A microscale model of bacterial and biofilm dynamics in porous media.

Abstract:

:A microscale model for the transport and coupled reaction of microbes and chemicals in an idealized two-dimensional porous media has been developed. This model includes the flow, transport, and bioreaction of nutrients, electron acceptors, and microbial cells in a saturated granular porous media. The fluid and chemicals are represented as a continuum, but the bacterial cells and solid granular particles are represented discretely. Bacterial cells can attach to the particle surfaces or be advected in the bulk fluid. The bacterial cells can also be motile and move preferentially via a run and tumble mechanism toward a chemoattractant. The bacteria consume oxygen and nutrients and alter the profiles of these chemicals. Attachment of bacterial cells to the soil matrix and growth of bacteria can change the local permeability. The coupling of mass transport and bioreaction can produce spatial gradients of nutrients and electron acceptor concentrations. We describe a numerical method for the microscale model, show results of a convergence study, and present example simulations of the model system.

journal_name

Biotechnol Bioeng

authors

Dillon R,Fauci L

subject

Has Abstract

pub_date

2000-06-05 00:00:00

pages

536-47

issue

5

eissn

0006-3592

issn

1097-0290

pii

10.1002/(SICI)1097-0290(20000605)68:5<536::AID-BIT

journal_volume

68

pub_type

杂志文章
  • Reactor optimization for alpha-1,2 glucooligosaccharide synthesis by immobilized dextransucrase.

    abstract::The immobilization of dextransucrase in Ca-alginate beads relies on the close association between dextran polymer and dextransucrase. However, high amounts of dextran in the enzyme preparation drastically limit the specific activity of the immobilized enzyme (4 U/mL of alginate beads). Moreover, even in the absence of...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.1183

    authors: Dols-Lafargue M,Willemot RM,Monsan PF,Remaud-Simeon M

    更新日期:2001-11-05 00:00:00

  • Application of high throughput pretreatment and co-hydrolysis system to thermochemical pretreatment. Part 2: Dilute alkali.

    abstract::High throughput pretreatment (HTPH) and enzymatic hydrolysis systems are now vital for screening large numbers of biomass samples to investigate biomass recalcitrance over various pretreatment and enzymatic hydrolysis conditions. Although hydrothermal pretreatment is currently being employed in most high throughput ap...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.24951

    authors: Li H,Gao X,Demartini JD,Kumar R,Wyman CE

    更新日期:2013-11-01 00:00:00

  • Boosting mediated electron transfer in bioelectrochemical systems with tailored defined microbial cocultures.

    abstract::Bioelectrochemical systems (BES) hold great promise for sustainable energy generation via a microbial catalyst from organic matter, for example, from wastewater. To improve current generation in BES, understanding the underlying microbiology of the electrode community is essential. Electron mediator producing microorg...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.26732

    authors: Schmitz S,Rosenbaum MA

    更新日期:2018-09-01 00:00:00

  • Use of glucose-responsive material to regulate insulin release from constitutively secreting cells.

    abstract::Genetically-engineered cells offer a solution to the cell availability problem in tissue engineering a pancreatic substitute for the treatment of insulin-dependent diabetes. These cells can be non-beta cells, such as hepatocytes or myoblasts, retrieved as a biopsy from the same patient and genetically engineered to se...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.20817

    authors: Cheng SY,Constantinidis I,Sambanis A

    更新日期:2006-04-20 00:00:00

  • A stirred bath technique for diffusivity measurements in cell matrices.

    abstract::A stirred bath technique was developed for determining effective diffusivities in cell matrices. The technique involves cell immobilization in a dilute gel which has negligible effect on solute diffusion. Agar and collagen were tested as immobilizing gels. Agar gel was shown to have minor interactions with the diffusi...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260320810

    authors: Chresand TJ,Dale BE,Hanson SL,Gillies RJ

    更新日期:1988-10-05 00:00:00

  • Egr1 and Gas6 facilitate the adaptation of HEK-293 cells to serum-free media by conferring enhanced viability and higher growth rates.

    abstract::Animal-derived serum is an essential media supplement for mammalian cells in cell culture. For a number of reasons including cost, regulatory concerns, lot inconsistency, potential contamination with adventitious agents, and down-stream processing it is desirable to eliminate the use of serum. Existing protocols desig...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.21707

    authors: Jaluria P,Konstantopoulos K,Betenbaugh M,Shiloach J

    更新日期:2008-04-15 00:00:00

  • A comparison of two empirical models for the enzymatic hydrolysis of pretreated poplar wood.

