The unique branching patterns of Deinococcus glycogen branching enzymes are determined by their N-terminal domains.

Abstract:

:Glycogen branching enzymes (GBE) or 1,4-alpha-glucan branching enzymes (EC 2.4.1.18) introduce alpha-1,6 branching points in alpha-glucans, e.g., glycogen. To identify structural features in GBEs that determine their branching pattern specificity, the Deinococcus geothermalis and Deinococcus radiodurans GBE (GBE(Dg) and GBE(Dr), respectively) were characterized. Compared to other GBEs described to date, these Deinococcus GBEs display unique branching patterns, both transferring relatively short side chains. In spite of their high amino acid sequence similarity (88%) the D. geothermalis enzyme had highest activity on amylose while the D. radiodurans enzyme preferred amylopectin. The side chain distributions of the products were clearly different: GBE(Dg) transferred a larger number of smaller side chains; specifically, DP5 chains corresponded to 10% of the total amount of transferred chains, versus 6.5% for GBE(Dr). GH13-type GBEs are composed of a central (beta/alpha) barrel catalytic domain and an N-terminal and a C-terminal domain. Characterization of hybrid Deinococcus GBEs revealed that the N2 modules of the N domains largely determined substrate specificity and the product branching pattern. The N2 module has recently been annotated as a carbohydrate binding module (CBM48). It appears likely that the distance between the sugar binding subsites in the active site and the CBM48 subdomain determines the average lengths of side chains transferred.

journal_name

Appl Environ Microbiol

authors

Palomo M,Kralj S,van der Maarel MJ,Dijkhuizen L

doi

10.1128/AEM.02141-08

subject

Has Abstract

pub_date

2009-03-01 00:00:00

pages

1355-62

issue

5

eissn

0099-2240

issn

1098-5336

pii

AEM.02141-08

journal_volume

75

pub_type

杂志文章
  • Effect of L-proline on sake brewing and ethanol stress in Saccharomyces cerevisiae.

    abstract::During the fermentation of sake, cells of Saccharomyces cerevisiae are exposed to high concentrations of ethanol, thereby damaging the cell membrane and functional proteins. L-proline protects yeast cells from damage caused by freezing or oxidative stress. In this study, we evaluated the role of intracellular L-prolin...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.71.12.8656-8662.2005

    authors: Takagi H,Takaoka M,Kawaguchi A,Kubo Y

    更新日期:2005-12-01 00:00:00

  • Adaptation of Denitrifying Populations to Low Soil pH.

    abstract::Natural denitrification rates and activities of denitrifying enzymes were measured in an agricultural soil which had a 20-year past history of low pH (pH ca. 4) due to fertilization with acid-generating ammonium salts. The soil adjacent to this site had been limed and had a pH of ca. 6.0. Natural denitrification rates...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.49.5.1053-1056.1985

    authors: Parkin TB,Sexstone AJ,Tiedje JM

    更新日期:1985-05-01 00:00:00

  • Development of an amylolytic Lactobacillus plantarum silage strain expressing the Lactobacillus amylovorus alpha-amylase gene.

    abstract::An amylolytic Lactobacillus plantarum silage strain with the starch-degrading ability displayed by Lactobacillus amylovorus was developed. An active fragment of the gene coding for alpha-amylase production in L. amylovorus was cloned and integrated into the chromosome of the competitive inoculant strain L. plantarum L...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.60.10.3529-3535.1994

    authors: Fitzsimons A,Hols P,Jore J,Leer RJ,O'Connell M,Delcour J

    更新日期:1994-10-01 00:00:00

  • Use of oligonucleotide probes to study the relatedness of delta-endotoxin genes among Bacillus thuringiensis subspecies and strains.

    abstract::Fifteen Bacillus thuringiensis strains representing 13 serotypes were screened with five oligodeoxyribonucleotide probes specific for certain regions of two published sequences and one unpublished sequence of B. thuringiensis delta-endotoxin genes. Of the 15 cultures, 14 hybridized with at least one probe; the B. thur...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.53.12.2808-2814.1987

    authors: Prefontaine G,Fast P,Lau PC,Hefford MA,Hanna Z,Brousseau R

    更新日期:1987-12-01 00:00:00

  • Influence of hydrodynamics and cell signaling on the structure and behavior of Pseudomonas aeruginosa biofilms.

    abstract::Biofilms were grown from wild-type (WT) Pseudomonas aeruginosa PAO1 and the cell signaling lasI mutant PAO1-JP1 under laminar and turbulent flows to investigate the relative contributions of hydrodynamics and cell signaling for biofilm formation. Various biofilm morphological parameters were quantified using Image Str...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/aem.68.9.4457-4464.2002

    authors: Purevdorj B,Costerton JW,Stoodley P

    更新日期:2002-09-01 00:00:00

  • Production of respirable vesicles containing live Legionella pneumophila cells by two Acanthamoeba spp.

