Did you know ? If you order before Friday 14h we deliver 90PCT of the the time next Tuesday, GENTAUR another in time delivery

Pubmed ID :28886026
Publication Date : //

Population FBA predicts metabolic phenotypes in yeast.


Using protein counts sampled from single cell proteomics distributions to constrain fluxes through a genome-scale model of metabolism, Population flux balance analysis (Population FBA) successfully described metabolic heterogeneity in a population of independent Escherichia coli cells growing in a defined medium. We extend the methodology to account for correlations in protein expression arising from the co-regulation of genes and apply it to study the growth of independent Saccharomyces cerevisiae cells in two different growth media. We find the partitioning of flux between fermentation and respiration predicted by our model agrees with recent 13C fluxomics experiments, and that our model largely recovers the Crabtree effect (the experimentally known bias among certain yeast species toward fermentation with the production of ethanol even in the presence of oxygen), while FBA without proteomics constraints predicts respirative metabolism almost exclusively. The comparisons to the 13C study showed improvement upon inclusion of the correlations and motivated a technique to systematically identify inconsistent kinetic parameters in the literature. The minor secretion fluxes for glycerol and acetate are underestimated by our method, which indicate a need for further refinements to the metabolic model. For yeast cells grown in synthetic defined (SD) medium, the calculated broad distribution of growth rates matches experimental observations from single cell studies, and we characterize several metabolic phenotypes within our modeled populations that make use of diverse pathways. Fast growing yeast cells are predicted to perform significant amount of respiration, use serine-glycine cycle and produce ethanol in mitochondria as opposed to slow growing cells. We use a genetic algorithm to determine the proteomics constraints necessary to reproduce the growth rate distributions seen experimentally. We find that a core set of 51 constraints are essential but that additional constraints are still necessary to recover the observed growth rate distribution in SD medium.

Authors : Labhsetwar Piyush , Melo Marcelo C R , Cole John A , Luthey-Schulten Zaida ,

Related products :

Catalog number Product name Quantity
0801384 Human Paraoxonase 1 PON Standards QQ and RR Phenotypes 2 x 0.3 mL
GEN0801384 Human Paraoxonase 1 (PON) Standards QQ and RR Phenotypes (2 x 0,3 mL)
GEN0801384 Human Paraoxonase 1 (PON) Standards QQ and RR Phenotypes (2 x 0.3 mL) EA
K3-7P-8HH HALO-Tox HT 7 Population species: Human 7 Population "Global" Lympho-Hemotoxicity Assay
K3-5P-6PH HALO-Tox 5 Population species: Pig custom 5 Population "Global" Lympho-Hemotoxicity Assay
K2-5P-6HH HALO-Tox 5 Population species: Human 5 Population "Global" Lympho-Hemotoxicity Assay
K2-4P-5MH HALO-Tox HT 4 Population species: Mouse 4 Population "Global" Lympho-Hemotoxicity Assay
K2-4P-5HH HALO-Tox HT 4 Population species: Human 4 Population "Global" Lympho-Hemotoxicity Assay
K3-4P-5MH HALO-Tox HT 4 Population species: Mouse 4 Population "Global" Lympho-Hemotoxicity Assay
K2-5P-6MH HALO-Tox 5 Population species: Mouse 5 Population "Global" Lympho-Hemotoxicity Assay
K3-5P-6MH HALO-Tox 5 Population species: Mouse 5 Population "Global" Lympho-Hemotoxicity Assay
K3-4P-5HH HALO-Tox HT 4 Population species: Human 4 Population "Global" Lympho-Hemotoxicity Assay
K3-5P-6HH HALO-Tox 5 Population species: Human 5 Population "Global" Lympho-Hemotoxicity Assay
K2-7P-8MH HALO-Tox HT 7 Population species: Mouse 7 Population "Global" Lympho-Hemotoxicity Assay
K2-5P-6PH HALO-Tox 5 Population species: Pig custom 5 Population "Global" Lympho-Hemotoxicity Assay
K3-7P-8MH HALO-Tox HT 7 Population species: Mouse 7 Population "Global" Lympho-Hemotoxicity Assay
K2-7P-8HH HALO-Tox HT 7 Population species: Human 7 Population "Global" Lympho-Hemotoxicity Assay
K2-7P-8CH HALO-Tox HT 7 Population species: Dog 7 Population "Global" Lympho-Hemotoxicity Assay
K3-7P-8RH HALO-Tox HT 7 Population species: Rat 7 Population "Global" Lympho-Hemotoxicity Assay
K2-5P-6RH HALO-Tox 5 Population species: Rat 5 Population "Global" Lympho-Hemotoxicity Assay
K2-5P-6CH HALO-Tox 5 Population species: Dog 5 Population "Global" Lympho-Hemotoxicity Assay
K2-7P-8RH HALO-Tox HT 7 Population species: Rat 7 Population "Global" Lympho-Hemotoxicity Assay
K3-5P-6CH HALO-Tox 5 Population species: Dog 5 Population "Global" Lympho-Hemotoxicity Assay
K3-5P-6RH HALO-Tox 5 Population species: Rat 5 Population "Global" Lympho-Hemotoxicity Assay
K3-4P-5CH HALO-Tox HT 4 Population species: Dog 4 Population "Global" Lympho-Hemotoxicity Assay