    abstract::Two empirical models for the enzymatic hydrolysis of cellulose are used to analyze the same set of experimental data to determine if one model is superior to the other. Both models adequately describe the data. The parameters in both models may be correlated to the hydrolysis conditions of enzyme, substrate, and produ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260260818

    authors: Holtzapple MT,Caram HS,Humphrey AE

    更新日期:1984-08-01 00:00:00

  • High-throughput determination of identity, purity, and quantity of combinatorial library members using LC/MS/UV/ELSD.

    abstract::We have used a high-throughput LC/MS/UV/ELSD method to rapidly determine the absolute quantity and purity of 42 organic compounds from seven lead discovery libraries. A general calibration curve generated from a different set of 42 compounds with seven different scaffolds was used in this analysis. We have also studie...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/1097-0290(2000)71:2<162::aid-bit1006>3.0.c

    authors: Fang L,Pan J,Yan B

    更新日期:2000-01-01 00:00:00

  • Medium-induced inhibition of microbial adsorption to nickel and activated charcoal.

    abstract::Equilibrium adsorption studies on Escherichia coli and Saccharomyces sp. revealed the capacity and affinity of these organisms for the surfaces of powdered charcoal and nickel. In simple salt solutions both organisms readily adsorbed to each solid with an affinity and maximum loading capacity individual to each cell-s...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260340703

    authors: Protheroe RG,Cumming RH,Matchett A

    更新日期:1989-10-05 00:00:00

  • Dual-chambered membrane bioreactor for coculture of stratified cell populations.

    abstract::We have developed a dual-chambered bioreactor (DCB) that incorporates a membrane to study stratified 3D cell populations for skin tissue engineering. The DCB provides adjacent flow lines within a common chamber; the inclusion of the membrane regulates flow layering or mixing, which can be exploited to produce layers o...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.27164

    authors: Navarro J,Swayambunathan J,Janes ME,Santoro M,Mikos AG,Fisher JP

    更新日期:2019-12-01 00:00:00

  • Cellulase production by a solid state culture system.

    abstract::Production of cellulase using solid culture systems of Trichoderma reesei QM9414 and Sporotrichum cellulophilum on wheat bran was studied. By using moisture-controlled solid culture equipment, the effect of water content of wheat bran on cell growth and cellulase production was investigated. Cellular biomass grown on ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260271008

    authors: Kim JH,Hosobuchi M,Kishimoto M,Seki T,Yoshida T,Taguchi H,Ryu DD

    更新日期:1985-10-01 00:00:00

  • Quantitative image analysis as a diagnostic tool for monitoring structural changes of anaerobic granular sludge during detergent shock loads.

    abstract::Two shock loads of a commercial detergent (I-150 mg chemical oxygen demand (COD)/L, fed for 56 h; II-300 mg COD/L fed for 222 h) were applied in a lab-scale Expanded Granular Sludge Blanket (EGSB) reactor, fed with 1,500 mg COD/L of ethanol. The impact of the surfactant was assessed in terms of granular sludge morphol...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.21381

    authors: Costa JC,Abreu AA,Ferreira EC,Alves MM

    更新日期:2007-09-01 00:00:00

  • Kinetic, dynamic, and pathway studies of glycerol metabolism by Klebsiella pneumoniae in anaerobic continuous culture: IV. Enzymes and fluxes of pyruvate metabolism.

    abstract::The activities of pyruvate kinase (PK), pyruvate: formate-lyase (PFL), pyruvate dehydrogenase (PDH), and citrate synthase (CS) involved in the anaerobic glycerol conversion by Klebsiella pneumoniae were studied in continuous culture under conditions of steady states and sustained oscillations. Both the in vitro and in...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:

    authors: Menzel K,Ahrens K,Zeng A,Deckwer W

    更新日期:1998-12-05 00:00:00

  • An exclusion mechanism in ion exchange chromatography.

    abstract::Protein dynamic binding capacities on ion exchange resins are typically expected to decrease with increasing conductivity and decreasing protein charge. There are, however, conditions where capacity increases with increasing conductivity and decreasing protein charge. Capacity measurements on two different commercial ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.21080

    authors: Harinarayan C,Mueller J,Ljunglöf A,Fahrner R,Van Alstine J,van Reis R

    更新日期:2006-12-05 00:00:00

  • Manipulation of microparticles for construction of array patterns by negative dielectrophoresis using multilayered array and grid electrodes.

