New views on strand asymmetry in insect mitochondrial genomes

SJ Wei, M Shi, XX Chen, MJ Sharkey… - PLoS …, 2010 - journals.plos.org
Strand asymmetry in nucleotide composition is a remarkable feature of animal mitochondrial
genomes. Understanding the mutation processes that shape strand asymmetry is essential …

Identification of replication origins in prokaryotic genomes

NV Sernova, MS Gelfand - Briefings in Bioinformatics, 2008 - academic.oup.com
The availability of hundreds of complete bacterial genomes has created new challenges and
simultaneously opportunities for bioinformatics. In the area of statistical analysis of genomic …

From GC skews to wavelets: a gentle guide to the analysis of compositional asymmetries in genomic data

M Touchon, EPC Rocha - Biochimie, 2008 - Elsevier
Compositional asymmetries are pervasive in DNA sequences. They are the result of the
asymmetric interactions between DNA and cellular mechanisms such as replication and …

A new method for assessing the effect of replication on DNA base composition asymmetry

A Necşulea, JR Lobry - Molecular biology and evolution, 2007 - academic.oup.com
DNA base composition asymmetry is at the basis of numerous in silico methods for the
detection of the origin and terminus of replication in prokaryotes. However, most of these …

Comparative mitogenome analyses uncover mitogenome features and phylogenetic implications of the parrotfishes (Perciformes: Scaridae)

J Gao, C Li, D Yu, T Wang, L Lin, Y **ao, P Wu, Y Liu - Biology, 2023 - mdpi.com
Simple Summary Parrotfishes are among the most colorful and diverse inhabitants of the
coral reefs and sea grass beds and are ecologically important in these habitats. Here, we …

Deviations from Chargaff's second parity rule in organellar DNA: Insights into the evolution of organellar genomes

C Nikolaou, Y Almirantis - Gene, 2006 - Elsevier
Chargaff's second parity rule (PR2) states that complementary nucleotides are met with
almost equal frequencies in single stranded DNA. This is indeed the case for all bacterial …

Revisiting the relationships between genomic G+ C content, RNA secondary structures, and optimal growth temperature

MM Meyer - Journal of molecular evolution, 2021 - Springer
Over twenty years ago Galtier and Lobry published a manuscript entitled “Relationships
between Genomic G+ C Content, RNA Secondary Structure, and Optimal Growth …

Genomic and proteomic analysis of phiEco32, a novel Escherichia coli bacteriophage

D Savalia, LF Westblade, M Goel, L Florens… - Journal of molecular …, 2008 - Elsevier
A novel bacteriophage infecting Escherichia coli was isolated during a large-scale screen
for bacteriophages that may be used for therapy of mastitis in cattle. The 77,554-bp genome …

Coding constraints modulate chemically spontaneous mutational replication gradients in mitochondrial genomes

H Seligmann - Current Genomics, 2012 - ingentaconnect.com
Distances from heavy and light strand replication origins determine duration mitochondrial
DNA remains singlestranded during replication. Hydrolytic deaminations from A-> G and C-> …

Unusual AT-skew of Sinorhodeus microlepis mitogenome provides new insights into mitogenome features and phylogenetic implications of bitterling fishes

P Yu, L Zhou, XY Zhou, WT Yang, J Zhang… - International Journal of …, 2019 - Elsevier
Sinorhodeus microlepis (S. microlepis) is recently described as a new species and
represents a new genus Sinorhodeu of the subfamily Acheilognathinae. In this study, we first …