Abstract:
:In silico analyses of Leishmania spp. genome data are a powerful resource to improve the understanding of these pathogens' biology. Trypanosomatids such as Leishmania spp. have their protein-coding genes grouped in long polycistronic units of functionally unrelated genes. The control of gene expression happens by a variety of posttranscriptional mechanisms. The high degree of synteny among Leishmania species is accompanied by highly conserved coding sequences (CDS) and poorly conserved intercoding untranslated sequences. To identify the elements involved in the control of gene expression, we conducted an in silico investigation to find conserved intercoding sequences (CICS) in the genomes of L. major, L. infantum, and L. braziliensis. We used a combination of computational tools, such as Linux-Shell, PERL and R languages, BLAST, MSPcrunch, SSAKE, and Pred-A-Term algorithms to construct a pipeline which was able to: (i) search for conservation in target-regions, (ii) eliminate CICS redundancy and mask repeat elements, (iii) predict the mRNA's extremities, (iv) analyze the distribution of orthologous genes within the generated LeishCICS-clusters, (v) assign GO terms to the LeishCICS-clusters, and (vi) provide statistical support for the gene-enrichment annotation. We associated the LeishCICS-cluster data, generated at the end of the pipeline, with the expression profile of L. donovani genes during promastigote-amastigote differentiation, as previously evaluated by others (GEO accession: GSE21936). A Pearson's correlation coefficient greater than 0.5 was observed for 730 LeishCICS-clusters containing from 2 to 17 genes. The designed computational pipeline is a useful tool and its application identified potential regulatory cis elements and putative regulons in Leishmania.
journal_name
Mol Biochem Parasitoljournal_title
Molecular and biochemical parasitologyauthors
Vasconcelos EJ,Terrão MC,Ruiz JC,Vêncio RZ,Cruz AKdoi
10.1016/j.molbiopara.2012.02.009subject
Has Abstractpub_date
2012-06-01 00:00:00pages
140-50issue
2eissn
0166-6851issn
1872-9428pii
S0166-6851(12)00051-5journal_volume
183pub_type
杂志文章abstract::Strongyloides stercoralis and S. ratti are intestinal parasitic nematodes infecting rats and humans, respectively. Both present extraordinary life cycles comprising a free-living generation in addition to parasitic stages. In search of molecules possibly involved in parasite-host interaction, we performed mass spectro...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2009.07.007
更新日期:2009-12-01 00:00:00
abstract::A neutralizing antiserum, C16, raised against sporozoites of Theileria parva parva was used to screen a lambda gt11 expression library of T. parva parva (Muguga) genomic DNA fragments. Proteins encoded by one phage clone, lambda TpS-17, were reactive with the C16 antiserum. Detailed characterisation of the DNA insert ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(90)90007-9
更新日期:1990-02-01 00:00:00
abstract::During intracellular development of the malarial parasite numerous membranous vesicles appear in the infected erythrocyte cytoplasm between the parasitophorous vacuolar membrane (PVM) and the erythrocyte plasma membrane. In this study we describe the characterization of a monoclonal antibody which recognizes two major...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/s0166-6851(97)00206-5
更新日期:1998-03-15 00:00:00
abstract::Apicomplexan parasites utilize a peripheral membrane system called the inner membrane complex (IMC) to facilitate host cell invasion and parasite replication. We recently identified a novel family of Toxoplasma IMC Sub-compartment Proteins (ISP1/2/3) that localize to sub-domains of the IMC using a targeting mechanism ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2012.05.002
更新日期:2012-08-01 00:00:00
abstract::Cryptosporidiosis is an obligate intracellular pathogen causing diarrhea. Merozoite egress is essential for infection to spread between host cells. However, the mechanisms of egress have yet to be defined. We hypothesized that Cyclic GMP-Dependent Protein Kinase G (PKG) may be involved in Cryptosporidium egress. In th...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2020.111277
更新日期:2020-05-01 00:00:00
abstract::The guide RNA (gRNA) paradigm states that the uridine (U) insertion/deletion type of RNA editing is mediated by short 3' uridylylated gRNAs that are complementary to specific blocks of mature edited sequence. These gRNAs contain the edited sequence information in the form of guiding purine residues that can base pair ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章,评审
doi:10.1016/s0166-6851(97)00037-6
更新日期:1997-06-01 00:00:00
abstract::Kinetoplast DNA (kDNA) networks of the insect trypanosomatid Crithidia fasciculata strain CF-C1 contain a nearly homogeneous population of kDNA minicircles as judged by restriction enzyme cleavage analysis. We have determined the entire nucleotide sequence of the major class of minicircles by analyzing M13 phage clone...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(87)90032-6
