Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data

I Birol, A Raymond, SD Jackman, S Pleasance… - …, 2013 - academic.oup.com
White spruce (Picea glauca) is a dominant conifer of the boreal forests of North America, and
providing genomics resources for this commercially valuable tree will help improve forest …

Diversity of mitochondrial genome organization

AA Kolesnikov, ES Gerasimov - Biochemistry (Moscow), 2012 - Springer
In this review, we discuss types of mitochondrial genome structural organization
(architecture), which includes the following characteristic features: size and the shape of …

[HTML][HTML] 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 …

[HTML][HTML] 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 …

[HTML][HTML] Loss, replacement and gain of proteins at the origin of the mitochondria

MA Huynen, I Duarte, R Szklarczyk - Biochimica et Biophysica Acta (BBA) …, 2013 - Elsevier
We review what has been inferred about the changes at the level of the proteome that
accompanied the evolution of the mitochondrion from an alphaproteobacterium. We regard …

[HTML][HTML] Piwi-interacting RNAs protect DNA against loss during Oxytricha genome rearrangement

W Fang, X Wang, JR Bracht, M Nowacki… - Cell, 2012 - cell.com
Genome duality in ciliated protozoa offers a unique system to showcase their epigenome as
a model of inheritance. In Oxytricha, the somatic genome is responsible for vegetative …

[HTML][HTML] Morphology, ultrastructure, genomics, and phylogeny of Euplotes vanleeuwenhoeki sp. nov. and its ultra-reduced endosymbiont “Candidatus Pinguicoccus …

V Serra, L Gammuto, V Nitla, M Castelli, O Lanzoni… - Scientific reports, 2020 - nature.com
Taxonomy is the science of defining and naming groups of biological organisms based on
shared characteristics and, more recently, on evolutionary relationships. With the birth of …

[HTML][HTML] Mitochondrial genomic landscape: a portrait of the mitochondrial genome 40 years after the first complete sequence

A Formaggioni, A Luchetti, F Plazzi - Life, 2021 - mdpi.com
Notwithstanding the initial claims of general conservation, mitochondrial genomes are a
largely heterogeneous set of organellar chromosomes which displays a bewildering …

Further analyses on the phylogeny of the subclass Scuticociliatia (Protozoa, Ciliophora) based on both nuclear and mitochondrial data

T Zhang, X Fan, F Gao, SA Al-Farraj… - Molecular Phylogenetics …, 2019 - Elsevier
So far, the phylogenetic studies on ciliated protists have mainly based on single locus, the
nuclear ribosomal DNA (rDNA). In order to avoid the limitations of single gene/genome trees …

The Draft Assembly of the Radically Organized Stylonychia lemnae Macronuclear Genome

SH Aeschlimann, F Jönsson, J Postberg… - Genome biology and …, 2014 - academic.oup.com
Stylonychia lemnae is a classical model single-celled eukaryote, and a quintessential ciliate
typified by dimorphic nuclei: A small, germline micronucleus and a massive, vegetative …