Virocell metabolism: metabolic innovations during host–virus interactions in the ocean

S Rosenwasser, C Ziv, SG Van Creveld, A Vardi - Trends in microbiology, 2016 - cell.com
Marine viruses are considered to be major ecological, evolutionary, and biogeochemical
drivers of the marine environment, responsible for nutrient recycling and determining …

Nucleotide composition and codon usage across viruses and their respective hosts

D Simón, J Cristina, H Musto - Frontiers in Microbiology, 2021 - frontiersin.org
The genetic material of the three domains of life (Bacteria, Archaea, and Eukaryota) is
always double-stranded DNA, and their GC content (molar content of guanine plus cytosine) …

Testing hypotheses for the presence of tRNA genes in mycobacteriophage genomes

VA Delesalle, NT Tanke, AC Vill, GP Krukonis - Bacteriophage, 2016 - Taylor & Francis
The presence of tRNA genes in bacteriophages has been explained on the basis of codon
usage (tRNA genes are retained in the phage genome if they correspond to codons more …

An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies

R Blanc-Mathieu, B Verhelst, E Derelle, S Rombauts… - BMC genomics, 2014 - Springer
Background Cost effective next generation sequencing technologies now enable the
production of genomic datasets for many novel planktonic eukaryotes, representing an …

Phylogenetic analysis of the core histone doublet and DNA topo II genes of Marseilleviridae: evidence of proto-eukaryotic provenance

AJ Erives - Epigenetics & chromatin, 2017 - Springer
Background While the genomes of eukaryotes and Archaea both encode the histone-fold
domain, only eukaryotes encode the core histone paralogs H2A, H2B, H3, and H4. With …

Cryptic tRNAs in chaetognath mitochondrial genomes

RM Barthélémy, H Seligmann - Computational Biology and Chemistry, 2016 - Elsevier
The chaetognaths constitute a small and enigmatic phylum of little marine invertebrates.
Both nuclear and mitochondrial genomes have numerous originalities, some phylum …

Genome-wide patterns of selection–drift variation strongly associate with organismal traits across the green plant lineage

K Uthanumallian, A Del Cortona, SM Coelho… - Genome …, 2024 - genome.cshlp.org
There are many gaps in our knowledge of how life cycle variation and organismal body
architecture associate with molecular evolution. Using the diverse range of green algal body …

[HTML][HTML] Viral adaption of staphylococcal phage: a genome-based analysis of the selective preference based on codon usage Bias

Z Ge, X Li, X Cao, R Wang, W Hu, L Gen, S Han… - Genomics, 2020 - Elsevier
Given the high therapeutic value of the staphylococcal phage, the genome co-evolution of
the phage and the host has gained great attention. Though the genome-wide AT richness in …

Simplified Transformation of Ostreococcus tauri Using Polyethylene Glycol

F Sanchez, S Geffroy, M Norest, S Yau, H Moreau… - Genes, 2019 - mdpi.com
Ostreococcus tauri is an easily cultured representative of unicellular algae (class
Mamiellophyceae) that abound in oceans worldwide. Eight complete 13–22 Mb genomes of …

Genome-wide comparative analysis of the codon usage patterns in plants

N Li, Y Li, C Zheng, J Huang, S Zhang - Genes & Genomics, 2016 - Springer
Codon usage analysis has been a classical area of study for decades and is important for
evolution, mRNA translation, and new gene discovery. Recently, genome sequencing has …