scholarly journals Mapping Condition-Dependent Regulation of Lipid Metabolism in Saccharomyces cerevisiae

2013 ◽  
Vol 3 (11) ◽  
pp. 1979-1995 ◽  
Author(s):  
Michael C. Jewett ◽  
Christopher T. Workman ◽  
Intawat Nookaew ◽  
Francisco A. Pizarro ◽  
Eduardo Agosin ◽  
...  
2008 ◽  
Vol 2 (1) ◽  
pp. 71 ◽  
Author(s):  
Intawat Nookaew ◽  
Michael C Jewett ◽  
Asawin Meechai ◽  
Chinae Thammarongtham ◽  
Kobkul Laoteng ◽  
...  

2018 ◽  
Vol 11 (1) ◽  
Author(s):  
Zhong-peng Guo ◽  
Sakda Khoomrung ◽  
Jens Nielsen ◽  
Lisbeth Olsson

2010 ◽  
Vol 285 (2) ◽  
pp. 125-149 ◽  
Author(s):  
Manuel J. Villa-García ◽  
Myung Sun Choi ◽  
Flora I. Hinz ◽  
María L. Gaspar ◽  
Stephen A. Jesch ◽  
...  

2019 ◽  
Vol 30 (12) ◽  
pp. 1555-1574 ◽  
Author(s):  
Maria Nieves Martinez Marshall ◽  
Anita Emmerstorfer-Augustin ◽  
Kristin L. Leskoske ◽  
Lydia H. Zhang ◽  
Biyun Li ◽  
...  

Eukaryotic cell survival requires maintenance of plasma membrane (PM) homeostasis in response to environmental insults and changes in lipid metabolism. In yeast, a key regulator of PM homeostasis is target of rapamycin (TOR) complex 2 (TORC2), a multiprotein complex containing the evolutionarily conserved TOR protein kinase isoform Tor2. PM localization is essential for TORC2 function. One core TORC2 subunit (Avo1) and two TORC2-­associated regulators (Slm1 and Slm2) contain pleckstrin homology (PH) domains that exhibit specificity for binding phosphatidylinositol-4,5- bisphosphate (PtdIns4,5P2). To investigate the roles of PtdIns4,5P2 and constituent subunits of TORC2, we used auxin-inducible degradation to systematically eliminate these factors and then examined localization, association, and function of the remaining TORC2 components. We found that PtdIns4,5P2 depletion significantly reduced TORC2 activity, yet did not prevent PM localization or cause disassembly of TORC2. Moreover, truncated Avo1 (lacking its C-terminal PH domain) was still recruited to the PM and supported growth. Even when all three PH-containing proteins were absent, the remaining TORC2 subunits were PM-bound. Revealingly, Avo3 localized to the PM independent of both Avo1 and Tor2, whereas both Tor2 and Avo1 required Avo3 for their PM anchoring. Our findings provide new mechanistic information about TORC2 and pinpoint Avo3 as pivotal for TORC2 PM localization and assembly in vivo.


2019 ◽  
Vol 25 (1) ◽  
pp. 19-33 ◽  
Author(s):  
Selvaraj Rajakumar ◽  
Albert Abhishek ◽  
Govindan Sadasivam Selvam ◽  
Vasanthi Nachiappan

2021 ◽  
Vol 118 (5) ◽  
pp. 2043-2052
Author(s):  
Yijin Zhao ◽  
Yueping Zhang ◽  
Jens Nielsen ◽  
Zihe Liu

2018 ◽  
Author(s):  
Benjamín J. Sánchez ◽  
Feiran Li ◽  
Eduard J. Kerkhoven ◽  
Jens Nielsen

SummaryA recurrent problem in genome-scale metabolic models (GEMs) is to correctly represent lipids as biomass requirements, due to the numerous of possible combinations of individual lipid species and the corresponding lack of fully detailed data. In this study we present SLIMEr, a formalism for correctly representing lipid requirements in GEMs using commonly available experimental data. SLIMEr enhances a GEM with mathematical constructs where we Split Lipids Into Measurable Entities (SLIME reactions), in addition to constraints on both the lipid classes and the acyl chain distribution. By implementing SLIMEr on the consensus GEM of Saccharomyces cerevisiae, we can predict accurate amounts of lipid species, analyze the flexibility of the resulting distribution, and compute the energy costs of moving from one metabolic state to another. The approach shows potential for better understanding lipid metabolism in yeast under different conditions. SLIMEr is freely available at https://github.com/SysBioChalmers/SLIMEr.


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