In silico analysis of trypanosomatids' helicases.

Abstract:

:Trypanosomatids are unicellular protozoan parasites that cause many diseases in animals, including humans, and plants. These early divergent eukaryotes have many singular structures and processes, including the hyper-modified 'base J', a mitochondrial DNA network, RNA editing, and trans-splicing; all of these unique features involve a wide variety of specific DNA/RNA helicases. In this work, the genomes of trypanosomatids were analyzed by data mining, searching for genes coding for DNA/RNA helicases. Specific motifs and full-length sequences from all families present in the helicase's superfamilies (SFs) 1 and 2 were used as baits for genome analyses. A total of 328 putative helicases were identified; 204 genes were assigned to the SF2, 42 genes to the SF1, and 76 genes remain unclassified. Eight species-specific SF2 helicases were also found; Trypanosoma cruzi has three DEAD-box and one DEAH/RHA-specific helicases, while Leishmania major has three Swi2/Snf2 and Trypanosoma brucei has only one RigI helicase. Finally, to identify helicases that could be used as future therapeutic targets, all obtained genes were compared with those present in the human genome. Forty-two helicases underrepresented in the human genome were identified; constituting 16 orthologs groups from L. major, T. brucei, and T. cruzi.

journal_name

FEMS Microbiol Lett

authors

Gargantini PR,Lujan HD,Pereira CA

doi

10.1111/j.1574-6968.2012.02644.x

subject

Has Abstract

pub_date

2012-10-01 00:00:00

pages

123-9

issue

2

eissn

0378-1097

issn

1574-6968

journal_volume

335

pub_type

信件
  • Utilisation of aminomethane sulfonate by Chromohalobacter marismortui VH1.

    abstract::Chromohalobacter marismortui VH1 was screened for its ability to utilise organosulfonate compounds at a range of NaCl concentrations. Only aminomethane sulfonate, of seven sulfonates tested, was utilised. Length of lag phase during growth on aminomethane sulfonate, as either nitrogen and/or sulfur source, increased wi...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2002.tb11027.x

    authors: Ternan NG,McMullan G

    更新日期:2002-01-22 00:00:00

  • Identification of genes coding for hydrolytic dehalogenation in the metagenome derived from a denitrifying 4-chlorobenzoate degrading consortium.

    abstract::A metagenomic approach was taken to investigate the genetic basis for the ability of an anaerobic consortium to grow on either 4-chlorobenzoate or 4-bromobenzoate under denitrifying conditions. Degenerate PCR primers were designed for the family of 4-chlorobenzoyl-CoA dehalogenase genes. The primers were utilized to s...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2008.01106.x

    authors: Chae JC,Song B,Zylstra GJ

    更新日期:2008-04-01 00:00:00

  • A genome map of Salmonella enterica serovar Agona: numerous insertions and deletions reflecting the evolutionary history of a human pathogen.

    abstract::Salmonella enterica serovar Agona is an important zoonotic pathogen, causing serious human illness worldwide, but knowledge about its genetics and evolution, especially regarding the genomic events that might have contributed to the formation of S. Agona as an important pathogen, is lacking. As a first step toward und...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2009.01539.x

    authors: Chen F,Poppe C,Liu GR,Li YG,Peng YH,Sanderson KE,Johnston RN,Liu SL

    更新日期:2009-04-01 00:00:00

  • Changes in fatty acid composition associated with differentiation of Trypanosoma cruzi.

    abstract::The fatty acid composition during the transformation of Trypanosoma cruzi epimastigotes into metacyclic trypomastigotes (metacyclogenesis) was analysed by gas-liquid chromatography and mass spectrometry. Significant qualitative and quantitative changes in the fatty acid composition occurred during incubation of epimas...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/0378-1097(89)90453-9

    authors: Esteves MG,Gonzales-Perdomo M,Alviano CS,Angluster J,Goldenberg S

    更新日期:1989-05-01 00:00:00

  • Analysis of CcpA mutations defective in carbon catabolite repression in Bacillus megaterium.

    abstract::Five mutations in ccpA of Bacillus megaterium with impaired functions were analysed for carbon catabolite repression. The phenotypes support the hypothesis that CcpA assumes a PurR/LacI fold. The completely inactive mutants CcpA119GE and CcpA326am cause alterations which are incompatible with that fold. A mutation wit...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.1997.tb10485.x

    authors: Kraus A,Hillen W

    更新日期:1997-08-01 00:00:00

  • Characterization of a lipopolysaccharide mutant of Leptospira derived by growth in the presence of an anti-lipopolysaccharide monoclonal antibody.

