In silico characterization, docking, and simulations to understand host–pathogen interactions in an effort to enhance crop production in date palms

2021 ◽  
Vol 27 (11) ◽  
Author(s):  
Meshari Alazmi ◽  
N. Alshammari ◽  
Naimah A. Alanazi ◽  
Abdel Moneim E. Sulieman
2018 ◽  
Author(s):  
E. Iype ◽  
Huaichen Zhang ◽  
A.D. Pathak ◽  
Shuiquan Lan ◽  
C. Ferchaud ◽  
...  

Author(s):  
Markus Boel ◽  
Oscar J. Abilez ◽  
Ahmed N Assar ◽  
Christopher K. Zarins ◽  
Ellen Kuhl

2019 ◽  
Vol 13 (2) ◽  
pp. 159-170 ◽  
Author(s):  
Vishal Ahuja ◽  
Aashima Sharma ◽  
Ranju Kumari Rathour ◽  
Vaishali Sharma ◽  
Nidhi Rana ◽  
...  

Background: Lignocellulosic residues generated by various anthropogenic activities can be a potential raw material for many commercial products such as biofuels, organic acids and nutraceuticals including xylitol. Xylitol is a low-calorie nutritive sweetener for diabetic patients. Microbial production of xylitol can be helpful in overcoming the drawbacks of traditional chemical production process and lowring cost of production. Objective: Designing efficient production process needs the characterization of required enzyme/s. Hence current work was focused on in-vitro and in-silico characterization of xylose reductase from Emericella nidulans. Methods: Xylose reductase from one of the hyper-producer isolates, Emericella nidulans Xlt-11 was used for in-vitro characterization. For in-silico characterization, XR sequence (Accession No: Q5BGA7) was used. Results: Xylose reductase from various microorganisms has been studied but the quest for better enzymes, their stability at higher temperature and pH still continues. Xylose reductase from Emericella nidulans Xlt-11 was found NADH dependent and utilizes xylose as its sole substrate for xylitol production. In comparison to whole cells, enzyme exhibited higher enzyme activity at lower cofactor concentration and could tolerate higher substrate concentration. Thermal deactivation profile showed that whole cell catalysts were more stable than enzyme at higher temperature. In-silico analysis of XR sequence from Emericella nidulans (Accession No: Q5BGA7) suggested that the structure was dominated by random coiling. Enzyme sequences have conserved active site with net negative charge and PI value in acidic pH range. Conclusion: Current investigation supported the enzyme’s specific application i.e. bioconversion of xylose to xylitol due to its higher selectivity. In-silico analysis may provide significant structural and physiological information for modifications and improved stability.


2009 ◽  
Vol 174 (3) ◽  
pp. 308
Author(s):  
Soubeyrand ◽  
Laine ◽  
Hanski ◽  
Penttinen

Genes ◽  
2021 ◽  
Vol 12 (1) ◽  
pp. 72
Author(s):  
Bishoy Wadie ◽  
Mohamed A. Abdel-Fattah ◽  
Alshymaa Yousef ◽  
Shaimaa F. Mouftah ◽  
Mohamed Elhadidy ◽  
...  

Campylobacter spp. represents the most common cause of gastroenteritis worldwide with the potential to cause serious sequelae. The ability of Campylobacter to survive stressful environmental conditions has been directly linked with food-borne illness. Toxin-antitoxin (TA) modules play an important role as defense systems against antimicrobial agents and are considered an invaluable strategy harnessed by bacterial pathogens to survive in stressful environments. Although TA modules have been extensively studied in model organisms such as Escherichia coli K12, the TA landscape in Campylobacter remains largely unexplored. Therefore, in this study, a comprehensive in silico screen of 111 Campylobacter (90 C.jejuni and 21 C.coli) isolates recovered from different food and clinical sources was performed. We identified 10 type II TA systems belonging to four TA families predicted in Campylobacter genomes. Furthermore, there was a significant association between the clonal population structure and distribution of TA modules; more specifically, most (12/13) of the Campylobacter isolates belonging to ST-21 isolates possess HicB-HicA TA modules. Finally, we observed a high degree of shared synteny among isolates bearing certain TA systems or even coexisting pairs of TA systems. Collectively, these findings provide useful insights about the distribution of TA modules in a heterogeneous pool of Campylobacter isolates from different sources, thus developing a better understanding regarding the mechanisms by which these pathogens survive stressful environmental conditions, which will further aid in the future designing of more targeted antimicrobials.


ChemMedChem ◽  
2021 ◽  
Author(s):  
Ulises Martínez-Ortega ◽  
Diego I. Figueroa-Figueroa ◽  
Francisco Hernández-Luis ◽  
Rodrigo Aguayo-Ortiz

Author(s):  
Neha Periwal ◽  
Shravan B. Rathod ◽  
Ranjan Pal ◽  
Priya Sharma ◽  
Lata Nebhnani ◽  
...  

Andrology ◽  
2021 ◽  
Author(s):  
Miriam Cerván‐Martín ◽  
Lara Bossini‐Castillo ◽  
Rocío Rivera‐Egea ◽  
Nicolás Garrido ◽  
Saturnino Luján ◽  
...  

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