Development of chemically defined medium for Mannheimia succiniciproducens based on its genome sequence.

Abstract:

:This study presents a novel methodology for the development of a chemically defined medium (CDM) using genome-scale metabolic network and flux balance analysis. The genome-based in silico analysis identified two amino acids and four vitamins as non-substitutable essential compounds to be supplemented to a minimal medium for the sustainable growth of Mannheimia succiniciproducens, while no substitutable essential compounds were identified. The in silico predictions were verified by cultivating the cells on a CDM containing the six non-substitutable essential compounds, and it was further demonstrated by observing no cell growth on the CDM lacking any one of the non-substitutable essentials. An optimal CDM for the enhancement of cell growth and succinic acid production, as a target product, was formulated with a single-addition technique. The fermentation on the optimal CDM increased the succinic acid productivity by 36%, the final succinic acid concentration by 17%, and the succinic acid yield on glucose by 15% compared to the cultivation using a complex medium. The optimal CDM also lowered the sum of the amounts of by-products (acetic, formic, and lactic acids) by 30%. The strategy reported in this paper should be generally applicable to the development of CDMs for other organisms, whose genome sequences are available.

authors

Song H,Kim TY,Choi BK,Choi SJ,Nielsen LK,Chang HN,Lee SY

doi

10.1007/s00253-008-1425-2

subject

Has Abstract

pub_date

2008-05-01 00:00:00

pages

263-72

issue

2

eissn

0175-7598

issn

1432-0614

journal_volume

79

pub_type

杂志文章
  • Identification of the flavin monooxygenase responsible for ipso substitution of alkyl and alkoxyphenols in Sphingomonas sp. TTNP3 and Sphingobium xenophagum Bayram.

    abstract::We previously showed that opdA from Sphingomonas sp. PWE1 encodes a putative flavin monooxygenase capable of transforming octylphenol (OP) via type II ipso substitution. Here, we demonstrate that an opdA homolog is responsible for OP and related alkyl/alkoxyphenol degradation in the nonylphenol degrader Sphingomonas s...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-011-3621-8

    authors: Porter AW,Campbell BR,Kolvenbach BA,Corvini PF,Benndorf D,Rivera-Cancel G,Hay AG

    更新日期:2012-04-01 00:00:00

  • Secretion expression of human neutrophil peptide 1 (HNP1) in Pichia pastoris and its functional analysis against antibiotic-resistant Helicobacter pylori.

    abstract::Human neutrophil peptide 1 (HNP1) is a small (3.44 kDa) cationic peptide that is a distinct member of the defensin family. HNP1 plays a crucial role in controlling bacterial infections, particularly by antibiotic-resistant bacteria, through membrane perforation patterns. The structural characteristics of HNP1's three ...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-018-8982-9

    authors: Zhang X,Jiang A,Qi B,Yu H,Xiong Y,Zhou G,Qin M,Dou J,Wang J

    更新日期:2018-06-01 00:00:00

  • Fluorescence-based high-throughput screening system for R-ω-transaminase engineering and its substrate scope extension.

    abstract::ω-Transaminase (ω-TA) is an attractive alternative to metal catalysts for the stereoselective amination of prochiral ketones. The narrow substrate scope of an R-ω-transaminase from Mycobacterium vanbaalenii (MvTA) limits its application in R-amine synthesis. A fluorescence-based TA activity screening system was develo...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-020-10444-y

    authors: Cheng F,Chen XL,Xiang C,Liu ZQ,Wang YJ,Zheng YG

    更新日期:2020-04-01 00:00:00

  • Introduction of heterologous transcription factors and their target genes into Penicillium oxalicum leads to increased lignocellulolytic enzyme production.

    abstract::Genetic engineering of transcription factors is an efficient strategy to improve lignocellulolytic enzyme production in fungi. In this study, the xylanase transcriptional regulators of Trichoderma reesei (Xyr1) and Neurospora crassa (XLR-1), as well as their constitutively active mutants (Xyr1A824V and XLR-1A828V), we...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-018-09612-y

    authors: Xia C,Li Z,Xu Y,Yang P,Gao L,Yan Q,Li S,Wang Y,Qu Y,Song X

    更新日期:2019-03-01 00:00:00

  • Biodetoxification of fungal mycotoxins zearalenone by engineered probiotic bacterium Lactobacillus reuteri with surface-displayed lactonohydrolase.

    abstract::Zearalenone (ZEN) is one of the common mycotoxins with quite high occurrence rate and is harmful to animal and human health. Lactobacillus reuteri is known as a probiotic bacterium with active immune stimulating and high inhibitory activity against pathogenic microorganisms. In this study, we expressed the lactonohydr...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-019-10153-1

    authors: Liu F,Malaphan W,Xing F,Yu B

    更新日期:2019-11-01 00:00:00

  • Production of the immunosuppressant cyclosporin A by a new soil isolate, Aspergillus fumigatus, in submerged culture.

