Errors and alternatives in reading the universal genetic code

J Parker - Microbiological reviews, 1989 - journals.asm.org
The fidelity of biological information flow is critical. Deoxyribonucleic acid (DNA) replication,
with its attendant proofreading and repair processes, has an error level in the range of 10-8 …

Encoded errors: mutations and rearrangements mediated by misalignment at repetitive DNA sequences

ST Lovett - Molecular microbiology, 2004 - Wiley Online Library
Mutations and rearrangements that occur by misalignment during DNA replication are
frequent sources of genetic variation in bacteria. Dislocations between a replicating strand …

An evolutionary perspective on synonymous codon usage in unicellular organisms

PM Sharp, WH Li - Journal of molecular evolution, 1986 - Springer
Observed patterns of synonymous codon usage are explained in terms of the joint effects of
mutation, selection, and random drift. Examination of the codon usage in 165 Escherichia …

A constant rate of spontaneous mutation in DNA-based microbes.

JW Drake - Proceedings of the National Academy of Sciences, 1991 - pnas.org
In terms of evolution and fitness, the most significant spontaneous mutation rate is likely to
be that for the entire genome (or its nonfrivolous fraction). Information is now available to …

High-fidelity amplification using a thermostable DNA polymerase isolated from Pyrococcus furiosus

KS Lundberg, DD Shoemaker, MWW Adams, JM Short… - Gene, 1991 - Elsevier
A thermostable DNA polymerase which possesses an associated 3'-to-5'exonuclease
(proofreading) activity has been isolated from the hyperthermophilic archaebacterium …

An evolutionary model for maximum likelihood alignment of DNA sequences

JL Thorne, H Kishino, J Felsenstein - Journal of Molecular Evolution, 1991 - Springer
Most algorithms for the alignment of biological sequences are not derived from an
evolutionary model. Consequently, these alignment algorithms lack a strong statistical basis …

[HTML][HTML] Cloning and expression of cDNA for a human enzyme that hydrolyzes 8-oxo-dGTP, a mutagenic substrate for DNA synthesis.

K Sakumi, M Furuichi, T Tsuzuki, T Kakuma… - Journal of Biological …, 1993 - Elsevier
8-Oxoguanine (8-oxo-7, 8-dihydroguanine) is produced in DNA, as well as in nucleotide
pools of cells, by active oxygen species normally formed during cellular metabolic …

Oxidized, deaminated cytosines are a source of C → T transitions in vivo

DA Kreutzer, JM Essigmann - Proceedings of the National Academy of …, 1998 - pnas.org
The most common base substitution arising from oxidative damage of DNA is a GC→ AT
transition. In an effort to determine the oxidized lesion (s) that gives rise to this mutation, the …

[HTML][HTML] Base selection, proofreading, and mismatch repair during DNA replication in Escherichia coli.

RM Schaaper - Journal of Biological Chemistry, 1993 - Elsevier
The accuracy by which organisms duplicate their DNA is of considerable interest. At least
three mechanisms operate, serially, to secure high fidelity: base selection, exonucleolytic …

The nature of mutations induced by replication–transcription collisions

TS Sankar, BD Wastuwidyaningtyas, Y Dong, SA Lewis… - Nature, 2016 - nature.com
The DNA replication and transcription machineries share a common DNA template and thus
can collide with each other co-directionally or head-on,. Replication–transcription collisions …