    abstract::Two Acanthamoeba species, fed at three temperatures, expelled vesicles containing living Legionella pneumophila cells. Vesicles ranged from 2.1 to 6.4 microns in diameter and theoretically could contain several hundred bacteria. Viable L. pneumophila cells were observed within vesicles which had been exposed to two co...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.64.1.279-286.1998

    authors: Berk SG,Ting RS,Turner GW,Ashburn RJ

    更新日期:1998-01-01 00:00:00

  • Use of Bioluminescence Markers To Detect Pseudomonas spp. in the Rhizosphere.

    abstract::The use of bioluminescence as a sensitive marker for detection of Pseudomonas spp. in the rhizosphere was investigated. Continuous expression of the luxCDABE genes, required for bioluminescence, was not detectable in the rhizosphere. However, when either a naphthalene-inducible luxCDABE construct or a constitutive lux...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.57.12.3641-3644.1991

    authors: de Weger LA,Dunbar P,Mahafee WF,Lugtenberg BJ,Sayler GS

    更新日期:1991-12-01 00:00:00

  • Sensitive detection of viable Listeria monocytogenes by reverse transcription-PCR.

    abstract::Detection of pathogens in contaminated food products by PCR can result in false-positive data due to the amplification of DNA from nonviable cells. A new method based on reverse transcription-PCR (RT-PCR) amplification of mRNA for the specific detection of viable Listeria monocytogenes was developed. The expression of...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.63.11.4441-4448.1997

    authors: Klein PG,Juneja VK

    更新日期:1997-11-01 00:00:00

  • Long-term study of Vibrio parahaemolyticus prevalence and distribution in New Zealand shellfish.

    abstract::The food-borne pathogen Vibrio parahaemolyticus has been reported as being present in New Zealand (NZ) seawaters, but there have been no reported outbreaks of food-borne infection from commercially grown NZ seafood. Our study determined the current incidence of V. parahaemolyticus in NZ oysters and Greenshell mussels ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.04020-14

    authors: Cruz CD,Hedderley D,Fletcher GC

    更新日期:2015-04-01 00:00:00

  • Reduction of cytotoxicity in virus concentrates from environmental samples.

    abstract::The reduction of cytotoxicity in virus concentrates from environmental samples was accomplished by high-speed centrifugation and by filtration of the samples through positively charged depth filters. ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.43.3.731-733.1982

    authors: Hejkal TW,Gerba CP,Rao VC

    更新日期:1982-03-01 00:00:00

  • Purification and Characterization of an Extracellular Proteinase from Brevibacterium linens ATCC 9174.

    abstract::An extracellular serine proteinase from Brevibacterium linens ATCC 9174 was purified to homogeneity. pH and temperature optima were 8.5 and 50(deg)C, respectively. The results for the molecular mass of the proteinase were 56 kDa by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and 126 kDa by gel filtration...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.61.9.3454-3456.1995

    authors: Rattray FP,Bockelmann W,Fox PF

    更新日期:1995-09-01 00:00:00

  • Mycobacterium avium subspecies paratuberculosis cultured from locally and commercially pasteurized cow's milk in the Czech Republic.

    abstract::Between November 2002 and April 2003, 244 bottles and cartons of commercially pasteurized cow's milk were obtained at random from retail outlets throughout the Czech Republic. During the same period, samples of raw milk and of milk that was subsequently subjected to a minimum of 71.7 degrees C for 15 s in a local past...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.71.3.1210-1214.2005

    authors: Ayele WY,Svastova P,Roubal P,Bartos M,Pavlik I

    更新日期:2005-03-01 00:00:00

  • Reduction of Chromate by Desulfovibrio vulgaris and Its c(3) Cytochrome.

    abstract::Washed cell suspensions of Desulfovibrio vulgaris rapidly reduced Cr(VI) to Cr(III) with H(2) as the electron donor. The c(3) cytochrome from this organism functioned as a Cr(VI) reductase. D. vulgaris may have advantages over previously described Cr(VI) reducers for the bioremediation of Cr(VI)-contaminated waters. ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.60.2.726-728.1994

    authors: Lovley DR,Phillips EJ

    更新日期:1994-02-01 00:00:00

  • Determination of thermal inactivation kinetics of hepatitis A virus in blue mussel (Mytilus edulis) homogenate.

    abstract::Hepatitis A virus (HAV) is a food-borne enteric virus responsible for outbreaks of hepatitis associated with shellfish consumption. The objectives of this study were to determine the thermal inactivation behavior of HAV in blue mussels, to compare the first-order and Weibull models to describe the data, to calculate A...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.00428-14

    authors: Bozkurt H,D'Souza DH,Davidson PM

    更新日期:2014-05-01 00:00:00

  • Pathways and microbiology of thiosulfate transformations and sulfate reduction in a marine sediment (kattegat, denmark).