更新日期:1987-04-01 00:00:00
abstract::Recombinant phage containing putative Ostertagia ostertagi cysteine protease genes have been isolated from a lambda EMBL-3:genomic DNA library using a Haemonchus contortus cathepsin B-like cysteine protease cDNA as hybridization probe. Restriction enzyme maps of the phages suggest that they identify at least 3 genes, ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(92)90152-a
更新日期:1992-11-01 00:00:00
abstract::A Plasmodium falciparum gene closely linked to the chloroquine resistance locus encodes PfCG2, a predicted 320-330kDa protein. In the parasitized erythrocyte, PfCG2 expression rises sharply in the trophozoite stage and is detected in electron-dense patches along the parasitophorous vacuolar membrane (PVM), in the cyto...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2005.07.009
更新日期:2005-12-01 00:00:00
abstract::Antigenic diversity was observed in the circumsporozoite (CS) proteins of five of the six Plasmodium cynomolgi isolates (NIH, Mulligan, London, Gombak, Ceylon, RO) that we examined. Monoclonal antibodies were produced against salivary gland sporozoites of three of the isolates. Interaction of these monoclonal antibodi...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(85)90110-0
更新日期:1985-01-01 00:00:00
abstract::The obligate intracellular protozoan parasite Toxoplasma gondii has a single tubular mitochondrion. During infection, it recruits the host cell's mitochondria abutting to the intracellular vacuole, that contains the parasites. The respective contribution of host and parasitic mitochondria in the intracellular growth o...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/s0166-6851(00)00324-8
更新日期:2000-12-01 00:00:00
abstract::Tropomyosins are a family of actin-binding proteins with diverse roles in actin filament function. One of the best characterized roles is the regulation of muscle contraction. Tropomyosin isoforms can be generated from different genes, and from alternative promoters and alternative splicing from the same gene. In this...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2010.11.009
更新日期:2011-02-01 00:00:00
abstract::When the malarial parasite Plasmodium falciparum multiplies in erythrocytes it dramatically increases uptake of essential metabolic precursors (nucleosides, nucleobases and glucose) and export of lactic acid by undefined mechanisms. The first evidence is provided here, by a detailed study in Xenopus laevis oocytes, th...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/s0166-6851(98)00024-3
更新日期:1998-05-15 00:00:00
abstract::DNA processes, including transcriptional activation, are largely governed by histone modifications. For most eukaryotes, chromatin-remodeling machines have been identified that move, replace, or decorate histones. Recent studies have shed some important light on similar machinery operating in apicomplexan parasites, i...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章,评审
doi:10.1016/j.molbiopara.2006.03.010
更新日期:2006-08-01 00:00:00
abstract::Kinetoplast DNA (kDNA), the mitochondrial DNA of trypanosomes, is a network of thousands of topologically interlocked DNA minicircles and about 50 maxicircles. In this study, we have analysed the kDNA molecules of 6 strains of Trypanosoma evansi from different geographical areas. 2 strains were found to be dyskinetopl...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(91)90203-i
更新日期:1991-05-01 00:00:00
abstract::Chemical modifications of Class I aldolases from Trypanosoma brucei, rabbit muscle and Staphylococcus aureus with carboxypeptidase A, glyceraldehyde 3-phosphate and cysteine-specific reagents revealed the following differences between the three homologous enzymes. Aldolase from S. aureus was not affected by any of the...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(91)90143-t
更新日期:1991-07-01 00:00:00
abstract::The Trypanosoma brucei flagellum controls motility and is crucial for cell polarity and division. Unique features of trypanosome motility suggest that flagellar beat regulation in this organism is unusual and worthy of study. The flagellar axoneme, required for motility, has a structure that is highly conserved among ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2010.09.005
更新日期:2011-01-01 00:00:00
abstract::Sequestration of Plasmodium falciparum infected erythrocytes in the cerebral circulation is strongly implicated in the pathogenesis of cerebral malaria. From previous studies it was postulated that genes essential for cytoadherence were located on the right arm of chromosome 9 as P. falciparum isolates with a deletion...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(94)90092-2
更新日期:1994-09-01 00:00:00
