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

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

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

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

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

RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond

(2013) Stephane E. Castel et al.   NATURE REVIEWS GENETICS

PIWI-interacting RNAs: from generation to transgenerational epigenetics

(2013) Maartje J. Luteijn et al.   NATURE REVIEWS GENETICS

Epigenetics of Ciliates

(2013) D. L. Chalker et al.   Cold Spring Harbor Perspectives in Biology

Selecting One of Several Mating Types through Gene Segment Joining and Deletion in Tetrahymena thermophila

(2013) Marcella D. Cervantes et al.   PLOS BIOLOGY

RNA-guided DNA rearrangements in ciliates: Is the best genome defence a good offence?

(2012) Robert S. Coyne et al.   BIOLOGY OF THE CELL

Biased transcription and selective degradation of small RNAs shape the pattern of DNA elimination in Tetrahymena

(2012) U. E. Schoeberl et al.   GENES & DEVELOPMENT

Chromatin replication and epigenome maintenance

(2012) Constance Alabert et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

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

(2012) Olivier Arnaiz et al.   PLoS Genetics

DNA Elimination in Ciliates: Transposon Domestication and Genome Surveillance

(2011) Douglas L. Chalker et al.   Annual Review of Genetics

Adaptation to P Element Transposon Invasion in Drosophila melanogaster

(2011) Jaspreet S. Khurana et al.   CELL

On the nature of species: insights from Paramecium and other ciliates

(2011) Meaghan S. Hall et al.   GENETICA

Keeping the Soma Free of Transposons: Programmed DNA Elimination in Ciliates

(2011) Ursula E. Schoeberl et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PIWI-interacting small RNAs: the vanguard of genome defence

(2011) Mikiko C. Siomi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

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

(2011) Khaled Bouhouche et al.   NUCLEIC ACIDS RESEARCH

Highly Precise and Developmentally Programmed Genome Assembly in Paramecium Requires Ligase IV–Dependent End Joining

(2011) Aurélie Kapusta et al.   PLoS Genetics

Gene expression in a paleopolyploid: a transcriptome resource for the ciliate Paramecium tetraurelia

(2010) Olivier Arnaiz et al.   BMC GENOMICS

Distinct RNA-dependent RNA polymerases are required for RNAi triggered by double-stranded RNA versus truncated transgenes in Paramecium tetraurelia

(2010) Simone Marker et al.   NUCLEIC ACIDS RESEARCH

A Small-RNA Perspective on Gametogenesis, Fertilization, and Early Zygotic Development

(2010) Déborah Bourc’his et al.   SCIENCE

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Rapid diversification of mating systems in ciliates

(2009) SUJAL S. PHADKE et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Small RNAs as Guardians of the Genome

(2009) Colin D. Malone et al.   CELL

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

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

A transposon-induced epigenetic change leads to sex determination in melon

(2009) Antoine Martin et al.   NATURE

Developmental genome rearrangements in ciliates: a natural genomic subtraction mediated by non-coding transcripts

(2009) Sandra Duharcourt et al.   TRENDS IN GENETICS

Maternal noncoding transcripts antagonize the targeting of DNA elimination by scanRNAs in Paramecium tetraurelia

(2008) G. Lepere et al.   GENES & DEVELOPMENT

Study of an RNA helicase implicates small RNA-noncoding RNA interactions in programmed DNA elimination in Tetrahymena

(2008) L. Aronica et al.   GENES & DEVELOPMENT

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

(2008) L. Duret et al.   GENOME RESEARCH

Genetic Diversity in the Paramecium aurelia Species Complex

(2008) F. Catania et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improved northern blot method for enhanced detection of small RNA

(2008) Gurman S Pall et al.   Nature Protocols

Phylogeny.fr: robust phylogenetic analysis for the non-specialist

(2008) A. Dereeper et al.   NUCLEIC ACIDS RESEARCH

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

(2008) Gersende Lepère et al.   NUCLEIC ACIDS RESEARCH