Biased gene conversion and the evolution of mammalian genomic landscapes

L Duret, N Galtier - Annual review of genomics and human …, 2009 - annualreviews.org
Recombination is typically thought of as a symmetrical process resulting in large-scale
reciprocal genetic exchanges between homologous chromosomes. Recombination events …

Programmed chromosome fragmentation in ciliated protozoa: multiple means to chromosome ends

M Bétermier, LA Klobutcher, E Orias - Microbiology and Molecular …, 2023 - Am Soc Microbiol
Ciliated protozoa undergo large-scale developmental rearrangement of their somatic
genomes when forming a new transcriptionally active macronucleus during conjugation …

The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with 16,000 Tiny Chromosomes

EC Swart, JR Bracht, V Magrini, P Minx, X Chen… - PLoS …, 2013 - journals.plos.org
The macronuclear genome of the ciliate Oxytricha trifallax displays an extreme and unique
eukaryotic genome architecture with extensive genomic variation. During sexual genome …

The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development

X Chen, JR Bracht, AD Goldman, E Dolzhenko… - Cell, 2014 - cell.com
Programmed DNA rearrangements in the single-celled eukaryote Oxytricha trifallax
completely rewire its germline into a somatic nucleus during development. This elaborate …

Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome

EP Hamilton, A Kapusta, PE Huvos, SL Bidwell, N Zafar… - elife, 2016 - elifesciences.org
The germline genome of the binucleated ciliate Tetrahymena thermophila undergoes
programmed chromosome breakage and massive DNA elimination to generate the somatic …

Evidence for widespread GC-biased gene conversion in eukaryotes

E Pessia, A Popa, S Mousset, C Rezvoy… - Genome biology and …, 2012 - academic.oup.com
GC-biased gene conversion (gBGC) is a process that tends to increase the GC content of
recombining DNA over evolutionary time and is thought to explain the evolution of GC …

Programmed loss of millions of base pairs from a vertebrate genome

JJ Smith, F Antonacci, EE Eichler… - Proceedings of the …, 2009 - National Acad Sciences
In general, the strict preservation of broad-scale structure is thought to be critical for
maintaining the precisely tuned functionality of vertebrate genomes, although nearly all …

The fitness cost of mis-splicing is the main determinant of alternative splicing patterns

B Saudemont, A Popa, JL Parmley, V Rocher… - Genome biology, 2017 - Springer
Background Most eukaryotic genes are subject to alternative splicing (AS), which may
contribute to the production of protein variants or to the regulation of gene expression via …

Differential retention and divergent resolution of duplicate genes following whole-genome duplication

CL McGrath, JF Gout, P Johri, TG Doak… - Genome …, 2014 - genome.cshlp.org
The Paramecium aurelia complex is a group of 15 species that share at least three past
whole-genome duplications (WGDs). The macronuclear genome sequences of P. biaurelia …

The Paramecium Germline Genome Provides a Niche for Intragenic Parasitic DNA: Evolutionary Dynamics of Internal Eliminated Sequences

O Arnaiz, N Mathy, C Baudry, S Malinsky, JM Aury… - 2012 - journals.plos.org
Insertions of parasitic DNA within coding sequences are usually deleterious and are
generally counter-selected during evolution. Thanks to nuclear dimorphism, ciliates provide …