On the path to genetic novelties: insights from programmed DNA elimination and RNA splicing

Crystal structure of human U1 snRNP, a small nuclear ribonucleoprotein particle, reveals the mechanism of 5′ splice site recognition

(2015) Yasushi Kondo et al.   eLife

The Architecture of a Scrambled Genome Reveals Massive Levels of Genomic Rearrangement during Development

(2014) Xiao Chen et al.   CELL

Functional Diversification of Dicer-like Proteins and Small RNAs Required for Genome Sculpting

(2014) Pamela Y. Sandoval et al.   DEVELOPMENTAL CELL

Widespread intron retention in mammals functionally tunes transcriptomes

(2014) Ulrich Braunschweig et al.   GENOME RESEARCH

Correcting for Differential Transcript Coverage Reveals a Strong Relationship between Alternative Splicing and Organism Complexity

(2014) Lu Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-defence small RNAs exapted for epigenetic mating-type inheritance

(2014) Deepankar Pratap Singh et al.   NATURE

Alternative splicing at GYNNGY 5′ splice sites: more noise, less regulation

(2014) Meng Wang et al.   NUCLEIC ACIDS RESEARCH

Genome-wide analysis of genetic and epigenetic control of programmed DNA deletion

(2014) Estienne C. Swart et al.   NUCLEIC ACIDS RESEARCH

Transcriptional diversity during lineage commitment of human blood progenitors

(2014) L. Chen et al.   SCIENCE

Local Effect of Enhancer of Zeste-Like Reveals Cooperation of Epigenetic and cis-Acting Determinants for Zygotic Genome Rearrangements

(2014) Maoussi Lhuillier-Akakpo et al.   PLoS Genetics

Ku-Mediated Coupling of DNA Cleavage and Repair during Programmed Genome Rearrangements in the Ciliate Paramecium tetraurelia

(2014) Antoine Marmignon et al.   PLoS Genetics

A simple model to explain evolutionary trends of eukaryotic gene architecture and expression

(2013) Francesco Catania et al.   BIOESSAYS

Direct Competition between hnRNP C and U2AF65 Protects the Transcriptome from the Exonization of Alu Elements

(2013) Kathi Zarnack et al.   CELL

Spliced DNA Sequences in the Paramecium Germline: Their Properties and Evolutionary Potential

(2013) Francesco Catania et al.   Genome Biology and Evolution

A Domesticated PiggyBac Transposase Interacts with Heterochromatin and Catalyzes Reproducible DNA Elimination in Tetrahymena

(2013) Alexander Vogt et al.   PLoS Genetics

Newly evolved introns in human retrogenes provide novel insights into their evolutionary roles

(2012) Li-Fang Kang et al.   BMC EVOLUTIONARY BIOLOGY

Piwi-Interacting RNAs Protect DNA against Loss during Oxytricha Genome Rearrangement

(2012) Wenwen Fang et al.   CELL

RNA-seq analysis of the C. briggsae transcriptome

(2012) B. Uyar et al.   GENOME RESEARCH

From ancestral infectious retroviruses to bona fide cellular genes: Role of the captured syncytins in placentation

(2012) A. Dupressoir et al.   PLACENTA

Extensive genetic variation in somatic human tissues

(2012) M. O'Huallachain et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2012) Olivier Arnaiz et al.   PLoS Genetics

The Genomic Signature of Splicing-Coupled Selection Differs between Long and Short Introns

(2011) A. Farlow et al.   MOLECULAR BIOLOGY AND EVOLUTION

Functional specialization of Piwi proteins in Paramecium tetraurelia from post-transcriptional gene silencing to genome remodelling

(2011) Khaled Bouhouche et al.   NUCLEIC ACIDS RESEARCH

Primate and Rodent Specific Intron Gains and the Origin of Retrogenes with Splice Variants

(2010) Michał W Szcześniak et al.   MOLECULAR BIOLOGY AND EVOLUTION

Characteristics of Transposable Element Exonization within Human and Mouse

(2010) Noa Sela et al.   PLoS One

Epigenomic analysis of Alu repeats in human ependymomas

(2010) H. Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spliceosome Structure and Function

(2010) C. L. Will et al.   Cold Spring Harbor Perspectives in Biology

Noisy Splicing Drives mRNA Isoform Diversity in Human Cells

(2010) Joseph K. Pickrell et al.   PLoS Genetics

Intronization, de-intronization and intron sliding are rare in Cryptococcus

(2009) Scott W Roy   BMC EVOLUTIONARY BIOLOGY

PiggyMac, a domesticated piggyBac transposase involved in programmed genome rearrangements in the ciliate Paramecium tetraurelia

(2009) C. Baudry et al.   GENES & DEVELOPMENT

Transposable elements in disease-associated cryptic exons

(2009) Igor Vorechovsky   HUMAN GENETICS

Endogenous Mechanisms for the Origins of Spliceosomal Introns

(2009) F. Catania et al.   JOURNAL OF HEREDITY

Extensive Structural Renovation of Retrogenes in the Evolution of the Populus Genome

(2009) Z. Zhu et al.   PLANT PHYSIOLOGY

Analysis of sequence variability in the macronuclear DNA of Paramecium tetraurelia: A somatic view of the germline

(2008) L. Duret et al.   GENOME RESEARCH

Beyond DNA: RNA Editing and Steps Toward Alu Exonization in Primates

(2008) Maren Möller-Krull et al.   JOURNAL OF MOLECULAR BIOLOGY

Translational control of intron splicing in eukaryotes

(2008) Olivier Jaillon et al.   NATURE

Silencing-associated and meiosis-specific small RNA pathways in Paramecium tetraurelia

(2008) Gersende Lepère et al.   NUCLEIC ACIDS RESEARCH

Splicing regulation: From a parts list of regulatory elements to an integrated splicing code

(2008) Z. Wang et al.   RNA

Origin of introns by ‘intronization’ of exonic sequences

(2008) Manuel Irimia et al.   TRENDS IN GENETICS

Where Do Introns Come From?

(2008) Francesco Catania et al.   PLOS BIOLOGY