Results 61 to 70 of about 9,001 (100)

Influence of the combination of last sense codon and stop codon on expression efficiency of green fluorescent protein gene in Escherichia coli when the expression vector pKK223-3

MATEC Web of Conferences, 2018
In this paper, the influence of the combination of last sense codon and stop codon on expression efficiency was studied. By our study, for the last sense codon CCG, the RFI of GFP(CCG) was 2.1 fold when the stop codon was UAA, but in comparison, the RFI ...
Zhang Xing, Fei Aiping, Wang Yong, Fang Zhigang, Teng Yingxue, Hao Xiaoliang   +5 more
doaj   +1 more source

CBDB: The codon bias database

BMC Bioinformatics, 2012
Background In many genomes, a clear preference in the usage of particular codons exists. The mechanisms that induce codon biases remain an open question; studies have attributed codon usage to translational selection, mutational bias and drift ...
Hilterbrand Adam, Saelens Joseph, Putonti Catherine   +2 more
doaj   +1 more source

Enhanced effective codon numbers to understand codon usage bias [PDF]

Biosystems, 2019
AbstractCodon usage bias is a well recognized phenomenon but the relative influence of its major causes: G+C content, mutational biases, and selection, are often difficult to disentangle. This paper presents methods to calculate modified effective codon numbers that allow the investigation of the sources of codon bias and how genes or organisms have ...
openaire   +2 more sources

Clustering of classical swine fever virus isolates by codon pair bias

BMC Research Notes, 2011
Background The genetic code consists of non-random usage of synonymous codons for the same amino acids, termed codon bias or codon usage. Codon juxtaposition is also non-random, referred to as codon context bias or codon pair bias.
Leifer Immanuel, Hoeper Dirk, Blome Sandra, Beer Martin, Ruggli Nicolas   +4 more
doaj   +1 more source

The complete chloroplast genome of Gerbera piloselloides (L.) Cass., 1820 (Carduoideae, Asteraceae) and its phylogenetic analysis

Open Life Sciences
Gerbera piloselloides (L.) Cass., 1820 of the genus Gerbera is of importance in Chinese ethnic medicine. In this research, the whole genome DNA of G. piloselloides was extracted and sequenced using the Illumina NovaSeq platform, its chloroplast genome ...
Sheng Wentao
doaj   +1 more source

Evolution of Synonymous Codon Usage Bias in West African and Central African Strains of Monkeypox Virus

Evolutionary Bioinformatics, 2018
The evolution of bias in synonymous codon usage in chosen monkeypox viral genomes and the factors influencing its diversification have not been reported so far.
Sudeesh Karumathil, Nimal T Raveendran, Doss Ganesh, Sampath Kumar NS, Rahul R Nair, Vijaya R Dirisala   +5 more
doaj   +1 more source

Mechanism of Virus Attenuation by Codon Pair Deoptimization

Cell Reports, 2020
Summary: Codon pair deoptimization is an efficient virus attenuation strategy, but the mechanism that leads to attenuation is unknown. The strategy involves synthetic recoding of viral genomes that alters the positions of synonymous codons, thereby ...
Nicole Groenke, Jakob Trimpert, Sophie Merz, Andelé M. Conradie, Emanuel Wyler, Hongwei Zhang, Orsalia-Georgia Hazapis, Sebastian Rausch, Markus Landthaler, Nikolaus Osterrieder, Dusan Kunec   +10 more
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Relative Codon Adaptation Index, a Sensitive Measure of Codon Usage Bias

Evolutionary Bioinformatics, 2010
We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as a way to discriminate better between highly biased and unbiased regions, compared with the widely used Codon Adaptation Index (CAI). CAI
Soohyun Lee, Seyeon Weon, Sooncheol Lee, Changwon Kang   +3 more
doaj  

Nonsense Codons

Cold Spring Harbor Symposia on Quantitative Biology, 1966
A O, Stretton, S, Kaplan, S, Brenner
openaire   +2 more sources

Dataset of 313 metagenome-assemble genomes from streamer hot spring water

Data in Brief
This data report presents prokaryotic metagenome-assembled genomes (MAGs) from a hot spring stream with temperatures between 64 and 100°C. The stream water was filtered and the extracted total DNA was sequenced using the Illumina HiSeq 2500 platform ...
Jia Hao Tan, Kok Jun Liew, Kian Mau Goh
doaj