Expanded thermodynamic true yield prediction model: adjustments and limitations.

Abstract:

:Bacterial yield prediction is critical for bioprocess optimization and modeling of natural biological systems. In previous work, an expanded thermodynamic true yield prediction model was developed through incorporating carbon balance and nitrogen balance along with electron balance and energy balance. In the present work, the application of the expanded model is demonstrated in multiple growth situations (aerobic heterotrophs, anoxic, anaerobic heterotrophs, and autolithotrophs). Two adjustments are presented that enable improved prediction when additional information regarding the environmental conditions (pH) or degradation pathway (requirement for oxygenase- or oxidase-catalyzed reactions) is known. A large data set of reported yields is presented and considered for suitability in model validation. Significant uncertainties of literature-reported yield values are described. Evaluation of the model with experimental yield values shows good predictive ability. However, the wide range in reported yields and the variability introduced into the prediction by uncertainty in model parameters, limits comprehensive validation. Our results suggest that the uncertainty of the experimental data used for validation limits further improvement of thermodynamic prediction models.

journal_name

Biodegradation

journal_title

Biodegradation

authors

Xiao J,VanBriesen JM

doi

10.1007/s10532-007-9119-5

subject

Has Abstract

pub_date

2008-02-01 00:00:00

pages

99-127

issue

1

eissn

0923-9820

issn

1572-9729

journal_volume

19

pub_type

杂志文章
  • L-Tryptophan catabolism by Rubrivivax benzoatilyticus JA2 occurs through indole 3-pyruvic acid pathway.

    abstract::Rubrivivax benzoatilyticus JA2 utilizes L: -tryptophan as the sole source of nitrogen for growth, and it has a doubling time of approximately 11 h (compared to 8 h with ammonium chloride). With cell free extracts in the presence of 2-oxoglutarate, indole-3-pyruvic acid, indole-3-acetaldehyde, indole-3-acetic acid, isa...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-010-9347-y

    authors: Kumavath RN,Ramana ChV,Sasikala Ch

    更新日期:2010-09-01 00:00:00

  • 2,4,6-trichlorophenol (TCP) photobiodegradation and its effect on community structure.

    abstract::The mechanisms occurring in a photolytic circulating-bed biofilm reactor (PCBBR) treating 2,4,6-trichlorophenol (TCP) were investigated using batch experiments following three protocols: photodegradation alone (P), biodegradation alone (B), and intimately coupled photodegradation and biodegradation (P&B). Initially, t...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-012-9534-0

    authors: Zhang Y,Pu X,Fang M,Zhu J,Chen L,Rittmann BE

    更新日期:2012-07-01 00:00:00

  • 1,4-Dioxane degradation potential of members of the genera Pseudonocardia and Rhodococcus.

    abstract::In recent years, several strains capable of degrading 1,4-dioxane have been isolated from the genera Pseudonocardia and Rhodococcus. This study was conducted to evaluate the 1,4-dioxane degradation potential of phylogenetically diverse strains in these genera. The abilities to degrade 1,4-dioxane as a sole carbon and ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-016-9772-7

    authors: Inoue D,Tsunoda T,Sawada K,Yamamoto N,Saito Y,Sei K,Ike M

    更新日期:2016-11-01 00:00:00

  • Biodegradation of gasoline and BTEX in a microaerophilic biobarrier.

    abstract::Continuous bioremediation of gasoline-contaminated water in a packed-bed biobarrier system under oxygen-limited conditions is discussed. This study was part of an extensive effort to develop an alternative technology for the in situ bioremediation of hydrocarbons where there is a limited supply of oxygen. Protruded st...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1023/a:1008327815105

    authors: Yerushalmi L,Manuel MF,Guiot SR

    更新日期:1999-01-01 00:00:00

  • Interdependence between the aerobic degradation of BPA and readily biodegradable substrates by activated sludge in semi-continuous reactors.

    abstract::The objective of the present work was to analyze the interrelationship between the aerobic degradation of BPA and readily biodegradable substrates by activated sludge (AS) in semi-continuous reactors (SCRs). AS were obtained from three SCRs fed with glucose, acetate or peptone. AS from these reactors were used as inoc...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-018-9854-9

    authors: Ferro Orozco AM,Contreras EM,Zaritzky NE

    更新日期:2018-12-01 00:00:00

  • Successful treatment of an MTBE-impacted aquifer using a bioreactor self-colonized by native aquifer bacteria.

