A bird-like genome from a frog: Mechanisms of genome size reduction in the ornate burrowing frog, Platyplectrum ornatum

RepeatModeler2 for automated genomic discovery of transposable element families

(2020) Jullien M. Flynn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Miniaturization, genome size, and biological size in a diverse clade of salamanders

(2020) Louis Paul Decena-Segarra et al.   AMERICAN NATURALIST

The whale shark genome reveals how genomic and physiological properties scale with body size

(2020) Jessica A. Weber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome size evolution: towards new model systems for old questions

(2020) Julie Blommaert   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome streamlining in a minute herbivore that manipulates its host plant

(2020) Robert Greenhalgh et al.   eLife

Genome of Spea multiplicata, a Rapidly Developing, Phenotypically Plastic, and Desert-Adapted Spadefoot Toad

(2019) Fabian Seidl et al.   G3-Genes Genomes Genetics

Divergent Evolutionary Trajectories of Two Young, Homomorphic, and Closely Related Sex Chromosome Systems

(2018) Benjamin L S Furman et al.   Genome Biology and Evolution

The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes

(2018) Martin Malmstrøm et al.   Genome Biology and Evolution

Squamate reptiles challenge paradigms of genomic repeat element evolution set by birds and mammals

(2018) Giulia I. M. Pasquesi et al.   Nature Communications

Genome Size Diversity and Its Impact on the Evolution of Land Plants

(2018) et al.   Genes

Tissue Specificity and Dynamics of Sex-Biased Gene Expression in a Common Frog Population with Differentiated, Yet Homomorphic, Sex Chromosomes

(2018) Wen-Juan Ma et al.   Genes

Anti-Müllerian Hormone and Testicular Function in Prepubertal Boys With Cryptorchidism

(2018) Romina P. Grinspon et al.   Frontiers in Endocrinology

piRNAs and PIWI proteins: regulators of gene expression in development and stem cells

(2018) Patricia Rojas-Ríos et al.   DEVELOPMENT

The axolotl genome and the evolution of key tissue formation regulators

(2018) Sergej Nowoshilow et al.   NATURE

Macroevolutionary shift in the size of amphibian genomes and the role of life history and climate

(2018) H. Christoph Liedtke et al.   Nature Ecology & Evolution

A rapid rate of sex-chromosome turnover and non-random transitions in true frogs

(2018) Daniel L. Jeffries et al.   Nature Communications

piRNAs and Evolutionary Trajectories in Genome Size and Content

(2017) Rachel Lockridge Mueller   JOURNAL OF MOLECULAR EVOLUTION

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics

(2017) Robert M Waterhouse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Differential analysis of RNA-seq incorporating quantification uncertainty

(2017) Harold Pimentel et al.   NATURE METHODS

Dynamics of genome size evolution in birds and mammals

(2017) Aurélie Kapusta et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sex Determination and Sex Chromosomes in Amphibia

(2017) Ikuo Miura   Sexual Development

Analytical Biases Associated with GC-Content in Molecular Evolution

(2017) Jonathan Romiguier et al.   Frontiers in Genetics

The transcriptional architecture of phenotypic dimorphism

(2017) Judith E. Mank   Nature Ecology & Evolution

Phylotranscriptomic consolidation of the jawed vertebrate timetree

(2017) Iker Irisarri et al.   Nature Ecology & Evolution

Sex-Biased Gene Expression

(2016) Sonja Grath et al.   Annual Review of Genetics

Genomic Landscape of Long Terminal Repeat Retrotransposons (LTR-RTs) and Solo LTRs as Shaped by Ectopic Recombination in Chicken and Zebra Finch

(2016) Yanzhu Ji et al.   JOURNAL OF MOLECULAR EVOLUTION

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Regulatory activities of transposable elements: from conflicts to benefits

(2016) Edward B. Chuong et al.   NATURE REVIEWS GENETICS

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Transposons, Genome Size, and Evolutionary Insights in Animals

(2015) Adriana Canapa et al.   CYTOGENETIC AND GENOME RESEARCH

De Novo Assembly and Annotation of the Asian Tiger Mosquito (Aedes albopictus) Repeatome with dnaPipeTE from Raw Genomic Reads and Comparative Analysis with the Yellow Fever Mosquito (Aedes aegypti)

(2015) Clément Goubert et al.   Genome Biology and Evolution

Low Levels of LTR Retrotransposon Deletion by Ectopic Recombination in the Gigantic Genomes of Salamanders

