Causes of mutation rate variability in plant genomes

D Quiroz, M Lensink, DJ Kliebenstein… - Annual Review of …, 2023 - annualreviews.org
Mutation is the source of all heritable diversity, the essential material of evolution and
breeding. While mutation rates are often regarded as constant, variability in mutation rates …

The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory

RJ Craig, SD Gallaher, S Shu, PA Salomé… - The Plant …, 2023 - academic.oup.com
Five versions of the Chlamydomonas reinhardtii reference genome have been produced
over the last two decades. Here we present version 6, bringing significant advances in …

Replitrons: A major group of eukaryotic transposons encoding HUH endonuclease

RJ Craig - Proceedings of the National Academy of …, 2023 - National Acad Sciences
HUH endonucleases of the Rep (replication protein) class mediate the replication of highly
diverse plasmids and viral genomes across all domains of life. HUH transposases have …

Telomerase-independent survival leads to a mosaic of complex subtelomere rearrangements in Chlamydomonas reinhardtii

F Chaux, N Agier, C Garrido, G Fischer… - Genome …, 2023 - genome.cshlp.org
Telomeres and subtelomeres, the genomic regions located at chromosome extremities, are
essential for genome stability in eukaryotes. In the absence of the canonical maintenance …

Blessing or curse: how the epigenetic resolution of host-transposable element conflicts shapes their evolutionary dynamics

Y Huang, YCG Lee - Proceedings of the Royal Society B, 2024 - royalsocietypublishing.org
Transposable elements (TEs) are selfish genetic elements whose antagonistic interactions
with hosts represent a common genetic conflict in eukaryotes. To resolve this conflict, hosts …

Extraction and selection of high-molecular-weight DNA for long-read sequencing from Chlamydomonas reinhardtii

F Chaux, N Agier, S Eberhard, Z Xu - Plos one, 2024 - journals.plos.org
Recent advances in long-read sequencing technologies have enabled the complete
assembly of eukaryotic genomes from telomere to telomere by allowing repeated regions to …

The Effects of De Novo Mutation on Gene Expression and the Consequences for Fitness in Chlamydomonas reinhardtii

EJ Balogun, RW Ness - Molecular Biology and Evolution, 2024 - academic.oup.com
Mutation is the ultimate source of genetic variation, the bedrock of evolution. Yet, predicting
the consequences of new mutations remains a challenge in biology. Gene expression …

What makes a good reference? First steps toward a Chlamydomonas pangenome

C Chan, PA Salomé - 2023 - academic.oup.com
Sequencing an “entire” genome used to be an accomplishment. However, improvements in
sequencing technologies have resulted in an avalanche of genomes “in progress”; good …

The Chlamydomonas nuclear genome

RJ Craig, O Vallon - The Chlamydomonas Sourcebook, 2023 - Elsevier
Chlamydomonas has become a premier model organism thanks to the ease with which
gene function can be analyzed experimentally. With the advent of genome and …

[HTML][HTML] Latent infection of an active giant endogenous virus in a unicellular green alga

MP Erazo-Garcia, U Sheyn, ZK Barth, RJ Craig… - …, 2024 - pmc.ncbi.nlm.nih.gov
Latency is a common strategy in a wide range of viral lineages, but its prevalence in giant
viruses remains unknown. Here we describe the activity and viral production from a 617 kbp …