ArticleBMC genomics2016
Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
36 citing papers in PubMed, 88 citations in OpenAlex.
- Carbon source-driven metabolic and regulatory remodeling defines phenomic states in Lipomyces starkeyi.Scientific reports · 2026Article
- Enzyme-constrained genome-scale model of Yarrowia lipolytica predicts growth-phase specific metabolic engineering targets.Applied microbiology and biotechnology · 2026Article
- Defined YNB-free mineral medium improves reproducibility and enables high-titer production in Yarrowia lipolytica.Microbial cell factories · 2026Article
- Lipid accumulation in nitrogen and phosphorus-limited yeast is caused by less growth-related dilution.Metabolic engineering · 2026Article
- Nitrogen limitation causes a seismic shift in redox state and phosphorylation of proteins implicated in carbon flux and lipidome remodeling in Rhodotorula toruloides.Biotechnology for biofuels and bioproducts · 2025Article
- High-throughput metabolic engineering ofProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Proteomic insights into the physiology and metabolism of oleaginous yeasts and filamentous fungi.Frontiers in microbiology · 2025Review
- Nitrogen limitation-induced adaptive response and lipogenesis in the Antarctic yeastFrontiers in microbiology · 2024Article
- Expanding the genetic toolbox of Rhodotorula toruloides by identification and validation of six novel promoters induced or repressed under nitrogen starvation.Microbial cell factories · 2023Article
- Transcription factors enhancing synthesis of recombinant proteins and resistance to stress in Yarrowia lipolytica.Applied microbiology and biotechnology · 2023Article
- Papiliotrema laurentii: general features and biotechnological applications.Applied microbiology and biotechnology · 2022Review
- "Fight-flight-or-freeze" - how Yarrowia lipolytica responds to stress at molecular level?Applied microbiology and biotechnology · 2022Review
- Autophagy Improves ARA-Rich TAG Accumulation inMicrobiology spectrum · 2022Article
- Production, Biosynthesis, and Commercial Applications of Fatty Acids From Oleaginous Fungi.Frontiers in nutrition · 2022Review
- Microbes: A Hidden Treasure of Polyunsaturated Fatty Acids.Frontiers in nutrition · 2022Review
- Deciphering the mechanism by which the yeast Phaffia rhodozyma responds adaptively to environmental, nutritional, and genetic cues.Journal of industrial microbiology & biotechnology · 2021Review
- Global Transcriptome Profile of the Oleaginous YeastJournal of fungi (Basel, Switzerland) · 2021Article
- Strain Construction for Intracellular Metabolic Pathway Localization in Y. lipolytica.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Engineering the oleaginous yeast Yarrowia lipolytica for high-level resveratrol production.Metabolic engineering · 2020Article
- An Overview of Potential Oleaginous Microorganisms and Their Role in Biodiesel and Omega-3 Fatty Acid-Based Industries.Microorganisms · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundYarrowia lipolytica is an oleaginous ascomycete yeast that stores lipids in response to limitation of nitrogen. While the enzymatic pathways responsible for neutral lipid accumulation in Y. lipolytica are well characterized, regulation of these pathways has received little attention. We therefore sought to characterize the response to nitrogen limitation at system-wide levels, including the proteome, phosphoproteome and metabolome, to better understand how this organism regulates and controls lipid metabolism and to identify targets that may be manipulated to improve lipid yield.
resultsWe found that ribosome structural genes are down-regulated under nitrogen limitation, during which nitrogen containing compounds (alanine, putrescine, spermidine and urea) are depleted and sugar alcohols and TCA cycle intermediates accumulate (citrate, fumarate and malate). We identified 1219 novel phosphorylation sites in Y. lipolytica, 133 of which change in their abundance during nitrogen limitation. Regulatory proteins, including kinases and DNA binding proteins, are particularly enriched for phosphorylation. Within lipid synthesis pathways, we found that ATP-citrate lyase, acetyl-CoA carboxylase and lecithin cholesterol acyl transferase are phosphorylated during nitrogen limitation while many of the proteins involved in β-oxidation are down-regulated, suggesting that storage lipid accumulation may be regulated by phosphorylation of key enzymes. Further, we identified short DNA elements that associate specific transcription factor families with up- and down-regulated genes.
conclusionsIntegration of metabolome, proteome and phosphoproteome data identifies lipid accumulation in response to nitrogen limitation as a two-fold result of increased production of acetyl-CoA from excess citrate and decreased capacity for β-oxidation.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.