    abstract::Cyclosporin A (CyA) has received meticulous attention owing to its immunosuppressive and biological activities. In this study, a soil isolate, capable of producing CyA, was named Zag1 strain and identified as Aspergillus fumigatus based on macroscopic and microscopic characteristics, 18S rDNA sequence, and phylogeneti...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-016-8052-0

    authors: Ismaiel AA

    更新日期:2017-04-01 00:00:00

  • Reactive iron barriers: a niche enabling microbial dehalorespiration of 1,2-dichloroethane.

    abstract::A reactive iron barrier in a contaminated aquifer with low pH was found to dechlorinate 1,2-dichloroethane (1,2-DCA) in situ. This chlorinated ethane is known to resist abiotic reduction by zero valent iron. Samples taken up-gradient and within the barrier were used to inoculate anaerobic batch cultures amended with v...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-010-2740-y

    authors: Zemb O,Lee M,Low A,Manefield M

    更新日期:2010-09-01 00:00:00

  • Novel extracellular medium-chain-length polyhydroxyalkanoate depolymerase from Streptomyces exfoliatus K10 DSMZ 41693: a promising biocatalyst for the efficient degradation of natural and functionalized mcl-PHAs.

    abstract::Cloning and biochemical characterization of a novel extracellular medium-chain-length polyhydroxyalkanoate (mcl-PHA) depolymerase from Streptomyces exfoliatus K10 DSMZ 41693 are described. The primary structure of the depolymerase (PhaZSex2) includes the lipase consensus sequence (serine-histidine-aspartic acid) which...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-015-6780-1

    authors: Martínez V,de Santos PG,García-Hidalgo J,Hormigo D,Prieto MA,Arroyo M,de la Mata I

    更新日期:2015-11-01 00:00:00

  • Biochemical kinetic behaviors between n-butyl acetate and composite bead in biofilter.

    abstract::In this study, the kinetic behaviors between n-butyl acetate and composite bead were investigated. Both microbial growth rate and biochemical reaction rate would be inhibited with increasing average inlet concentration. The order of the inhibitive effect, which resulted from increased average inlet concentration for f...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-006-0471-x

    authors: Chan WC,Hwang ID

    更新日期:2006-11-01 00:00:00

  • Evaluation of white-rot fungi for detoxification and decolorization of effluents from the green olive debittering process.

    abstract::Wastewater produced by the debittering process of green olives (GOW) is rich in polyphenolics and presents high chemical oxygen demand and alkalinity values. Eight white-rot fungi ( Abortiporus biennis, Dichomitus squalens, Inonotus hispidus, Irpex lacteus, Lentinus tigrinus, Panellus stipticus, Pleurotus ostreatus an...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-002-1005-9

    authors: Aggelis G,Ehaliotis C,Nerud F,Stoychev I,Lyberatos G,Zervakis GI

    更新日期:2002-07-01 00:00:00

  • Establishment of an overall transformation system for an oil-producing filamentous fungus, Mortierella alpina 1S-4.

    abstract::Oil-producing fungus Mortierella alpina 1S-4 is an industrial strain. To determine its physiological properties and to clarify the biosynthetic pathways for polyunsaturated fatty acids, a transformation system for this fungus was established using a derivative of it, i.e., a ura5- mutant lacking orotate phosphoribosyl...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-004-1622-6

    authors: Takeno S,Sakuradani E,Murata S,Inohara-Ochiai M,Kawashima H,Ashikari T,Shimizu S

    更新日期:2004-09-01 00:00:00

  • A model for penicillin production with and without temperature shift after the growth phase.

    abstract::A strain of Penicillium chrysogenum producing about 8 milligrams/l of penicillin V, was cultivated in a 10-1 bioreactor. Under carbon (C)-limitation during the production phase a glucose/ammonium sulphate mixture was fed using microprocessor control. When the temperature was shifted from 25 degrees C to 30 degrees C a...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/BF00170180

    authors: Kluge M,Siegmund D,Diekmann H,Thoma M

    更新日期:1992-01-01 00:00:00

  • Characterization and functional analysis of two novel thermotolerant α-L-arabinofuranosidases belonging to glycoside hydrolase family 51 from Thielavia terrestris and family 62 from Eupenicillium parvum.

    abstract::Arabinofuranose substitutions on xylan are known to interfere with enzymatic hydrolysis of this primary hemicellulose. In this work, two novel α-L-arabinofuranosidases (ABFs), TtABF51A from Thielavia terrestris and EpABF62C from Eupenicillium parvum, were characterized and functionally analyzed. From sequences analyse...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-020-10867-7

    authors: Long L,Sun L,Lin Q,Ding S,St John FJ

    更新日期:2020-10-01 00:00:00

  • Medicinal components in Termitomyces mushrooms.