    abstract::Reductive and oxidative pathways of the sulfur cycle were studied in a marine sediment by parallel radiotracer experiments with SO(4), H(2)S, and S(2)O(3) injected into undisturbed sediment cores. The distributions of viable populations of sulfate- and thiosulfate-reducing bacteria and of thiosulfate-disproportionatin...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.57.3.847-856.1991

    authors: Jørgensen BB,Bak F

    更新日期:1991-03-01 00:00:00

  • Development of multiple-locus variable-number tandem-repeat analysis for the molecular subtyping of Enterobacter sakazakii.

    abstract::The genomic content of Enterobacter sakazakii strain ATCC BAA-894 was analyzed for variable-number tandem repeats (VNTRs). In this study we report the development of a multiple-locus VNTR analysis (MLVA) strategy for the subtyping of E. sakazakii. The method is based on a GeneScan analysis of four VNTR loci labeled wi...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01726-07

    authors: Mullane NR,Ryan M,Iversen C,Murphy M,O'Gaora P,Quinn T,Whyte P,Wall PG,Fanning S

    更新日期:2008-02-01 00:00:00

  • Multiple Megaplasmids Confer Extremely High Levels of Metal Tolerance in Alteromonas Strains.

    abstract::Alteromonas is a widely distributed genus of marine Gammaproteobacteria, with representatives shown to be key players in diverse processes, including biogeochemical cycling and biofouling of marine substrata. While Alteromonas spp. are early colonizers of copper-based antifouling paints on marine vessels, their mechan...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01831-19

    authors: Cusick KD,Polson SW,Duran G,Hill RT

    更新日期:2020-01-21 00:00:00

  • Inoculation of Acacia mangium with Alginate Beads Containing Selected Bradyrhizobium Strains under Field Conditions: Long-Term Effect on Plant Growth and Persistence of the Introduced Strains in Soil.

    abstract::The growth response of Acacia mangium Willd. to inoculation with selected Bradyrhizobium strains was investigated in two field trials in the Ivory Coast (West Africa). In the first trial (Anguededou), four provenances (i.e., trees originating from seeds harvested in different geographical areas) of A. mangium were ino...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.60.11.3974-3980.1994

    authors: Galiana A,Prin Y,Mallet B,Gnahoua GM,Poitel M,Diem HG

    更新日期:1994-11-01 00:00:00

  • Thymidine Incorporation by the Microbial Community of Standing Dead Spartina alterniflora.

    abstract::Thymidine incorporation by the microbial community on standing dead leaves of Spartina alterniflora did not obey many of the assumptions inherent in the use of the technique in planktonic systems. Incorporation rates of [methly-H]thymidine were nonsaturable over a wide concentration range (10 to 10 nM). Owing to metab...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.52.5.1206-1208.1986

    authors: Fallon RD,Newell SY

    更新日期:1986-11-01 00:00:00

  • Role of Hippoboscidae flies as potential vectors of Bartonella spp. infecting wild and domestic ruminants.

    abstract::The putative role of biting flies in Bartonella transmission among ruminants was investigated. Amplification of the Bartonella citrate synthase gene from 83 Hippoboscidae was detected in 94% of 48 adult Lipoptena cervi flies, 71% of 17 adult Hippobosca equina flies, 100% of 20 adult Melophagus ovinus flies, and 100% o...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.70.10.6302-6305.2004

    authors: Halos L,Jamal T,Maillard R,Girard B,Guillot J,Chomel B,Vayssier-Taussat M,Boulouis HJ

    更新日期:2004-10-01 00:00:00

  • Subcellular fractionation of a hypercellulolytic mutant, Trichoderma reesei Rut-C30: localization of endoglucanase in microsomal fraction.

    abstract::The growing mycelia of Trichoderma reesei Rut-C30 are richly endowed with endoplasmic reticula and a variety of pleomorphic subcellular bodies. Mycelia of the culture growing in presence of avicel pH101 was fractionated in sucrose density gradients, and several morphologically and biochemically distinct fractions were...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.50.5.1137-1143.1985

    authors: Glenn M,Ghosh A,Ghosh BK

    更新日期:1985-11-01 00:00:00

  • Stable-Isotope Analysis of a Combined Nitrification-Denitrification Sustained by Thermophilic Methanotrophs under Low-Oxygen Conditions.

    abstract::To simulate growth conditions experienced by microbiota at O(inf2)-limited interfaces of organic matter in compost, an experimental system capable of maintaining dual limitations of oxygen and carbon for extended periods, i.e., a pO(inf2)-auxostat, has been used. (sup15)N tracer studies on thermophilic (53(deg)C) deco...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.63.2.474-481.1997

    authors: Pel R,Oldenhuis R,Brand W,Vos A,Gottschal JC,Zwart KB

    更新日期:1997-02-01 00:00:00

  • Comparative Genomics and Phylogenetic Analyses Suggest Several Novel Species within the Genus Clavibacter, Including Nonpathogenic Tomato-Associated Strains.