    abstract::In this study, a useful method was developed to fabricate array patterns of microparticles not on electrode surfaces, but on arbitrary surfaces, using negative-dielectrophoresis (n-DEP). First, electrodes were designed and electric field simulations were performed to manipulate microparticles toward target areas. Base...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.22445

    authors: Ino K,Shiku H,Ozawa F,Yasukawa T,Matsue T

    更新日期:2009-11-01 00:00:00

  • Growth monitoring and control through computer-aided on-line mass balancing in a fed-batch penicillin fermentation.

    abstract::A computer-aided methodology is developed for on-line monitoring and control of cell growth in fed-batch penicillin fermentation using a semidefined medium containing low corn steep liquor concentration (5.7 g/L). Cell growth is monitored and controlled with the use of experimental correlation and carbon-balancing equ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260250118

    authors: Mou DG,Cooney CL

    更新日期:1983-01-01 00:00:00

  • Production of S-adenosyl-L-methionine by Saccharomyces cerevisiae cells carrying a gene for ethionine resistance.

    abstract::A gene for ethionine resistance isolated from the yeast Saccharomyces cerevisiae DKD-5D-H conferred on the yeast cells resistance to seleno-L-methionine and capability to produce S-adenosyl-L-methionine in the cells. An enzymatic study of the L-methionine synthetic pathway of L-methionine proto- and auxotrophs and in ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260351107

    authors: Shiomi N,Fukuda H,Fukuda Y,Murata K,Kimura A

    更新日期:1990-05-01 00:00:00

  • Wine vinegar production using a noncommercial 100-litre bubble column reactor equipped with a novel type of dynamic sparger

    abstract::This paper describes batch and semicontinuous acetic acid fermentations for wine vinegar production carried out with Acetobacter pasteurianus, and an industrial strain using a noncommercial 100-L bubble column reactor equipped with a novel type of gas-liquid dynamic sparger. Results showed acetification rates with thi...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/(sici)1097-0290(19990420)63:2<141::aid-bit

    authors: Fregapane G,Rubio-Fernandez H,Nieto J,Salvador MD

    更新日期:1999-04-20 00:00:00

  • Protopanaxadiol 6-hydroxylase and its role in regulating the ginsenoside heterogeneity in Panax notoginseng cells.

    abstract::Various structure-similar plant secondary metabolites like ginseng saponins (ginsenosides) possess different or even totally opposite biological activities. Intentional manipulation of the ginsenoside heterogeneity in cellular biosynthesis is of great interest and significance [Zhong and Yue (2005); Adv Biochem Eng Bi...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.21829

    authors: Yue CJ,Zhou X,Zhong JJ

    更新日期:2008-08-01 00:00:00

  • A tightly regulated inducible expression system utilizing the fim inversion recombination switch.

    abstract::The fim inversion system of Escherichia coli (E. coli) can behave as a unidirectional switch in an efficient manner. We have developed a new expression system for E. coli, comprising the arabinose-inducible fimE gene and the fim invertible DNA segment containing a constitutively active promoter. In this system, the ta...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.20916

    authors: Ham TS,Lee SK,Keasling JD,Arkin AP

    更新日期:2006-05-05 00:00:00

  • Effect of gene copy number and chaperone coexpression on recombinant hydrophobin HFBI biosurfactant production in Pichia pastoris.

    abstract::Hydrophobins are small highly surface-active fungal proteins with potential as biosurfactants in a wide array of applications. However, practical implementation of hydrophobins at large scale has been hindered by low recombinant yields. In this study, the effects of increasing hydrophobin gene copy number and overexpr...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.26982

    authors: Sallada ND,Harkins LE,Berger BW

    更新日期:2019-08-01 00:00:00

  • Multiple cell culture factors can affect the glycosylation of Asn-184 in CHO-produced tissue-type plasminogen activator.