    abstract::A field-scale fixed bed bioreactor was used to successfully treat an MTBE-contaminated aquifer in North Hollywood, CA without requiring inoculation with introduced bacteria. Native bacteria from the MTBE-impacted aquifer rapidly colonized the bioreactor, entering the bioreactor in the contaminated groundwater pumped f...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-013-9639-0

    authors: Hicks KA,Schmidt R,Nickelsen MG,Boyle SL,Baker JM,Tornatore PM,Hristova KR,Scow KM

    更新日期:2014-02-01 00:00:00

  • Bench-scale evaluation of aerosol delivery for biostimulation and bioaugmentation in the vadose zone.

    abstract::Aerosol delivery was evaluated for distributing biostimulation and bioaugmentation amendments in vadose zones. This technique involves transporting amendments as micron-scale aerosol droplets in injected gas. Microcosm experiments were designed to characterize reductive dechlorination of trichloroethene (TCE) under un...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-015-9718-5

    authors: Hall RJ,Murdoch LC,Freedman DL,Looney BB,Riha BD

    更新日期:2015-04-01 00:00:00

  • The influence of upflow velocity and hydraulic retention time changes on taxonomic and functional characterization in Fluidized Bed Reactor treating commercial laundry wastewater in co-digestion with domestic sewage.

    abstract::A large-scale (19.8L) Fluidized Bed Reactor (FBR) operated for 592 days was used to assess the removal performance of linear alkylbenzene sulfonate (LAS). Adjustments in hydraulic retention time (HRT) (18 and 30 h), ethanol (50, 100, 200 mg L-1) and linear alkylbenzene sulfonate (LAS) concentration (6.3-24.7 mg L-1) w...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-020-09895-x

    authors: Macedo TZ,de Souza Dornelles H,do Valle Marques AL,PalladinoDelforno T,Centurion VB,de Oliveira VM,Silva EL,Varesche MBA

    更新日期:2020-04-01 00:00:00

  • Digestion of cattle manure under mesophilic and thermophilic conditions: characterization of organic matter applying thermal analysis and 1H NMR.

    abstract::Digestion of cattle manure collected from a livestock farm together with bedding material (straw) has been studied under mesophilic and thermophilic conditions in batch reactors. The digestion was carried out for a prolonged period with the aim of evaluating the changes undergone by the organic matter. The mesophilic ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-010-9436-y

    authors: Gómez X,Blanco D,Lobato A,Calleja A,Martínez-Núñez F,Martin-Villacorta J

    更新日期:2011-06-01 00:00:00

  • Effects of soil amendment with different carbon sources and other factors on the bioremediation of an aged PAH-contaminated soil.

    abstract::Carbon supplementation, soil moisture and soil aeration are believed to enhance in situ bioremediation of PAH-contaminated soils by stimulating the growth of indigenous microorganisms. However, the effects of added carbon and nitrogen together with soil moisture and soil aeration on the dissipation of PAHs and on asso...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-009-9291-x

    authors: Teng Y,Luo Y,Ping L,Zou D,Li Z,Christie P

    更新日期:2010-04-01 00:00:00

  • Microbial aspects of atrazine degradation in natural environments.

    abstract::The potential toxicity of the s-triazine herbicide atrazine motivates continuous bioremediation-directed research. Several indigenous soil atrazine-catabolizing microbial associations and monocultures have been enriched/isolated from compromised sites. Of these, Pseudomonas sp. strain ADP has become a reference strain...

    journal_title:Biodegradation

    pub_type: 杂志文章,评审

    doi:10.1023/a:1016329628618

    authors: Ralebits TK,Senior E,van Verseveld HW

    更新日期:2002-01-01 00:00:00

  • Cupriavidus necator JMP134 rapidly reduces furfural with a Zn-dependent alcohol dehydrogenase.

    abstract::Ethanol is a renewable biofuel, and it can be produced from lignocellulosic biomass. The biomass is usually converted to hydrolysates that consist of sugar and sugar derivatives, such as furfural. Yeast ferments sugar to ethanol, but furfural higher than 3 mM is inhibitory. It can take several days for yeast cells to ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-011-9476-y

    authors: Li Q,Metthew Lam LK,Xun L

    更新日期:2011-11-01 00:00:00

  • Sequence analysis of the upstream region of dhlB, the gene encoding haloalkanoic acid dehalogenase of Xanthobacter autotrophicus GJ10.

    abstract::The DNA sequence upstream of the dhlB gene encoding the haloalkanoic acid dehalogenase of Xanthobacter autotrophicus GJ10 was determined and contained an open reading frame, designated dhlC, which encoded a protein with a significant similarity with the family of Na(+)-dependent symport proteins. The dhlC gene was sub...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/BF00700465

    authors: van der Ploeg J,Janssen DB

    更新日期:1995-09-01 00:00:00

  • Microbial metabolism of monoterpenes--recent developments.