    abstract::Members of the genus Clavibacter are economically important bacterial plant pathogens infecting a set of diverse agricultural crops (e.g., alfalfa, corn, potato, tomato, and wheat). Tomato-associated Clavibacter sp. strains account for a great portion of the genetic diversity of the genus, and C. michiganensissensu st...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.02873-19

    authors: Osdaghi E,Rahimi T,Taghavi SM,Ansari M,Zarei S,Portier P,Briand M,Jacques MA

    更新日期:2020-03-02 00:00:00

  • Risk assessment in shellfish-borne outbreaks of hepatitis A.

    abstract::In the present work, we aimed at determining the relationship between the hepatitis A virus (HAV) numbers in imported frozen coquina clams involved in two hepatitis outbreaks, as well as the risk for human health. Due to HAV unculturability, a standardized TaqMan real-time reverse transcription-PCR controlling the vir...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01177-09

    authors: Pintó RM,Costafreda MI,Bosch A

    更新日期:2009-12-01 00:00:00

  • Arhodomonas sp. strain Seminole and its genetic potential to degrade aromatic compounds under high-salinity conditions.

    abstract::Arhodomonas sp. strain Seminole was isolated from a crude oil-impacted brine soil and shown to degrade benzene, toluene, phenol, 4-hydroxybenzoic acid (4-HBA), protocatechuic acid (PCA), and phenylacetic acid (PAA) as the sole sources of carbon at high salinity. Seminole is a member of the genus Arhodomonas in the cla...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01509-14

    authors: Dalvi S,Nicholson C,Najar F,Roe BA,Canaan P,Hartson SD,Fathepure BZ

    更新日期:2014-11-01 00:00:00

  • Binding of Dissolved Strontium by Micrococcus luteus.

    abstract::Resting cells of Micrococcus luteus have been shown to remove strontium (Sr) from dilute aqueous solutions of SrCl(2) at pH 7. Loadings of 25 mg of Sr per g of cell dry weight were achieved by cells exposed to a solution containing 50 ppm (mg/liter) of Sr. Sr binding occurred in the absence of nutrients and did not re...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.56.12.3649-3656.1990

    authors: Faison BD,Cancel CA,Lewis SN,Adler HI

    更新日期:1990-12-01 00:00:00

  • Mycoplasmalike organisms (MLOs) and distinguish them from other MLOs.

    abstract::DNA of 10 lines of rice yellow dwarf (RYD) mycoplasmalike organisms (MLOs) from Japan, the Phillippines, and Thailand hybridized with four probes containing chromosomal and six probes containing extrachromosomal DNA of a Tochigi (Japan) line of RYD MLO. One chromosomal probe (RYD9) and all six extrachromosomal probes ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.59.4.1206-1212.1993

    authors: Nakashima K,Kato S,Iwanami S,Murata N

    更新日期:1993-04-01 00:00:00

  • Phototrophic purple and green bacteria in a sewage treatment plant.

    abstract::In all purification stages of a biological sewage treatment plant, phototrophic bacteria were detected by the method of viable cell counts. The predominant species identified belonged to the genus Rhodopseudomonas of purple nonsulfur bacteria. The number of phototrophic bacteria was highest in wastewater containing sl...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.35.1.38-44.1978

    authors: Siefert E,Irgens RL,Pfennig N

    更新日期:1978-01-01 00:00:00

  • Ethylene Production by Pseudomonas syringae Pathovars In Vitro and In Planta.

    abstract::Significant amounts of ethylene were produced by Pseudomonas syringae pv. glycinea, pv. phaseolicola (which had been isolated from viny weed Pueraria lobata [Willd.] Ohwi [common name, kudzu]), and pv. pisi in synthetic medium. On the other hand, the bean strains of P. syringae pv. phaseolicola and strains of 17 other...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.63.1.156-161.1997

    authors: Weingart H,Volksch B

    更新日期:1997-01-01 00:00:00

  • Molecular and physiological responses of two classes of marine chromophytic phytoplankton (Diatoms and prymnesiophytes) during the development of nutrient-stimulated blooms.

    abstract::Generic taxon-specific DNA probes that target an internal region of the gene (rbcL) encoding the large subunit of ribulose-1, 5-bisphosphate carboxylase/oxygenase (RubisCO) were developed for two groups of marine phytoplankton (diatoms and prymnesiophytes). The specificity and utility of the probes were evaluated in t...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/aem.66.6.2349-2357.2000

    authors: Wyman M,Davies JT,Crawford DW,Purdie DA

    更新日期:2000-06-01 00:00:00