E. coli is most preferred system used for the production of recombinant proteins in bacteria
and the availability of improved genetic tools/methods are making it more valuable than …

The redundancy of the genetic code implies that most amino acids are encoded by multiple
synonymous codons. In all domains of life, a biased frequency of synonymous codons is …

Background Identifying viral sequences in mixed metagenomes containing both viral and
host contigs is a critical first step in analyzing the viral component of samples. Current tools …

Background The recent development of metagenomic sequencing makes it possible to
massively sequence microbial genomes including viral genomes without the need for …

Metagenomics has changed the face of virus discovery by enabling the accurate
identification of viral genome sequences without requiring isolation of the viruses. As a …

Ribosome-footprint profiling provides genome-wide snapshots of translation, but technical
challenges can confound its analysis. Here, we use improved methods to obtain ribosome …

Despite their name, synonymous mutations have significant consequences for cellular
processes in all taxa. As a result, an understanding of codon bias is central to fields as …

Maximal growth rate is a basic parameter of microbial lifestyle that varies over several orders
of magnitude, with doubling times ranging from a matter of minutes to multiple days. Growth …

A simple, effective measure of synonymous codon usage bias, the Codon Adaptation Index,
is detailed. The index uses a reference set of highly expressed genes from a species to …

Viruses and their host genomes often share similar oligonucleotide frequency (ONF)
patterns, which can be used to predict the host of a given virus by finding the host with the …