    abstract::A lipopolysaccharide mutant of Leptospira interrogans (LaiMut) was obtained by growth in the presence of an agglutinating monoclonal antibody (mAb) against lipopolysaccharide. Agglutination reactions with anti-lipopolysaccharide mAbs and polyclonal antibodies showed that LaiMut had lost some serogroup Icterohaemorrhag...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2010.02029.x

    authors: Zapata S,Trueba G,Bulach DM,Boucher D,Adler B,Hartskeerl R

    更新日期:2010-08-01 00:00:00

  • Fluorescence in situ hybridisation (FISH)--the next generation.

    abstract::Fluorescence in situ hybridisation (FISH) has become one of the major techniques in environmental microbiology. The original version of this technique often suffered from limited sensitivity due to low target copy number or target inaccessibility. In recent years there have been several developments to amend this prob...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章,评审

    doi:10.1016/j.femsle.2005.04.015

    authors: Zwirglmaier K

    更新日期:2005-05-15 00:00:00

  • Borrelia burgdorferi possesses a collagenolytic activity.

    abstract::Lyme disease is a multisystemic disorder caused by Borrelia burgdorferi, an invasive spirochete. B. burgdorferi has a predilection for collagenous tissue and one major clinical manifestation of the disease is arthritis. We have identified a collagenolytic activity in B. burgdorferi detergent lysates using iodinated ge...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.1996.tb08506.x

    authors: Grab DJ,Kennedy R,Philipp MT

    更新日期:1996-10-15 00:00:00

  • Sequencing and characterization of pST1, a cryptic plasmid from Streptococcus thermophilus.

    abstract::Eighty-six strains of S. thermophilus were examined for their plasmid content. Thirteen strains were found to contain one or two plasmids ranging in size from 2.1 to 7.4 kb. DNA-DNA hybridization analysis revealed the presence of five distinct groups of DNA homology. The complete nucleotide sequence of plasmid pST1 (A...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/0378-1097(92)90425-n

    authors: Janzen T,Kleinschmidt J,Neve H,Geis A

    更新日期:1992-08-15 00:00:00

  • The F plasmid transfer activator TraJ is a dimeric helix-turn-helix DNA-binding protein.

    abstract::TraJ is an activator of the transfer (tra) operon in the F plasmid that counteracts H-NS silencing at the main transfer promoter (P(Y)). TraJ contains 226 aa (26 670 kDa), not 229 aa as reported previously, and forms homodimers. TraJ binds DNA containing P(Y)in vivo as demonstrated using a chromatin-immunoprecipitatio...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2010.02064.x

    authors: Rodriguez-Maillard JM,Arutyunov D,Frost LS

    更新日期:2010-09-01 00:00:00

  • Molecular characterization and expression analysis of the glucansucrase DSRWC from Weissella cibaria synthesizing a alpha(1-->6) glucan.

    abstract::Weissella cibaria isolated from human saliva produces a soluble glucan that predominantly has alpha-1,6-glucosidic type linkages. Using degenerated primers that were selected based on the amino acid sequences of conserved regions from known glucansucrases, a single 2.7-kb fragment was isolated. In subsequent steps, a ...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2008.01460.x

    authors: Kang HK,Oh JS,Kim D

    更新日期:2009-03-01 00:00:00

  • Coordination of export and glycosylation of landomycins in Streptomyces cyanogenus S136.

    abstract::In Streptomyces cyanogenus S136 gene cluster for biosynthesis of polyglycosylated angucycline landomycin A (LaA), a divergently oriented gene pair for a TetR-family regulator (lanK) and an efflux protein (lanJ) is located, whose functions remained obscure. Overexpression and disruption studies showed that lanK and lan...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2008.01225.x

    authors: Ostash I,Ostash B,Luzhetskyy A,Bechthold A,Walker S,Fedorenko V

    更新日期:2008-08-01 00:00:00

  • Clonal relationships among Escherichia coli serogroup 06 isolates from human and animal infections.

    abstract::The clonal relationship of thirty E. coli strains of 0 antigen serotype 06 isolated from human, dog, pig or cow infections were investigated. Two main clones with serotypes 06 : H1 or 06 : H31, H- were identified. Isolates from humans, dogs, pigs and cows were found in both clones, indicating that animals are a possib...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/0378-1097(91)90600-f

    authors: Cherifi A,Contrepois M,Picard B,Goullet P,Orskov I,Orskov F,De Rycke J

    更新日期:1991-05-15 00:00:00

  • Extreme UV-A sensitivity of the filamentous gliding bacterium Vitreoscilla stercoraria.

    abstract::Strains of the filamentous gliding bacterium Vitreoscilla, LB13 and C1, are shown to be highly sensitive to UV-A (320-400 nm), with an LD50 of less than 20 kJ m(-2). Vitreoscilla LB13 can be protected from UV-A by including superoxide dismutase and catalase, separately or in combination, during the exposure, indicatin...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/S0378-1097(03)00420-8

    authors: Biggs LF,Moody AJ

    更新日期:2003-07-15 00:00:00

  • Separation of Pneumocystis carinii from the lung of the steroid-suppressed rat.