    abstract::Termitomyces is a genus of edible mushrooms commonly consumed in Africa and Asia among the mushrooms collected from the wild. Termitomyces mushrooms grow as symbionts in the termite nests, where they produce various enzymes to help termites digest lignocellulosic substrates. Many species of Termitomyces are used by di...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章,评审

    doi:10.1007/s00253-018-8991-8

    authors: Hsieh HM,Ju YM

    更新日期:2018-06-01 00:00:00

  • Optimization of the fermentation and downstream processes for human enterokinase production in Pichia pastoris.

    abstract::Enterokinase is one of the most frequently used enzymes for the removal of affinity tags from target recombinant proteins. In this study, several fermentation strategies were assayed for the production of human enterokinase in Pichia pastoris under constitutive GAP promoter. Two of them with controlled specific growth...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-016-7960-3

    authors: Melicherová K,Krahulec J,Šafránek M,Lišková V,Hopková D,Széliová D,Turňa J

    更新日期:2017-03-01 00:00:00

  • Advances in time course extracellular production of human pre-miR-29b from Rhodovulum sulfidophilum.

    abstract::The present study reports the successful production of human pre-miR-29b both intra- and extracellularly in the marine phototrophic bacterium Rhodovulum sulfidophilum using recombinant RNA technology. In a first stage, the optimal transformation conditions (0.025 μg of plasmid DNA, with a heat-shock of 2 min at 35 °C)...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-016-7350-x

    authors: Pereira P,Pedro AQ,Tomás J,Maia CJ,Queiroz JA,Figueiras A,Sousa F

    更新日期:2016-04-01 00:00:00

  • Small P particles formed by the Taiwan-native norovirus P domain overexpressed in Komagataella pastoris.

    abstract::The protrusion (P) domain of the major structural protein VP1 of norovirus (NoV) is critical for the host's immune response and receptor binding. Most heterologous P domains expressed in Escherichia coli or Komagataella pastoris (formally known as Pichia pastoris) form P particles consisting of 24 P monomers formed th...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-018-9331-8

    authors: Chen YL,Chang PJ,Huang CT

    更新日期:2018-11-01 00:00:00

  • Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR.

    abstract::Relative quantification real-time PCR was used to quantify several bacterial species in ruminal samples from two lactating cows, each sampled 3 h after feeding on two successive days. Abundance of each target taxon was calculated as a fraction of the total 16S rRNA gene copies in the samples, using taxon-specific and ...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-006-0802-y

    authors: Stevenson DM,Weimer PJ

    更新日期:2007-05-01 00:00:00

  • Advances in acrylamide bioproduction catalyzed with Rhodococcus cells harboring nitrile hydratase.

    abstract::Acrylamide is an important bulk chemical used for producing polyacrylamide, which is widely applied in diverse fields, such as enhanced oil recovery and water treatment. Acrylamide production with a superior biocatalyst, free-resting Rhodococcus cells containing nitrile hydratase (NHase), has been proven to be simple ...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章,评审

    doi:10.1007/s00253-019-10284-5

    authors: Jiao S,Li F,Yu H,Shen Z

    更新日期:2020-02-01 00:00:00

  • Pullulan: biosynthesis, production, and applications.

    abstract::Pullulan is a linear glucosic polysaccharide produced by the polymorphic fungus Aureobasidium pullulans, which has long been applied for various applications from food additives to environmental remediation agents. This review article presents an overview of pullulan's chemistry, biosynthesis, applications, state-of-t...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章,评审

    doi:10.1007/s00253-011-3477-y

    authors: Cheng KC,Demirci A,Catchmark JM

    更新日期:2011-10-01 00:00:00

  • Novel osmotic stress control strategy for improved pneumocandin B0 production in Glarea lozoyensis combined with a mechanistic analysis at the transcriptome level.

    abstract::Pneumocandin B0, the precursor of the antifungal drug caspofungin, is a secondary metabolite of the fungus Glarea lozoyensis. In this study, we investigated the effects of mannitol as the sole carbon source on pneumocandin B0 production by G. lozoyensis. The osmotic pressure is more important in enhancing pneumocandin...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-018-9440-4

    authors: Song P,Huang B,Zhang S,Zhang K,Yuan K,Ji X,Ren L,Wen J,Huang H

    更新日期:2018-12-01 00:00:00

  • The antiviral protein cyanovirin-N: the current state of its production and applications.

    abstract::Human immunodeficiency virus (HIV)/AIDS continues to spread worldwide, and most of the HIV-infected people living in developing countries have little or no access to highly active antiretroviral therapy. The development of efficient and low-cost microbicides to prevent sexual transmission of HIV should be given high p...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章,评审

    doi:10.1007/s00253-010-2470-1

    authors: Xiong S,Fan J,Kitazato K

    更新日期:2010-04-01 00:00:00

  • Effect of glucose feeding on the glycosylation quality of antibody produced by a human cell line, F2N78, in fed-batch culture.

