scholarly journals In Silico Identification and Experimental Characterization of Regulatory Elements Controlling the Expression of the Salmonella csrB and csrC Genes

2013 ◽  
Vol 196 (2) ◽  
pp. 325-336 ◽  
Author(s):  
L. C. Martinez ◽  
I. Martinez-Flores ◽  
H. Salgado ◽  
M. Fernandez-Mora ◽  
A. Medina-Rivera ◽  
...  
Keyword(s):  
In Silico ◽  
Regulatory Elements ◽  
Experimental Characterization ◽  
In Silico Identification

In Silico Identification and Molecular Characterization of Extracellular Cathepsin L Proteases from Giardia duodenalis

2020 ◽  
Vol 17 (4) ◽  
pp. 342-351
Author(s):  
Sergio A. Durán-Pérez ◽  
José G. Rendón-Maldonado ◽  
Lucio de Jesús Hernandez-Diaz ◽  
Annete I. Apodaca-Medina ◽  
Maribel Jiménez-Edeza ◽  
...  
Keyword(s):  
In Silico ◽  
Cathepsin L ◽  
Three Dimensional ◽  
Giardia Duodenalis ◽  
Evolutionary Genetics ◽  
Extracellular Proteins ◽  
In Silico Identification ◽  
Dimensional Models ◽  
Three Dimensional Models

Background: The protozoan Giardia duodenalis, which causes giardiasis, is an intestinal parasite that commonly affects humans, mainly pre-school children. Although there are asymptomatic cases, the main clinical features are chronic and acute diarrhea, nausea, abdominal pain, and malabsorption syndrome. Little is currently known about the virulence of the parasite, but some cases of chronic gastrointestinal alterations post-infection have been reported even when the infection was asymptomatic, suggesting that the cathepsin L proteases of the parasite may be involved in the damage at the level of the gastrointestinal mucosa. Objective: The aim of this study was the in silico identification and characterization of extracellular cathepsin L proteases in the proteome of G. duodenalis. Methods: The NP_001903 sequence of cathepsin L protease from Homo sapienswas searched against the Giardia duodenalisproteome. The subcellular localization of Giardia duodenaliscathepsin L proteases was performed in the DeepLoc-1.0 server. The construction of a phylogenetic tree of the extracellular proteins was carried out using the Molecular Evolutionary Genetics Analysis software (MEGA X). The Robetta server was used for the construction of the three-dimensional models. The search for possible inhibitors of the extracellular cathepsin L proteases of Giardia duodenaliswas performed by entering the three-dimensional structures in the FINDSITEcomb drug discovery tool. Results: Based on the amino acid sequence of cathepsin L from Homo sapiens, 8 protein sequences were identified that have in their modular structure the Pept_C1A domain characteristic of cathepsins and two of these proteins (XP_001704423 and XP_001704424) are located extracellularly. Threedimensional models were designed for both extracellular proteins and several inhibitory ligands with a score greater than 0.9 were identified. In vitrostudies are required to corroborate if these two extracellular proteins play a role in the virulence of Giardia duodenalisand to discover ligands that may be useful as therapeutic targets that interfere in the mechanism of pathogenesis generated by the parasite. Conclusion: In silicoanalysis identified two proteins in the Giardia duodenalisprotein repertoire whose characteristics allowed them to be classified as cathepsin L proteases, which may be secreted into the extracellular medium to act as virulence factors. Three-dimensional models of both proteins allowed the identification of inhibitory ligands with a high score. The results suggest that administration of those compounds might be used to block the endopeptidase activity of the extracellular cathepsin L proteases, interfering with the mechanisms of pathogenesis of the protozoan parasite Giardia duodenalis.

In silico identification and characterization of sensory motifs in the transcriptional regulators of the ArsR-SmtB family

Metallomics ◽  
2018 ◽  
Vol 10 (10) ◽  
pp. 1476-1500 ◽  
Author(s):  
Rima Roy ◽  
Saikat Samanta ◽  
Surajit Patra ◽  
Nav Kumar Mahato ◽  
Rudra P. Saha
Keyword(s):  
In Silico ◽  
Transcriptional Regulators ◽  
Transcriptional Repressors ◽  
Structural Elements ◽  
In Silico Identification ◽  
Metal Efflux ◽  
Identification And Characterization ◽  
Secondary Structural Elements ◽  
Efflux Proteins

The ArsR-SmtB family of transcriptional repressors regulates the transcription of metal-efflux proteins by binding specific metals at a variety of secondary structural elements, called motifs, on the surface of the proteins.

scholarly journals In silico identification and in vivo validation of a set of evolutionary conserved plant root-specific cis-regulatory elements

2013 ◽  
Vol 130 (1) ◽  
pp. 70-81 ◽  
Author(s):  
Aurélie Christ ◽  
Ira Maegele ◽  
Nati Ha ◽  
Hong Ha Nguyen ◽  
Martin D. Crespi ◽  
...  
Keyword(s):  
In Silico ◽  
Plant Root ◽  
Regulatory Elements ◽  
In Silico Identification ◽  
In Vivo Validation

scholarly journals In silico identification and characterization of novel microsatellite loci for the Blue-and-yellow Macaw Ara ararauna (Linnaeus, 1758) (Psittaciformes, Psittacidae)

2019 ◽  
Vol 42 (1) ◽  
pp. 68-73
Author(s):  
Cássia Alves Lima-Rezende ◽  
Gislaine Aparecida Fernandes ◽  
Helder Elias da Silva ◽  
Sarah Dobkowski-Marinho ◽  
Victor Fernandes Santos ◽  
...  
Keyword(s):  
Microsatellite Loci ◽  
In Silico ◽  
In Silico Identification ◽  
Identification And Characterization

scholarly journals In silico identification and in vivo characterization of small molecule therapeutic hypothermia mimetics

2017 ◽  
Vol 25 (24) ◽  
pp. 6597-6604 ◽  
Author(s):  
Claire Coderch ◽  
María Díaz de Cerio ◽  
Jose María Zapico ◽  
Rafael Peláez ◽  
Ignacio M. Larrayoz ◽  
...  
Keyword(s):  
Therapeutic Hypothermia ◽  
Small Molecule ◽  
In Silico ◽  
In Silico Identification ◽  
In Vivo Characterization

Genome-wide in silico identification and characterization of sodium-proton (Na+/H+) antiporters in Indica rice

Plant Gene ◽  
2021 ◽  
pp. 100280
Author(s):  
Tushar Khare ◽  
Shrushti Joshi ◽  
Kawaljeet Kaur ◽  
Amrita Srivastav ◽  
Varsha Shriram ◽  
...  
Keyword(s):  
In Silico ◽  
Indica Rice ◽  
Genome Wide ◽  
In Silico Identification ◽  
Identification And Characterization
Sign in / Sign up

Export Citation Format

Share Document