    abstract::Pneumocystis carinii pneumonia was induced in rats by chronic corticosteroid immunosuppression. The parasite was separated from virtually all contaminating host cells using the technique of unit gravity sedimentation. Cellular contamination was routinely below 0.02%. The same technique allowed partial separation of th...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/0378-1097(90)90102-v

    authors: Taylor MB,Easmon CS

    更新日期:1990-06-15 00:00:00

  • Comparison of cell-specific activity between free-living and attached bacteria using isolates and natural assemblages.

    abstract::Marine snow aggregates are microbial hotspots that support high bacterial abundance and activities. We conducted laboratory experiments to compare cell-specific bacterial protein production (BPP) and protease activity between free-living and attached bacteria. Natural bacterial assemblages attached to model aggregates...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2006.00520.x

    authors: Grossart HP,Tang KW,Kiørboe T,Ploug H

    更新日期:2007-01-01 00:00:00

  • Pythium glomeratum, a new species isolated from agricultural soil taken in north-eastern France, its ITS region and its comparison with related species.

    abstract::Pythium glomeratum sp. nov. is described here. It was isolated from soil samples taken in the northern France in 1992, was wrongly identified as Pythium heterothallicum and was kept aside. Recently, the ITS region of the rDNA of this oomycete was amplified and sequenced. The differences between the sequence and a more...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/S0378-1097(03)00478-6

    authors: Paul B

    更新日期:2003-08-08 00:00:00

  • Measurement of Pseudomonas aeruginosa multidrug efflux pumps by quantitative real-time polymerase chain reaction.

    abstract::Multidrug efflux pumps contribute to multiple antibiotic resistance in Pseudomonas aeruginosa. Pump expression usually has been quantified by Western blotting. Quantitative real-time polymerase chain reaction has been developed to measure mRNA expression for genes of interest. Whether this method correlates with pump ...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/j.femsle.2004.11.048

    authors: Yoneda K,Chikumi H,Murata T,Gotoh N,Yamamoto H,Fujiwara H,Nishino T,Shimizu E

    更新日期:2005-02-01 00:00:00

  • Validation of reference genes for normalization of qPCR mRNA expression levels in Staphylococcus aureus exposed to osmotic and lactic acid stress conditions encountered during food production and preservation.

    abstract::Staphylococcus aureus represents the most prevalent cause of food-borne intoxications worldwide. While being repressed by competing bacteria in most matrices, this pathogen exhibits crucial competitive advantages during growth at high salt concentrations or low pH, conditions frequently encountered in food production ...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/1574-6968.12491

    authors: Sihto HM,Tasara T,Stephan R,Johler S

    更新日期:2014-07-01 00:00:00

  • RNA transcript sequencing reveals inorganic sulfur compound oxidation pathways in the acidophile Acidithiobacillus ferrivorans.

    abstract::Acidithiobacillus ferrivorans is an acidophile implicated in low-temperature biomining for the recovery of metals from sulfide minerals. Acidithiobacillus ferrivorans obtains its energy from the oxidation of inorganic sulfur compounds, and genes encoding several alternative pathways have been identified. Next-generati...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1093/femsle/fnw057

    authors: Christel S,Fridlund J,Buetti-Dinh A,Buck M,Watkin EL,Dopson M

    更新日期:2016-04-01 00:00:00

  • Isolation of genes encoding beta-D-xylanase, beta-D-xylosidase and alpha-L-arabinofuranosidase activities from the rumen bacterium Prevotella ruminicola B1(4).

    abstract::Prevotella ruminicola B1(4) is a strictly anaerobic, Gram-negative, polysaccharide-degrading rumen bacterium. Xylanase activity in this strain was found to be inducible, the specific activity of cells grown on xylan being increased at least 20-fold by comparison with cells grown on glucose. Ten bacteriophage clones ex...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.1995.tb07349.x

    authors: Gasparic A,Marinsek-Logar R,Martin J,Wallace RJ,Nekrep FV,Flint HJ

    更新日期:1995-01-15 00:00:00

  • The gyrB gene is a useful phylogenetic marker for exploring the diversity of Flavobacterium strains isolated from terrestrial and aquatic habitats in Antarctica.

    abstract::Within the phylum Bacteroidetes, the gyrB gene, encoding for the B subunit of the DNA gyrase, has been used as a phylogenetic marker for several genera closely related to Flavobacterium. The phylogenies of the complete 16S rRNA gene and the gyrB gene were compared for 33 Antarctic Flavobacterium isolates and 23 type s...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2011.02326.x

    authors: Peeters K,Willems A

    更新日期:2011-08-01 00:00:00

  • Physiological evidence for the presence of a cis-trans isomerase of unsaturated fatty acids in Methylococcus capsulatus Bath to adapt to the presence of toxic organic compounds.

