Evolution of the ancestral mammalian karyotype and syntenic regions

Deeply conserved synteny and the evolution of metazoan chromosomes

(2022) Oleg Simakov et al.   Science Advances

Conservation of chromatin conformation in carnivores

(2022) Marco Corbo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

3D chromatin remodelling in the germ line modulates genome evolutionary plasticity

(2022) Lucía Álvarez-González et al.   Nature Communications

Platypus and echidna genomes reveal mammalian biology and evolution

(2021) Yang Zhou et al.   NATURE

Unraveling the features of somatic transposition in the Drosophila intestine

(2021) Katarzyna Siudeja et al.   EMBO JOURNAL

Towards complete and error-free genome assemblies of all vertebrate species

(2021) Arang Rhie et al.   NATURE

Molecules and fossils tell distinct yet complementary stories of mammal diversification

(2021) Nathan S. Upham et al.   CURRENT BIOLOGY

BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes

(2021) Mosè Manni et al.   MOLECULAR BIOLOGY AND EVOLUTION

Microchromosomes are building blocks of bird, reptile, and mammal chromosomes

(2021) Paul D. Waters et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Patterns of somatic structural variation in human cancer genomes

(2020) Yilong Li et al.   NATURE

Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

(2020) Bernardo Rodriguez-Martin et al.   NATURE GENETICS

The role of 3D chromatin domains in gene regulation: a multi-facetted view on genome organization

(2020) Daniel M Ibrahim et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

The UCSC Genome Browser database: 2021 update

(2020) Jairo Navarro Gonzalez et al.   NUCLEIC ACIDS RESEARCH

Vertebrate Chromosome Evolution

(2020) Joana Damas et al.   Annual Review of Animal Biosciences

Chromatin features constrain structural variation across evolutionary timescales

(2019) Geoff Fudenberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks

(2019) Marta Farré et al.   GENOME RESEARCH

ShinyGO: a graphical gene-set enrichment tool for animals and plants

(2019) Steven Xijin Ge et al.   BIOINFORMATICS

Mammalian transposable elements and their impacts on genome evolution

(2018) Roy N. Platt et al.   CHROMOSOME RESEARCH

Epigenetic maintenance of topological domains in the highly rearranged gibbon genome

(2018) Nathan H. Lazar et al.   GENOME RESEARCH

High-resolution comparative analysis of great ape genomes

(2018) Zev N. Kronenberg et al.   SCIENCE

Chromosome Evolution in Marsupials

(2018) Janine Deakin   Genes

Evolutionary stability of topologically associating domains is associated with conserved gene regulation

(2018) Jan Krefting et al.   BMC BIOLOGY

Interchromosomal interactions: A genomic love story of kissing chromosomes

(2018) Philipp G. Maass et al.   JOURNAL OF CELL BIOLOGY

Mechanisms of DNA damage, repair, and mutagenesis

(2017) Nimrat Chatterjee et al.   ENVIRONMENTAL AND MOLECULAR MUTAGENESIS

TimeTree: A Resource for Timelines, Timetrees, and Divergence Times

(2017) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reconstruction and evolutionary history of eutherian chromosomes

(2017) Jaebum Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

Chromosomal Speciation in the Genomics Era: Disentangling Phylogenetic Evolution of Rock-wallabies

(2017) Sally Potter et al.   Frontiers in Genetics

Novel Insights into Chromosome Evolution in Birds, Archosaurs, and Reptiles

(2016) Marta Farré et al.   Genome Biology and Evolution

Upgrading short-read animal genome assemblies to chromosome level using comparative genomics and a universal probe set

(2016) Joana Damas et al.   GENOME RESEARCH

L1Base 2: more retrotransposition-active LINE-1s, more mammalian genomes

(2016) Tobias Penzkofer et al.   NUCLEIC ACIDS RESEARCH

Therian mammals experience an ecomorphological radiation during the Late Cretaceous and selective extinction at the K–Pg boundary

(2016) David M. Grossnickle et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evidence for a Mid-Jurassic Adaptive Radiation in Mammals