    abstract::Human tissue-type plasminogen activator (t-PA) contains a variably occupied glycosylation site at Asn-184 in naturally produced t-PA and in t-PA produced in recombinant Chinese hamster ovary (CHO) cells. The presence of an oligosaccharide at this site has previously been shown to reduce specific activity and fibrin bi...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/1097-0290(20001005)70:1<25::aid-bit4>3.0.c

    authors: Andersen DC,Bridges T,Gawlitzek M,Hoy C

    更新日期:2000-10-05 00:00:00

  • Kinetic modeling of oligosaccharide synthesis catalyzed by leuconostoc mesenteroides NRRL B-1299 dextransucrase

    abstract::The kinetic behavior of soluble and insoluble forms of dextransucrase from Leuconostoc mesenteroides NRRL B-1299 was investigated with sucrose as substrate and maltose as acceptor. To study the parameters involved, a kinetic model was applied that was previously developed for L. mesenteroides NRRL B-512F dextransucras...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/(sici)1097-0290(19990505)63:3<308::aid-bit

    authors: Dols M,Remaud-Simeon M,Willemot RM,Demuth B,Jordening HJ,Buchholz K,Monsan P

    更新日期:1999-05-05 00:00:00

  • Review: tissue engineering: reconstitution of human hematopoiesis ex vivo.

    abstract::The reconstruction of functioning human tissues ex vivo is becoming an important part of biotechnology. There are compelling scientific, clinical, and biotechnological reasons for fully or partially reconstituting human tissues such as skin, bone marrow, and liver ex vivo. In particular, bone marrow is a tissue of muc...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260420802

    authors: Koller MR,Palsson BO

    更新日期:1993-10-01 00:00:00

  • Comparative testing of tangential microfiltration for microbial cultures.

    abstract::In an attempt to extend and intensify the productive periods of bioprocesses, a self-cleaning tangential filtration device was examined. Built into a special-design bioreactor, its cell retention was evaluated for continuous-flow operation with selected examples of bacteria (Escherichia coli), yeasts (Sacharomyces cer...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.20888

    authors: Naja G,Volesky B,Schnell A

    更新日期:2006-11-05 00:00:00

  • Fluorophore-labeled carbohydrate analysis of immunoglobulin fusion proteins: Correlation of oligosaccharide content with in vivo clearance profile.

    abstract::CTLA4 is a membrane receptor on cytotoxic T cells whose interaction with the B7 counterreceptor on B cells is important in alloantigen responses. Soluble recombinant human and murine CTLA4 were produced using either Chinese hamster ovary or NS-0 cell lines. Expression vectors were constructed containing the gene codin...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260460502

    authors: Flesher AR,Marzowski J,Wang WC,Raff HV

    更新日期:1995-06-05 00:00:00

  • A special reactor design for investigations of mixing time effects in a scaled-down industrial L-lysine fed-batch fermentation process

    abstract::A specially designed model reactor based on a 42-L laboratory fermentor was equipped with six stirrers (Rushton turbines) and five cylindrical disks. In this model reactor, the mixing time, Theta(90), turned out to be 13 times longer compared with the 42-L standard laboratory fermentor fitted with two Rushton turbines...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/(sici)1097-0290(19990905)64:5<599::aid-bit

    authors: Schilling BM,Pfefferle W,Bachmann B,Leuchtenberger W,Deckwer W

    更新日期:1999-09-05 00:00:00

  • Solid-state ethanol fermentation by means of inert gas circulation.

    abstract::A new method for solid-state ethanol fermentation (the SSEF system) was experimented on for the ethanol production from solid starchy materials, where a packedbed-type fermentor was used. Both cultivation of Aspergillus saitoi and enrichment of a saccharifying enzyme were effective for hydrolysis of the starch. Ethano...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.260270907

    authors: Sato K,Nakamura K,Sato S

    更新日期:1985-09-01 00:00:00

  • Production of lovastatin examined by an integrated approach based on chemometrics and DOSY-NMR.

    abstract::Microbial secondary metabolites are one of the sources of therapeutic molecules in the pharmaceutical industry. Product quality and high yields of secondary metabolites are the main goals for the commercial success of a fermentation process. Our novel approach was based on the decision-tree algorithm to determine the ...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.10418

    authors: Bradamante S,Barenghi L,Beretta G,Bonfa' M,Rollini M,Manzoni M

    更新日期:2002-12-05 00:00:00

  • The effects of methanol on the biofiltration of dimethyl sulfide in inorganic biofilters.

    abstract::Air emissions from the pulp and paper industry frequently contain reduced sulfur compounds (RSC), such as dimethyl sulfide (DMS) mixed with volatile organic compounds (VOC) (e.g., methanol, MeOH) and it is desirable to treat either one or both of these groups of compounds. The objective of this study was to assess the...

    journal_title:Biotechnology and bioengineering

    pub_type: 杂志文章

    doi:10.1002/bit.21033

    authors: Zhang Y,Liss SN,Allen DG

    更新日期:2006-11-05 00:00:00