    abstract::The physiology of the response in the methanotrophic bacterium Methylococcus capsulatus Bath towards thermal and solvent stress was studied. A systematic investigation of the toxic effects of organic compounds (chlorinated phenols and alkanols) on the growth of this bacterium was carried out. The sensitivity to the te...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2010.01993.x

    authors: Löffler C,Eberlein C,Mäusezahl I,Kappelmeyer U,Heipieper HJ

    更新日期:2010-07-01 00:00:00

  • Conserved motifs in the CRISPR leader sequence control spacer acquisition levels in Type I-D CRISPR-Cas systems.

    abstract::Integrating short DNA fragments at the correct leader-repeat junction is key to successful CRISPR-Cas memory formation. The Cas1-2 proteins are responsible to carry out this process. However, the CRISPR adaptation process additionally requires a DNA element adjacent to the CRISPR array, called leader, to facilitate ef...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1093/femsle/fnz129

    authors: Kieper SN,Almendros C,Brouns SJJ

    更新日期:2019-06-01 00:00:00

  • Determination of viridans streptococci surface lipoteichoic acid by enzyme linked immune sorbent assay.

    abstract::An enzyme linked immune sorbent assay (ELISA) was developed to measure bacterial surface lipoteichoic acid (LTA). Numerous strains of oral streptococci belonging to the 'viridans' group were examined on three separate occasions. The results show that, under these cultural conditions, oral streptococci do not normally ...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/0378-1097(89)90045-1

    authors: Hogg SD,Manning JE

    更新日期:1989-04-01 00:00:00

  • Response regulator, VemR, positively regulates the virulence and adaptation of Xanthomonas campestris pv. campestris.

    abstract::Xanthomonas campestris pv. campestris (Xcc) is the causal agent of black rot disease in cruciferous plants. The synthesis of known virulence factors in this organism, such as extracellular enzymes and biofilm, is strictly regulated in response to environmental stimuli. Two-component signal transduction systems sense e...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2010.01892.x

    authors: Tao J,He C

    更新日期:2010-03-01 00:00:00

  • Cellular transformation by human T-cell leukemia virus type I.

    abstract::Human T-cell leukemia virus type I (HTLV-I) is an oncogenic retrovirus that was isolated in 1980 from a patient with adult T-cell leukemia. From the numerous experiments using infected patient T-cells, transgenic mice and tissue culture transformation assays, the Tax protein has been determined to be the transforming ...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章,评审

    doi:10.1111/j.1574-6968.1996.tb08322.x

    authors: Ressler S,Connor LM,Marriott SJ

    更新日期:1996-07-01 00:00:00

  • Truepera radiovictrix gen. nov., sp. nov., a new radiation resistant species and the proposal of Trueperaceae fam. nov.

    abstract::Two isolates, belonging to a new species of a novel genus of the Phylum "Deinococcus/Thermus ", were recovered from hot spring runoffs on the Island of São Miguel in the Azores. Strains RQ-24(T) and TU-8 are the first cultured representatives of a distinct phylogenetic lineage within this phylum. These strains form or...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1016/j.femsle.2005.05.002

    authors: Albuquerque L,Simões C,Nobre MF,Pino NM,Battista JR,Silva MT,Rainey FA,da Costa MS

    更新日期:2005-06-15 00:00:00

  • Use of a lux reporter system for monitoring rapid changes in alpha-toxin gene expression in Clostridium perfringens during growth.

    abstract::To determine whether the luxA-luxB reporter system is suitable as a sensitive reporter for rapid real-time measurements of alpha-toxin gene (cpa) expression in Clostridium perfringens, and to widen the range of alpha-toxin-producing C. perfringens strains examined with respect to cpa expression during growth, the repo...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.2000.tb09164.x

    authors: Phillips-Jones MK

    更新日期:2000-07-01 00:00:00

  • Properties of yeast expressed Aspergillus nidulans chitin synthase B which is essential for hyphal growth.

    abstract::A complementary DNA of the Aspergillus nidulans chsB gene encoding chitin synthase, an essential gene for hyphal growth, was obtained by RT-PCR and expressed in Saccharomyces cerevisiae by using the GAL1 promoter in a multicopy plasmid. The biochemical characteristics of chitin synthase B (ChsB) expressed in S. cerevi...

    journal_title:FEMS microbiology letters

    pub_type: 杂志文章

    doi:10.1111/j.1574-6968.1997.tb10341.x

    authors: Tatsuno K,Yamada-Okabe H,Takagi M,Arisawa M,Sudoh M

    更新日期:1997-04-15 00:00:00