(2015) Matthew Blake Frahry et al.   JOURNAL OF MOLECULAR EVOLUTION

Less Is More: An Adaptive Branch-Site Random Effects Model for Efficient Detection of Episodic Diversifying Selection

(2015) Martin D. Smith et al.   MOLECULAR BIOLOGY AND EVOLUTION

Database resources of the National Center for Biotechnology Information

(2015)   NUCLEIC ACIDS RESEARCH

Whole-genome sequence of the Tibetan frogNanorana parkeriand the comparative evolution of tetrapod genomes

(2015) Yan-Bo Sun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Repbase Update, a database of repetitive elements in eukaryotic genomes

(2015) Weidong Bao et al.   Mobile DNA

Variation in piRNA and Transposable Element Content in Strains of Drosophila melanogaster

(2014) Jimin Song et al.   Genome Biology and Evolution

Hellbender Genome Sequences Shed Light on Genomic Expansion at the Base of Crown Salamanders

(2014) C. Sun et al.   Genome Biology and Evolution

Metabolic 'engines' of flight drive genome size reduction in birds

(2014) N. A. Wright et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The capacity of target silencing byDrosophilaPIWI and piRNAs

(2014) Christina Post et al.   RNA

Compact genome of the Antarctic midge is likely an adaptation to an extreme environment

(2014) Joanna L. Kelley et al.   Nature Communications

Geneious! Simplified Genome Skimming Methods for Phylogenetic Systematic Studies: A Case Study inOreocarya(Boraginaceae)

(2014) Lee A. Ripma et al.   Applications in Plant Sciences

Temperature and UV-B-insensitive performance in tadpoles of the ornate burrowing frog: an ephemeral pond specialist

(2013) P. Kern et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Architecture and evolution of a minute plant genome

(2013) Enrique Ibarra-Laclette et al.   NATURE

The Roles of Fibroblast Growth Factors in the Testicular Development and Tumor

(2013) Xin Jiang et al.   Journal of Diabetes Research

The Evolution of Intron Size in Amniotes: A Role for Powered Flight?

(2012) Qu Zhang et al.   Genome Biology and Evolution

Slow DNA Loss in the Gigantic Genomes of Salamanders

(2012) Cheng Sun et al.   Genome Biology and Evolution

Hi–C: A comprehensive technique to capture the conformation of genomes

(2012) Jon-Matthew Belton et al.   METHODS

Recombination Drives Vertebrate Genome Contraction

(2012) Kiwoong Nam et al.   PLoS Genetics

Transitions Between Sex-Determining Systems in Reptiles and Amphibians

(2011) Stephen D. Sarre et al.   Annual Review of Genomics and Human Genetics

A Bayesian model for gene family evolution

(2011) Liang Liu et al.   BMC BIOINFORMATICS

LTR Retrotransposons Contribute to Genomic Gigantism in Plethodontid Salamanders

(2011) Cheng Sun et al.   Genome Biology and Evolution

Decline of a biome: evolution, contraction, fragmentation, extinction and invasion of the Australian mesic zone biota

(2011) Margaret Byrne et al.   JOURNAL OF BIOGEOGRAPHY

The genome of the green anole lizard and a comparative analysis with birds and mammals

(2011) Jessica Alföldi et al.   NATURE

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Genome Size and Species Diversification

(2010) Ken Kraaijeveld   Evolutionary Biology

A Brief History of the Status of Transposable Elements: From Junk DNA to Major Players in Evolution

(2010) C. Biemont   GENETICS

Relationship between genome size and organismal complexity in the lineage leading from prokaryotes to mammals

(2010) A. V. Markov et al.   PALEONTOLOGICAL JOURNAL

High-quality draft assemblies of mammalian genomes from massively parallel sequence data

(2010) S. Gnerre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Genome of the Western Clawed Frog Xenopus tropicalis

(2010) U. Hellsten et al.   SCIENCE

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Deletional Bias across the Three Domains of Life

(2009) Chih-Horng Kuo et al.   Genome Biology and Evolution

Ploidy and the Causes of Genomic Evolution

(2009) A. C. Gerstein et al.   JOURNAL OF HEREDITY

The Genetic Signatures of Noncoding RNAs

(2009) John S. Mattick   PLoS Genetics

Genome size and wing parameters in passerine birds

(2008) C. B Andrews et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome size, cell size, and the evolution of enucleated erythrocytes in attenuate salamanders

(2008) Rachel Lockridge Mueller et al.   ZOOLOGY