    abstract::Monoterpenes are important renewable resources for the perfume and flavour industry but the pathways and enzymology of their degradation by microorganisms are not well documented. Until recently the acyclic monoterpene alcohols, (+)-camphor and the isomers of limonene were the only compounds for which significant sect...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/BF00058829

    authors: Trudgill PW

    更新日期:1990-01-01 00:00:00

  • Bacterial degradation of 3-chloroacrylic acid and the characterization of cis- and trans-specific dehalogenases.

    abstract::A coryneform bacterium that is able to utilize cis- and trans-3-chloroacrylic acid as sole carbon source for growth was isolated from freshwater sediment. The organism was found to produce two inducible dehalogenases, one specific for the cis- and the other for trans-3-chloroacrylic acid. Both dehalogenases were purif...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/BF00124488

    authors: van Hylckama Vlieg JE,Janssen DB

    更新日期:1991-01-01 00:00:00

  • Enrichment, isolation and characterization of pentachlorophenol degrading bacterium Acinetobacter sp. ISTPCP-3 from effluent discharge site.

    abstract::Three pentachlorophenol (PCP) degrading bacterial strains were isolated from sediment core of pulp and paper mill effluent discharge site. The strains were continuously enriched in mineral salts medium supplemented with PCP as sole source of carbon and energy. One of the acclimated strains with relatively high PCP deg...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-009-9251-5

    authors: Sharma A,Thakur IS,Dureja P

    更新日期:2009-09-01 00:00:00

  • Growth of Acinetobacter gerneri P7 on polyurethane and the purification and characterization of a polyurethanase enzyme.

    abstract::A soil microorganism, designated as P7, was characterized and investigated for its ability to degrade polyurethane (PU). This bacterial isolate was identified as Acinetobacter gerneri on the basis of 16 s rRNA sequencing and biochemical phenotype analysis. The ability of this organism to degrade polyurethane was chara...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-011-9533-6

    authors: Howard GT,Norton WN,Burks T

    更新日期:2012-07-01 00:00:00

  • On the biosorption, by brown seaweed, Lobophora variegata, of Ni(II) from aqueous solutions: equilibrium and thermodynamic studies.

    abstract::The biosorption equilibrium isotherms of Ni(II) onto marine brown algae Lobophora variegata, which was chemically-modified by CaCl(2) were studied and modeled. To predict the biosorption isotherms and to determine the characteristic parameters for process design, twenty-three one-, two-, three-, four- and five-paramet...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-010-9333-4

    authors: Basha S,Jaiswar S,Jha B

    更新日期:2010-09-01 00:00:00

  • Identification and characterization of hydroxyquinone hydratase activities from Sphingobium chlorophenolicum ATCC 39723.

    abstract::Hydroxyquinol, a common metabolite of aromatic compounds, is readily auto-oxidized to hydroxyquinone. Enzymatic activities that metabolized hydroxyquinone were observed from the cell extracts of Sphingobium chlorophenolicum ATCC 39723. An enzyme capable of transforming hydroxyquinone was partially purified, and its ac...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-004-2058-5

    authors: Bohuslavek J,Chanama S,Crawford RL,Xun L

    更新日期:2005-08-01 00:00:00

  • Biodegradation of rubber particles in soil.

    abstract::The biodegradation of rubber particles in rubber-soil mixtures at different rubber contents was monitored by the carbon dioxide production. The cumulative carbon dioxide production was modelled according to a two parameter exponential function. The model provides an excellent fit (R2 > 0.98) for the observed data. The...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/BF00115746

    authors: Keursten GT,Groenevelt PH

    更新日期:1996-08-01 00:00:00

  • Isolation and characterization of two new microbial strains capable of degradation of the naturally occurring organophosphonate - ciliatine.

    abstract::Air-born mixed fungal and bacterial culture capable of complete degradation of ciliatine was isolated. The utilization of the natural organophosphonate proceeded in the phosphate independent manner. Enzymatic activity involved in ciliatine degradation studied in the fungal cell-free extract proved to be distinct from ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-006-9057-7

    authors: Klimek-Ochab M,Obojska A,Picco AM,Lejczak B

    更新日期:2007-04-01 00:00:00

  • Effect of nitrogen source on methanol oxidation and genetic diversity of methylotrophic mixed cultures enriched from pulp and paper mill biofilms.

    abstract::Methanol-oxidizing bacteria may play an important role in the development and use of biological treatment systems for the removal of methanol from industrial effluents. Optimization of methanol degradation potential in such systems is contingent on availability of nutrients, such as nitrogen, in the most favorable for...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-010-9400-x

    authors: Babbitt CW,Lindner AS

    更新日期:2011-04-01 00:00:00

  • Growth rate influences reductive biodegradation of the organophosphorus pesticide demeton by Corynebacterium glutamicum.