abstract::A 230 000 molecular weight (MW) Plasmodium yoelii protein, a 250 000 MW P. chabaudi protein and a 195 000 MW P. falciparum protein, identified using monoclonal antibodies, have similar characteristics, and have been implicated as protective antigens. In this study the serological relationship between these proteins wa...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(83)90096-8
更新日期:1983-11-01 00:00:00
abstract::The principal constituents of the free amino acid pool in Leishmania tropica promastigotes include alanine, glycine, serine, threonine, alpha-aminobutyric acid and ethanolamine. Changes in levels of the pool constituents during starvation, nutrient supplementation and treatment with a metabolic inhibitor (sodium fluor...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(83)90056-7
更新日期:1983-09-01 00:00:00
abstract::Glucose is a major source of energy and carbon in promastigotes of Leishmania mexicana, and its uptake is mediated by three glucose transporters whose genes are encoded within a single cluster. A null mutant in which the glucose transporter gene cluster was deleted by homologous gene replacement was generated previous...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2007.01.010
更新日期:2007-05-01 00:00:00
abstract::The cyclophilins are a large family of proteins implicated in folding, transport and regulation of other proteins and are potential drug targets in cancer and in some viral and parasitic infections. The functionality of cyclophilins appears to depend on peptidyl-prolyl cis-trans isomerase (foldase) and/or molecular ch...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2012.04.006
更新日期:2012-07-01 00:00:00
abstract::The tegumental membrane of Taenia crassiceps cysticerci contains an ATP-diphosphohydrolase (EC 3.6.1.5) which hydrolyzes purine and pyrimidine nucleoside 5'-di- and 5'-triphosphates at an optimum pH of 8.5. It is Mg(2+)-dependent and insensitive to classical ATPase and phosphatase inhibitors. In solubilized tegumental...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2008.08.002
更新日期:2008-12-01 00:00:00
abstract::Theileria annulata is an important pathogen of cattle in the tropics. The gene sequence of a sporozoite surface antigen (SPAG-1) is reported. Data is also presented demonstrating that SPAG-1 is synthesised as a large precursor. This antigen, which is a candidate for inclusion in a subunit vaccine, shows a remarkable d...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(92)90012-9
更新日期:1992-07-01 00:00:00
abstract::We have purified and characterized the Ascaris suum gamma-glutamylcysteine synthetase, the rate-limiting step in the glutathione biosynthesis. The purified enzyme exhibited a specific activity of 18 U (mg protein)-1. Estimation of the molecular mass of the native enzyme by FPLC on Superdex S-200 revealed the presence ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(94)00064-t
更新日期:1995-06-01 00:00:00
abstract::Phosphatidylcholine (PC) is the most abundant phospholipid in the membranes of the human parasite Leishmania. It is synthesized via two metabolic routes, the de novo pathway that starts with the uptake of choline, and the threefold methylation of phosphatidylethanolamine. Choline was shown to be dispensable for Leishm...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2014.08.005
更新日期:2014-09-01 00:00:00
abstract::The technique of RNA interference (RNAi) is exceedingly useful for knocking down the expression of a specific mRNA in African trypanosomes and other organisms for the purpose of examining the function of its gene. However, when we attempted to apply RNAi in the Latin American trypanosome, Trypanosoma cruzi, to diminis...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/j.molbiopara.2003.10.005
更新日期:2004-02-01 00:00:00
abstract::The promastigote surface antigen 2 (PSA-2) complex comprises a family of antigenically similar polypeptides of M(r) 96,000, 80,000 and 50,000, anchored to the membrane with glycosylphosphatidylinositol. Although PSA-2 was initially detected only in promastigotes, Northern blot analysis indicated that mRNA transcripts ...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(95)02500-6
更新日期:1995-11-01 00:00:00
abstract::Soon after infecting a mammalian host, cercariae of Schistosoma mansoni rapidly undergo a series of morphologic and biochemical adaptations associated with transformation to their next developmental stage, the schistosomulum. Few of these changes are associated with alterations in gene expression except for an apparen...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(92)90070-z
更新日期:1992-04-01 00:00:00
abstract::Asexual intraerythrocytic Plasmodium falciparum were shown to have a single isoenzyme of malate dehydrogenase. This malate dehydrogenase was purified to apparent homogeneity using a three-step purification protocol. The parasite malate dehydrogenase had an apparent subunit molecular weight of 32 kDa, a pH optimum of 7...
journal_title:Molecular and biochemical parasitology
pub_type: 杂志文章
doi:10.1016/0166-6851(92)90240-k
更新日期:1992-01-01 00:00:00