Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level

doi:10.1038/srep17689

Title: Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level

Article Details
Other Related Research

We probed the lipid expression dynamics of the oleaginous yeast Yarrowia Lipolytica. We observed that neutral lipid expression is sporadic. By performing single-cell analysis, we found that such noise emanates from the metabolic reaction level. Our results provide an alternative insight into the regulation and phenotypic variability of lipogenesis.

Authors:

Vasdekis, A. E. ^[1] ; Silverman, A. M. ^[2] ; Stephanopoulos, G. ^[2]

Univ. of Idaho, Moscow, ID (United States); Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL)
Massachusetts Inst. of Technology (MIT), Cambridge, MA (United States). Dept. of Chemical Engineering

Publication Date:: 2015-12-14

Report Number(s):: PNNL-SA-110702
Journal ID: ISSN 2045-2322; KP1704020

Grant/Contract Number:: AC05-76RL01830; SC0008744

Type:: Accepted Manuscript

Journal Name:: Scientific Reports

Additional Journal Information:: Journal Volume: 5; Journal ID: ISSN 2045-2322

Publisher:: Nature Publishing Group

Research Org:: Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

Sponsoring Org:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; biophysical methods; metabolic engineering

OSTI Identifier:: 1259946


                    Vasdekis, A. E., Silverman, A. M., and Stephanopoulos, G.. Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level.  United States: N. p.,  
        Web.  doi:10.1038/srep17689.

Copy to clipboard


                    Vasdekis, A. E., Silverman, A. M., & Stephanopoulos, G.. Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level.  United States.  doi:10.1038/srep17689.

Copy to clipboard


                    Vasdekis, A. E., Silverman, A. M., and Stephanopoulos, G.. 2015.  
        "Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level".  United States.  
        doi:10.1038/srep17689.  https://www.osti.gov/servlets/purl/1259946.

Copy to clipboard


                    
@article{osti_1259946,

  title        = {Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level},

  author       = {Vasdekis, A. E. and Silverman, A. M. and Stephanopoulos, G.},

  abstractNote = {We probed the lipid expression dynamics of the oleaginous yeast Yarrowia Lipolytica. We observed that neutral lipid expression is sporadic. By performing single-cell analysis, we found that such noise emanates from the metabolic reaction level. Our results provide an alternative insight into the regulation and phenotypic variability of lipogenesis.},

  doi          = {10.1038/srep17689},

  journal      = {Scientific Reports},

  number       = ,

  volume       = 5,

  place        = {United States},

  year         = {2015},

  month        = {12}

}

Copy to clipboard

Free Publicly Accessible Full Text
Accepted Manuscript (DOE)
Publisher's Version of Record
10.1038/srep17689
https://doi.org/10.1038/srep17689

Citation Metrics
Cited by: 5works
Citation information provided by
Web of Science

Save / Share this Record
Export Metadata
- Endnote
- RIS
- Excel
- CSV
- XML
Save to My Library
Send to Email

Send to Email

Email address:

Content:

Similar Records

Similar records in DOE PAGES and OSTI.GOV collections:

Cells respond to distinct nanoparticle properties with multiple strategies as revealed by single-cell RNA-Seq

Journal Article Mitchell, Hugh D. ; Markillie, Lye Meng ; Chrisler, William B. ; ... October 2016 - ACS Nano

The impact of distinct nanoparticle (NP) properties on cellular response and ultimately human health is unclear. This gap is partially due to experimental difficulties in achieving uniform NP loads in the studied cells, creating heterogeneous populations with some cells “overloaded” while other cells are loaded with few or no NPs. Yet gene expression studies have been conducted in the population as a whole, identifying generic responses, while missing unique responses due to signal averaging across many cells, each carrying different loads. In this paper, we applied single-cell RNA-Seq to alveolar epithelial cells carrying defined loads of aminated or carboxylated quantummore »« less
Cited by 1Full Text Available
The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate

Journal Article Poudel, Suresh ; Giannone, Richard J. ; Basen, Mirko ; ... March 2018 - Biotechnology for Biofuels

Background: Caldicellulosiruptor bescii is a thermophilic cellulolytic bacterium that efficiently deconstructs lignocellulosic biomass into sugars, which subsequently can be fermented into alcohols, such as ethanol, and other products. Deconstruction of complex substrates by C. bescii involves a myriad of highly abundant, substrate-specific extracellular solute binding proteins (ESBPs) and carbohydrate-active enzymes (CAZymes) containing carbohydrate-binding modules (CBMs). Mass spectrometry-based proteomics was employed to investigate how these substrate recognition proteins and enzymes vary as a function of lignocellulosic substrates.Results:Proteomic analysis revealed several key extracellular proteins that respond specifically to either C5 or C6 mono- and polysaccharides. These include proteins of unknown functions (PUFs),more »« less
Full Text Available
Modeling of single event transients with dual double-exponential current sources: Implications for logic cell characterization

Journal Article Black, Dolores Archuleta ; Robinson, William H. ; Wilcox, Ian Zachary ; ... August 2015 - IEEE Transactions on Nuclear Science

Single event effects (SEE) are a reliability concern for modern microelectronics. Bit corruptions can be caused by single event upsets (SEUs) in the storage cells or by sampling single event transients (SETs) from a logic path. Likewise, an accurate prediction of soft error susceptibility from SETs requires good models to convert collected charge into compact descriptions of the current injection process. This paper describes a simple, yet effective, method to model the current waveform resulting from a charge collection event for SET circuit simulations. The model uses two double-exponential current sources in parallel, and the results illustrate why a conventionalmore »« less
Cited by 10Full Text Available
Modeling of single event transients with dual double-exponential current sources: Implications for logic cell characterization

Journal Article Black, Dolores A. ; Robinson, William H. ; Limbrick, Daniel B. ; ... August 2015 - IEEE Transactions on Nuclear Science

Single event effects (SEE) are a reliability concern for modern microelectronics. Bit corruptions can be caused by single event upsets (SEUs) in the storage cells or by sampling single event transients (SETs) from a logic path. An accurate prediction of soft error susceptibility from SETs requires good models to convert collected charge into compact descriptions of the current injection process. This paper describes a simple, yet effective, method to model the current waveform resulting from a charge collection event for SET circuit simulations. The model uses two double-exponential current sources in parallel, and the results illustrate why a conventional modelmore »« less
Cited by 10Full Text Available
Diversity and population structure of northern switchgrass as revealed through exome capture sequencing

Journal Article Evans, Joseph ; Crisovan, Emily ; Barry, Kerrie ; ... October 2015 - The Plant Journal

Panicum virgatum L. (switchgrass) is a polyploid, perennial grass species that is native to North America, and is being developed as a future biofuel feedstock crop. Switchgrass is present primarily in two ecotypes: a northern upland ecotype, composed of tetraploid and octoploid accessions, and a southern lowland ecotype, composed of primarily tetraploid accessions. We employed high-coverage exome capture sequencing (~2.4 Tb) to genotype 537 individuals from 45 upland and 21 lowland populations. From these data, we identified ~27 million single-nucleotide polymorphisms (SNPs), of which 1 590 653 high-confidence SNPs were used in downstream analyses of diversity within and between themore »« less
Cited by 13Full Text Available

Access journal articles and accepted manuscripts resulting from DOE research funding

Title: Origins of cell-to-cell bioprocessing diversity and implications of the extracellular environment revealed at the single-cell level

Access journal articles and accepted manuscripts
resulting from DOE research funding