In the early 80s, Sanger successfully completed a whole genome sequencing of the lambda phage by using the shotgun method, and the method was successfully applied to the larger virus DNA, the organelle DNA, and the sequencing of the bacterial genome DNA. Shotgun sequencing is a classic strateg...
ARTICLE Received 1 Aug 2014 | Accepted 20 Feb 2015 | Published 15 Apr 2015 DOI: 10.1038/ncomms7687 Whole-exome sequencing implicates UBE3D in age-related macular degeneration in East Asian populations Lv-Zhen Huang1,2,3,*, Ying-Jie Li4,*, Xue-Feng Xie5,*, Jing-Jing Zhang1,2,3,*,...
Log2 fold-change values were calculated from the sequencing counts between two sets of samples. The specific comparison sets made for each screen are described in section “Overview of cell collection and experimental replicates.” Note that each cell migration assay resulted in two log2 fold-chang...
This study has focused on the whole genome sequencing of S. maltophilia in order to identify the genes which are responsible for antibiotic resistance. Initially, 25 samples were taken but as reported by [41] that the whole genome sequencing is a costly process, so, out of the 25 isolates,...
An inherent limitation of amplicon sequencing, however, is that the wider metagenome is not examined, which limits taxonomic resolution and prohibits a study of the functional genetic content of the microbiome. Knowledge of the functional capabilities of the microbiome could be critical to determining ...
To rule out the possibility that the observed frequency stemmed from non-specific read mapping to one or a few loci, rather than the complete genome, the coverage of sequencing reads across the genome (accession OMAC01000147.1) was examined. The broad coverage of this genome in the viromes ...
coli TOP10 F’ cells and the sequences were confirmed by Sanger sequencing (LGC Genomics). Finally, electrocompetent E. coli BL21 (DE3) Gold cells were transformed with plasmid DNA to give nFMO2 expression strains. The nFMO2 expression strains were cultivated as follows: overnight cultures [...
We next performed whole-genome sequencing (WGS) analyses of in vitro and in vivo post-WGD samples. The data showed that the number of acquired mutations in 6-weeks post-WGD RPETP53−/−cells was about 1.8-times higher than in control cells kept in culture for the same amount of time...
Tissue regeneration is a complex process involving large changes in cell proliferation, fate determination, and differentiation. Mitochondrial dynamics and metabolism play a crucial role in development and wound repair, but their function in large-scale
Transposons (Tns) are widely used for mutagenesis where available. This is because 1) it is easy to map the site of mutation (insertion of the transposon) by sequencing out from the ends of the transposon; 2) transposons can be used which insert only once in the chromosome, allowing analys...