    abstract::The human cell line rF2N78 produces an antibody with a high galactosylation ratio which resembles human IgG. However, it has been observed that the aglycosylated antibody starts to appear when glucose is depleted. To determine whether glucose depletion is a main cause for aglycosylation of the antibody, fed-batch cult...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-013-5462-0

    authors: Seo JS,Min BS,Kim YJ,Cho JM,Baek E,Cho MS,Lee GM

    更新日期:2014-04-01 00:00:00

  • An L-arabinose isomerase from Acidothermus cellulolytics ATCC 43068: cloning, expression, purification, and characterization.

    abstract::The araA gene encoding an L-arabinose isomerase (L-AI) from the acido-thermophilic bacterium Acidothermus cellulolytics ATCC 43068 was cloned and overexpressed in Escherichia coli. The open reading frame of the L-AI consisted of 1,503 nucleotides encoding 501 amino acid residues. The recombinant L-AI was purified to h...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-009-2322-z

    authors: Cheng L,Mu W,Zhang T,Jiang B

    更新日期:2010-04-01 00:00:00

  • Expression and characterization of a thermostable sarcosine oxidase (SOX) from Bacillus sp. in Escherichia coli.

    abstract::A heat-stable sarcosine oxidase produced by Bacillus sp. BSD-8 (SOX) had been studied and its complete gene sequence, which contained 1,164 bp nucleotides and encoded a protein of 387 amino acids, was obtained by DNA Walking method. The sox gene was cloned and functionally overexpressed in E. coli and the recombinant ...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-006-0502-7

    authors: Guo K,Ma X,Sun G,Zhao Y,Li X,Zhao W,Kai L

    更新日期:2006-12-01 00:00:00

  • Response of microbial community structure to microbial plugging in a mesothermic petroleum reservoir in China.

    abstract::Microbial plugging, a microbial enhancement of oil recovery (MEOR) technique, has been applied in a candidate oil reservoir of Daqing Oil Field (China). The goal of this study is to monitor the survival of injected bacteria and reveal the response of microbial communities in field trial of microbial plugging through i...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-010-2841-7

    authors: Zhang F,She YH,Ma SS,Hu JM,Banat IM,Hou du J

    更新日期:2010-12-01 00:00:00

  • Purification and immobilization of α-amylase in one step by gram-positive enhancer matrix (GEM) particles from the soluble protein and the inclusion body.

    abstract::Immobilization of the enzyme benefits the catalytic industry a lot. The gram-positive enhancer matrix (GEM) particles could purify and immobilize the recombinant α-amylase in one step without changing the enzymatic character. The enzyme immobilized by GEM particles exhibited good reusability and storage stability. The...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-019-10252-z

    authors: Zhao F,Song Q,Wang B,Han Y,Zhou Z

    更新日期:2020-01-01 00:00:00

  • Genetic engineering of an industrial yeast Candida glycerinogenes for efficient production of 2-phenylethanol.

    abstract::Microbial cell factories offer an economic approach for synthesizing "natural'" aromatic flavor compounds. During their fermentation process, the inefficient synthesis pathway and product cytotoxicity are the major barriers to the high-level production. This study combined metabolic engineering and tolerance engineeri...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-020-10991-4

    authors: Wang Y,Zhang Z,Lu X,Zong H,Zhuge B

    更新日期:2020-12-01 00:00:00

  • Batch and continuous cultivation of Anaerobiospirillum succiniciproducens for the production of succinic acid from whey.

    abstract::Batch and continuous cultivation of Anaerobiospirillum succiniciproducens were systematically studied for the production of succinic acid from whey. Addition of 2.5 g l(-1) yeast extract and 2.5 g l(-1) polypeptone per 10 g l(-1) whey was most effective for succinic acid production from both treated and nontreated whe...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s002530000331

    authors: Lee PC,Lee WG,Kwon S,Lee SY,Chang HN

    更新日期:2000-07-01 00:00:00

  • The redox-sensing transcriptional repressor Rex is important for regulating the products distribution in Thermoanaerobacterium aotearoense SCUT27.

    abstract::The redox-sensing transcriptional repressor Rex (Rex) displayed diverse functions in different microbial species. Nowadays, only part function of rex has been verified in vitro and alcohol dehydrogenase gene (adhE) as the target of Rex has been widely reported. In this study, rex was knocked out in Thermoanaerobacteri...

    journal_title:Applied microbiology and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s00253-020-10554-7

    authors: Qu C,Chen L,Li Y,Fu H,Wang J

    更新日期:2020-06-01 00:00:00