(2015) Roger A. Close et al.   CURRENT BIOLOGY

Evolution of vertebrate sex chromosomes and dosage compensation

(2015) Jennifer A. Marshall Graves   NATURE REVIEWS GENETICS

The 3D Organization of Chromatin Explains Evolutionary Fragile Genomic Regions

(2015) Camille Berthelot et al.   Cell Reports

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

Reconstruction of the ancestral marsupial karyotype from comparative gene maps

(2013) Janine E Deakin et al.   BMC EVOLUTIONARY BIOLOGY

Inference of the Protokaryotypes of Amniotes and Tetrapods and the Evolutionary Processes of Microchromosomes from Comparative Gene Mapping

(2013) Yoshinobu Uno et al.   PLoS One

Chromosome painting in three-toed sloths: a cytogenetic signature and ancestral karyotype for Xenarthra

(2012) Nathália F Azevedo et al.   BMC EVOLUTIONARY BIOLOGY

Chromosome Evolution in Bats as Revealed by FISH: The Ongoing Search for the Ancestral Chiropteran Karyotype

(2012) M. Volleth et al.   CYTOGENETIC AND GENOME RESEARCH

A Short Introduction to Cytogenetic Studies in Mammals with Reference to the Present Volume

(2012) A. Graphodatsky et al.   CYTOGENETIC AND GENOME RESEARCH

The Chromosomes of Afrotheria and Their Bearing on Mammalian Genome Evolution

(2012) M. Svartman et al.   CYTOGENETIC AND GENOME RESEARCH

Somatic rearrangements across cancer reveal classes of samples with distinct patterns of DNA breakage and rearrangement-induced hypermutability

(2012) Y. Drier et al.   GENOME RESEARCH

Analyses of pig genomes provide insight into porcine demography and evolution

(2012) Martien A. M. Groenen et al.   NATURE

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

Evolution of Grasses and Grassland Ecosystems

(2011) Caroline A.E. Strömberg   Annual Review of Earth and Planetary Sciences

Chromosome painting in Tragulidae facilitates the reconstruction of Ruminantia ancestral karyotype

(2011) Anastasia I. Kulemzina et al.   CHROMOSOME RESEARCH

Molecular cytogenetic and genomic insights into chromosomal evolution

(2011) A Ruiz-Herrera et al.   HEREDITY

Assessing the Role of Tandem Repeats in Shaping the Genomic Architecture of Great Apes

(2011) Marta Farré et al.   PLoS One

HERV-mediated genomic rearrangement of EYA1 in an individual with branchio-oto-renal syndrome

(2010) Amarilis Sanchez-Valle et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Invited review: Ruminant ecology and evolution: Perspectives useful to ruminant livestock research and production

(2010) T.J. Hackmann et al.   JOURNAL OF DAIRY SCIENCE

Chromosomal speciation revisited: rearranging theory with pieces of evidence

(2010) Rui Faria et al.   TRENDS IN ECOLOGY & EVOLUTION

Gene synteny comparisons between different vertebrates provide new insights into breakage and fusion events during mammalian karyotype evolution

(2009) Claus Kemkemer et al.   BMC EVOLUTIONARY BIOLOGY

Analysis of fine-scale mammalian evolutionary breakpoints provides new insight into their relation to genome organisation

(2009) Claire Lemaitre et al.   BMC GENOMICS

Breakpoint regions and homologous synteny blocks in chromosomes have different evolutionary histories

(2009) D. M. Larkin et al.   GENOME RESEARCH

Comparative Genomics and Molecular Dynamics of DNA Repeats in Eukaryotes

(2008) G.-F. Richard et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Speciation by monobrachial centric fusions: A test of the model using nuclear DNA sequences from the bat genus Rhogeessa

(2008) Amy B. Baird et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Starvation Induces Genomic Rearrangements and Starvation-Resilient Phenotypes in Yeast

(2007) S. Coyle et al.   MOLECULAR BIOLOGY AND EVOLUTION