scholarly journals Mapping Transposon Insertions in Bacterial Genomes by Arbitrarily Primed PCR

2017 ◽  
Vol 118 (1) ◽  
Author(s):  
José T. Saavedra ◽  
Julia A. Schwartzman ◽  
Michael S. Gilmore
Keyword(s):  
Bacterial Genomes ◽  
Arbitrarily Primed Pcr ◽  
Transposon Insertions

scholarly journals Identifying transposon insertions in bacterial genomes through nanopore sequencing

2019 ◽  
Author(s):  
David A. Baltrus ◽  
John Medlen ◽  
Meara Clark
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Whole Genome ◽  
Nanopore Sequencing ◽  
Genetic Screens ◽  
Bacterial Genomes ◽  
Sequence Capture ◽  
Transposon Insertion ◽  
Forward Genetic Screens ◽  
Transposon Insertions

AbstractTransposon mutagenesis is a widely used tool for carrying out forward genetic screens across systems, but in some cases it can be difficult to identify transposon insertion points after successful phenotypic screens. As an alternative to traditional methods, we report on the efficacy of using an Oxford Nanopore’s MinION to identify transposon insertions through whole genome sequencing. We also report experiments using CRISPR-Cas to selectively target regions of the genome where a transposon has integrated. Our experiments provide a framework for understanding the efficiency of such techniques for carrying out forward genetic screens and point towards the ability to use CRISPR-based sequence capture to identify the insertion of particular regions of DNA across all genomes, which may enable Tn-Seq experiments using Nanopore based sequencing.

Natural products in complex microbiomes – Assembling multiple bacterial genomes directly through shotgun metagenomics

Planta Medica ◽  
2014 ◽  
Vol 80 (10) ◽  
Author(s):  
IJ Miller ◽  
T Weyna ◽  
C Mlot ◽  
SS Fong ◽  
K McPhail ◽  
...  
Keyword(s):  
Natural Products ◽  
Bacterial Genomes ◽  
Shotgun Metagenomics

Distribution and Correlation of the Coding Sequence Lengths in Bacterial Genomes

2008 ◽  
Vol 59 (11) ◽  
Author(s):  
Vasile V. Morariu
Keyword(s):  
Correlation Analysis ◽  
Exponential Function ◽  
Short Range ◽  
Statistical Physics ◽  
Bacterial Genomes ◽  
Coding Sequence ◽  
Correlation Properties ◽  
Short Range Correlations ◽  
Fluctuating System

The length of coding sequence (CDS) series in bacterial genomes were regarded as a fluctuating system and characterized by the methods of statistical physics. The distribution and the correlation properties of CDS for 47 genomes were investigated. The distribution was found to be approximated by an exponential function while the correlation analysis revealed short range correlations.

Shrinking Bacterial Genomes

2008 ◽  
Vol 3 (1) ◽  
pp. 124-130
Author(s):  
Dan I. Andersson
Keyword(s):  
Bacterial Genomes
Sign in / Sign up

Export Citation Format

Share Document