells were grown in liquid cultures under continuous light (approximately 50 M-BM-5mol photons m-2 s-1) at 25M-bM-^DM-^C and aerated by bubbling with a mixture of 1.5% CO2 in air. Mid-logarithmic phase algal cells were collected and washed three times with axenic seawater. Equal numbers of cells were re-inoculated in nitrogen replete medium (Control condition or C, i.e. N+) and nitrogen deprived medium (N deficiency or N, i.e. N-) with 50M-BM-5mol m-2 s-1 light intensity, respectively. Cell aliquots were collected for RNA isolation after being transferred to the designated conditions for 3h, 4h, 6h, 12h, 24h and 48h. Three biological replicates of algal cultures were established under each of the above M-bM-^@M-^\CM-bM-^@M-^] (i.e. N+) and M-bM-^@M-^\NM-bM-^@M-^] (i.e. N-) conditions, respectively. In total, 36 samples collected at six time points (3h,4h,6h,12h,24h and 48h) were used for mRNA-Seq library preparation and then submitted to Illumina HiSeq 2000 for sequencing.

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Global analysis of protein lysine lactylation profiles in the marine bacterium Photobacterium damselae

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