    abstract::The organophosphorous pesticide, demeton-S-methyl was transformed by Corynebacterium glutamicum in co-metabolism with more readily degradable substrates. Glucose, acetate and fructose were tested as growth substrates, and the highest demeton-S-methyl biotransformation average rate (0.78 mg l(-1) h(-1)) and maximum ins...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1023/a:1011682714928

    authors: Girbal L,Rols JL,Lindley ND

    更新日期:2000-01-01 00:00:00

  • Phytotreatment of soil contaminated with used lubricating oil using Hibiscus cannabinus.

    abstract::Soil contamination by hydrocarbons, especially by used lubricating oil, is a growing problem in developing countries, which poses a serious threat to the environment. Phytoremediation of these contaminated soils offers environmental friendly and a cost effective method for their remediation. Hibiscus cannabinus was st...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-011-9506-9

    authors: Abioye OP,Agamuthu P,Abdul Aziz AR

    更新日期:2012-04-01 00:00:00

  • Accelerating effect of hydroxylamine and hydrazine on nitrogen removal rate in moving bed biofilm reactor.

    abstract::In biological nitrogen removal, application of the autotrophic anammox process is gaining ground worldwide. Although this field has been widely researched in last years, some aspects as the accelerating effect of putative intermediates (mainly N₂H₄ and NH₂OH) need more specific investigation. In the current study, exp...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-012-9549-6

    authors: Zekker I,Kroon K,Rikmann E,Tenno T,Tomingas M,Vabamäe P,Vlaeminck SE,Tenno T

    更新日期:2012-09-01 00:00:00

  • Microsomal transformation of organophosphorus pesticides by white rot fungi.

    abstract::The enzymatic mechanism for the transformation of organophosphorus pesticides (OPPs) by different white-rot fungi strains was studied. With the exception of Ganoderma applanatum 8168, all strains from a collection of 17 different fungi cultures were able to deplete parathion. Three strains showing the highest activiti...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1023/a:1027316610450

    authors: Jauregui J,Valderrama B,Albores A,Vazquez-Duhalt R

    更新日期:2003-12-01 00:00:00

  • Biodegradation of natural rubber and deproteinized natural rubber by enrichment bacterial consortia.

    abstract::This study examined the biodegradation of natural rubber (NR) and deproteinized natural rubber (DPNR) by bacterial consortia enriched from a rubber-processing factory's waste in Vietnam. The results reveal the degradation in both NR and DPNR, and the DPNR was degraded easier than NR. The highest weight loss of 48.37% ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-020-09911-0

    authors: Nguyen LH,Nguyen HD,Tran PT,Nghiem TT,Nguyen TT,Dao VL,Phan TN,To AK,Hatamoto M,Yamaguchi T,Kasai D,Fukuda M

    更新日期:2020-12-01 00:00:00

  • Microbiological degradation of pentane by immobilized cells of Arthrobacter sp.

    abstract::The increasing production of several plastics such as expanded polystyrene, widely used as packaging and building materials, has caused the release of considerable amounts of pentane employed as an expanding agent. Today many microorganisms are used to degrade hydrocarbons in order to minimize contamination caused by ...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10531-004-0473-x

    authors: Ionata E,De Blasio P,La Cara F

    更新日期:2005-02-01 00:00:00

  • Biodegradation of pyridine by an isolated bacterial consortium/strain and bio-augmentation of strain into activated sludge to enhance pyridine biodegradation.

    abstract::Pyridine and pyridine based products are of major concern as environmental pollutants due to their recalcitrant, persistent, toxic and teratogenic nature. In this study, we describe biodegradation of pyridine by an isolated consortium/strain under aerobic condition. Batch experiment results reveal that at lower initia...

    journal_title:Biodegradation

    pub_type: 杂志文章

    doi:10.1007/s10532-008-9176-4

    authors: Lodha B,Bhadane R,Patel B,Killedar D

    更新日期:2008-09-01 00:00:00

  • Evolution of chlorocatechol catabolic pathways. Conclusions to be drawn from comparisons of lactone hydrolases.

    abstract::The aerobic bacterial degradation of chloroaromatic compounds often involves chlorosubstituted catechols as central intermediates. They are converted to 3-oxoadipate in a series of reactions similar to that for catechol catabolism and therefore designated as modified ortho-cleavage pathway. Among the enzymes of this c...

    journal_title:Biodegradation

    pub_type: 杂志文章,评审

    doi:10.1007/BF00696467

    authors: Schlömann M

    更新日期:1994-12-01 00:00:00