 

GENTAUR Belgium BVBA BE0473327336
Voortstraat 49, 1910 Kampenhout BELGIUM
Tel 0032 16 58 90 45

Fax 0032 16 50 90 45
info@gentaur.com | Gentaur





GENTAUR Ltd.
Howard Frank Turnberry House
1404-1410 High Road
Whetstone London N20 9BH
Tel 020 3393 8531 Fax 020 8445 9411
uk@gentaur.com | Gentaur

 

 




GENTAUR France SARL
9, rue Lagrange, 75005 Paris
Tel 01 43 25 01 50

Fax 01 43 25 01 60
RCS Paris B 484 237 888

SIRET 48423788800017

BNP PARIBAS PARIS PL MAUBERT BIC BNPAFRPPPRG

france@gentaur.com | Gentaur

GENTAUR GmbH
Marienbongard 20
52062 Aachen Deutschland
Support Karolina Elandt
Tel: 0035929830070
Fax: (+49) 241 56 00 47 88

Logistic :0241 40 08 90 86
Bankleitzahl 39050000
IBAN lautet DE8839050000107569353
Handelsregister Aachen HR B 16058
Umsatzsteuer-Identifikationsnummer *** DE 815175831
Steuernummer 201/5961/3925
de@gentaur.com | Gentaur

GENTAUR U.S.A
Genprice Inc, Logistics
547, Yurok Circle
San Jose, CA 95123
CA 95123
Tel (408) 780-0908,
Fax (408) 780-0908,
sales@genprice.com

Genprice Inc, Invoices and accounting
6017 Snell Ave, Ste 357
San Jose, CA 95123




GENTAUR Nederland BV
NL850396268B01 KVK nummer 52327027
Kuiper 1
5521 DG Eersel Nederland
Tel:  0208-080893  Fax: 0497-517897
nl@gentaur.com | Gentaur
IBAN: NL04 RABO 0156 9854 62   SWIFT RABONL2U






GENTAUR Spain
tel:0911876558
spain@gentaur.com | Gentaur






ГЕНТАУЪР БЪЛГАРИЯ
ID # 201 358 931 /BULSTAT
София 1000, ул. "Граф Игнатиев" 53 вх. В, ет. 2
Tel 0035924682280 Fax 0035924808322
e-mail: Sofia@gentaur.com | Gentaur
IBAN: BG11FINV91501014771636
BIC: FINVBGSF

GENTAUR Poland Sp. z o.o.


ul. Grunwaldzka 88/A m.2
81-771 Sopot, Poland
TEL Gdansk 058 710 33 44 FAX  058 710 33 48              

poland@gentaur.com | Gentaur

Other countries

Österreich +43720880899

Canada Montreal +15149077481

Ceská republika Praha +420246019719

Danmark +4569918806

Finland Helsset +358942419041

Magyarország Budapest +3619980547

Ireland Dublin+35316526556

Luxembourg+35220880274

Norge Oslo+4721031366

Sverige Stockholm+46852503438

Schweiz Züri+41435006251

US New York+17185132983

GENTAUR Italy
SRL IVA IT03841300167
Piazza Giacomo Matteotti, 6
24122 Bergamo Tel 02 36 00 65 93
Fax 02 36 00 65 94
italia@gentaur.com | Gentaur