Computational Prediction and Experimental Validation of Signal Peptide Cleavages in the Extracellular Proteome of a Natural Microbial Community

2010 ◽  
Vol 9 (5) ◽  
pp. 2148-2159 ◽  
Author(s):  
Brian K. Erickson ◽  
Ryan S. Mueller ◽  
Nathan C. VerBerkmoes ◽  
Manesh Shah ◽  
Steven W. Singer ◽  
...  
Keyword(s):  
Microbial Community ◽  
Signal Peptide ◽  
Experimental Validation ◽  
Computational Prediction ◽  
Extracellular Proteome ◽  
Natural Microbial Community

scholarly journals Computational Prediction and Experimental Validation of the Lipid‐Binding Regions of Hsp70 Proteins

2011 ◽  
Vol 25 (S1) ◽  
Author(s):  
Chelsea McCallister ◽  
Gabrielle Donnelly ◽  
Dat Le ◽  
Nikolas Nikolaidis
Keyword(s):  
Experimental Validation ◽  
Computational Prediction ◽  
Lipid Binding ◽  
Binding Regions

Genome-wide computational prediction and experimental validation of quinoa (Chenopodium quinoa) microRNAs

2019 ◽  
Vol 99 (5) ◽  
pp. 666-675 ◽  
Author(s):  
Ashutosh Sharma ◽  
Paola Isabel Angulo Bejerano ◽  
Irais Castillo Maldonado ◽  
Marcos de Donato Capote ◽  
Alfredo Madariaga-Navarrete ◽  
...  
Keyword(s):  
Experimental Validation ◽  
Protein Quality ◽  
Chenopodium Quinoa ◽  
Computational Prediction ◽  
Transcriptional Gene Silencing ◽  
Rt Pcr ◽  
Rna Molecules ◽  
Post Transcriptional Gene Silencing ◽  
Non Coding Rna ◽  
Genome Wide

MicroRNAs (miRNAs) are highly conserved, endogenous, short (21–24 nucleotides), non-coding RNA molecules that play significant roles in post-transcriptional gene silencing by directing target mRNA cleavage or translational inhibition. Nonetheless, highly nutritious “super grain” quinoa (Chenopodium quinoa) is an extreme abiotic stress tolerant Andean seed crop of many potential uses, with outstanding protein quality and a load of vitamins, minerals, as well as flavonoid antioxidants. In this study, applying genome-wide in silico approaches (referring to the recently published quinoa genome) and following a set of stringent filtering measures, a total of 22 potentially conserved microRNAs belonging to 18 families were characterized from quinoa and 11 randomly selected putative microRNAs (cqu-miR160a, cqu-miR162a, cqu-miR164a, cqu-miR166b, cqu-miR167a, cqu-miR172a, cqu-miR319a, cqu-miR390a, cqu-miR393a, cqu-miR394a, and cqu-miR398b) were validated successfully by RT-PCR. Using the psRNATarget tool, a sum of 59 potential miRNA targets, mostly transcription factors, were identified that are involved in biosynthesis, metabolic processes, and signal transduction. Among the detected targets, six target transcripts (F-Box proteins, TCP, MYB, WD protein, NAC, and CSD) were reported to have specific roles in both flavonoids biosynthesis and stress response signaling in some plants. To the best of our knowledge, this is the first report of quinoa microRNAs and their targets.

scholarly journals Computational prediction and experimental validation of novel Hedgehog-responsive enhancers linked to genes of the Hedgehog pathway

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Katherine Gurdziel ◽  
Kyle R. Vogt ◽  
Gary Schneider ◽  
Neil Richards ◽  
Deborah L. Gumucio
Keyword(s):  
Experimental Validation ◽  
Computational Prediction ◽  
Hedgehog Pathway

scholarly journals A framework for the computational prediction and analysis of non-coding RNAs in microbial environmental populations and their experimental validation

2020 ◽  
Vol 14 (8) ◽  
pp. 1955-1965
Author(s):  
Steffen C. Lott ◽  
Karsten Voigt ◽  
S. Joke Lambrecht ◽  
Wolfgang R. Hess ◽  
Claudia Steglich
Keyword(s):  
Experimental Validation ◽  
Computational Prediction ◽  
Non Coding Rnas

scholarly journals Ecological distribution and population physiology defined by proteomics in a natural microbial community

2010 ◽  
Vol 6 (1) ◽  
pp. 374 ◽  
Author(s):  
Ryan S Mueller ◽  
Vincent J Denef ◽  
Linda H Kalnejais ◽  
K Blake Suttle ◽  
Brian C Thomas ◽  
...  
Keyword(s):  
Microbial Community ◽  
Ecological Distribution ◽  
Natural Microbial Community

scholarly journals Inside Cover: Computational Prediction and Rationalization, and Experimental Validation of Handedness Induction in Helical Aromatic Oligoamide Foldamers (Chem. Eur. J. 15/2017)

2017 ◽  
Vol 23 (15) ◽  
pp. 3500-3500
Author(s):  
Zhiwei Liu ◽  
Xiaobo Hu ◽  
Ara M. Abramyan ◽  
Ádám Mészáros ◽  
Márton Csékei ◽  
...  
Keyword(s):  
Experimental Validation ◽  
Computational Prediction
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