scholarly journals Interactome-Seq: A Protocol for Domainome Library Construction, Validation and Selection by Phage Display and Next Generation Sequencing

10.3791/56981 ◽  
2018 ◽  
Author(s):  
Maria Felicia Soluri ◽  
Simone Puccio ◽  
Giada Caredda ◽  
Giorgio Grillo ◽  
Vito Flavio Licciulli ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Phage Display ◽  
Next Generation ◽  
Library Construction ◽  
Generation Sequencing

Screening and Identification of PLK1-Polo Box Binding Peptides by High-Throughput Sequencing of Phage-Selected Libraries

2019 ◽  
Vol 26 (8) ◽  
pp. 620-633 ◽  
Author(s):  
Nousheen Bibi ◽  
Hafsa Niaz ◽  
Ted Hupp ◽  
Mohammad Amjad Kamal ◽  
Sajid Rashid
Keyword(s):  
Next Generation Sequencing ◽  
Phage Display ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
B Lymphocyte ◽  
Fluorescent Protein ◽  
Next Generation ◽  
Peptide Phage Display ◽  
Binding Peptides ◽  
Generation Sequencing

Background: Human proteome contains a plethora of short linear peptide motifs that is crucial for signaling and other cellular processes. These motifs are difficult to identify due to lack of systematic approach for their detection. Objective: Here we demonstrate the use of peptide phage display in combination with high throughput next generation sequencing to identify enriched peptide sequences through biopanning process against polo box domain (PBD) of mitotic polo like kinase 1 (Plk1). Methods: Purified recombinant Plk1 and two unrelated controls namely B-lymphocyte antigen (CD20) and fluorescent protein (mCherry) were subjected to peptide phage display analysis. Bacterially-propagated phage DNA was amplified by PCR using triplet bar coded primers to tag the pool from each amplicon. Results: Proteomic peptide phage display along with next generation sequencing and Bioinformatics analysis demonstrated several known and putative novel interactions which were potentially related to Plk1-PBD. With our strategy, we were able to identify and characterize several Plk1-PBD binding peptides, as well as define more precisely, consensus sequences. Conclusion: We believe that this information could provide valuable tools for exploring novel interaction involved in Plk1 signaling as well as to choose peptides for Plk1 specific drug development.

scholarly journals Next-Generation Sequencing of a Single Domain Antibody Repertoire Reveals Quality of Phage Display Selected Candidates

PLoS ONE ◽  
2016 ◽  
Vol 11 (2) ◽  
pp. e0149393 ◽  
Author(s):  
Kendrick B. Turner ◽  
Jennifer Naciri ◽  
Jinny L. Liu ◽  
George P. Anderson ◽  
Ellen R. Goldman ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Phage Display ◽  
Single Domain ◽  
Antibody Repertoire ◽  
Next Generation ◽  
Single Domain Antibody ◽  
Domain Antibody ◽  
Generation Sequencing

scholarly journals Nanoliter-scale next-generation sequencing library-mediated high-throughput 16S rRNA microbial community profiling

BioTechniques ◽  
2020 ◽  
Vol 68 (4) ◽  
pp. 204-210
Author(s):  
Hui Zhang ◽  
Xiangdan Yu ◽  
Zhe Zhang ◽  
Zhenhua Liu ◽  
Cong Tang ◽  
...  
Keyword(s):  
Microbial Community ◽  
Next Generation Sequencing ◽  
Large Scale ◽  
Amplicon Sequencing ◽  
Next Generation ◽  
Library Construction ◽  
Microbial Community Profiling ◽  
Community Profiling ◽  
Sequencing Library ◽  
Generation Sequencing

An ultra-high-throughput workflow for next-generation sequencing library construction at nanoliter scale for amplicon sequencing, termed Smartchip Nanowell Platform for Target Enrichment, was established using a nanodispenser system and a nanoliter-scale PCR chip. To demonstrate its cost and time advantages over conventional methods for library construction, quality control and pooling for large-scale samples, target amplicon sequencing of the 16S ribosomal RNA gene V3-V4 region widely used for microbial community profiling was chosen for comparison. The finding of no significant difference in microbial community profiling between the two methods strongly supports the conclusion that Smartchip Nanowell Platform for Target Enrichment is a cost-effective method for next-generation sequencing library construction for large-scale samples to conduct amplicon sequencing-based applications.

scholarly journals PHASTpep: Analysis Software for Discovery of Cell-Selective Peptides via Phage Display and Next-Generation Sequencing

PLoS ONE ◽  
2016 ◽  
Vol 11 (5) ◽  
pp. e0155244 ◽  
Author(s):  
Lindsey T. Brinton ◽  
Dustin K. Bauknight ◽  
Siva Sai Krishna Dasa ◽  
Kimberly A. Kelly
Keyword(s):  
Next Generation Sequencing ◽  
Phage Display ◽  
Next Generation ◽  
Analysis Software ◽  
Generation Sequencing

Whole Exome Library Construction for Next Generation Sequencing

2018 ◽  
pp. 163-174 ◽  
Author(s):  
Winnie S. Liang ◽  
Kristi Stephenson ◽  
Jonathan Adkins ◽  
Austin Christofferson ◽  
Adrienne Helland ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Library Construction ◽  
Whole Exome ◽  
Generation Sequencing

scholarly journals TELP, a sensitive and versatile library construction method for next-generation sequencing

2014 ◽  
Vol 43 (6) ◽  
pp. e35-e35 ◽  
Author(s):  
Xu Peng ◽  
Jingyi Wu ◽  
Reinhard Brunmeir ◽  
Sun-Yee Kim ◽  
Qiongyi Zhang ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Construction Method ◽  
Next Generation ◽  
Library Construction ◽  
Generation Sequencing
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