The completed macronuclear genome of a model ciliate Tetrahymena thermophila and its application in genome scrambling and copy number analyses

Single-Cell Transcriptomics Reveal a Correlation between Genome Architecture and Gene Family Evolution in Ciliates

(2020) Ying Yan et al.   mBio

Genetic basis for the establishment of endosymbiosis in Paramecium

(2019) Ming He et al.   ISME Journal

Cyclin Cyc2p is required for micronuclear bouquet formation in Tetrahymena thermophila

(2019) Jing Xu et al.   Science China-Life Sciences

Further analyses of variation of ribosome DNA copy number and polymorphism in ciliates provide insights relevant to studies of both molecular ecology and phylogeny

(2019) Yurui Wang et al.   Science China-Life Sciences

RNAi-dependent Polycomb repression controls transposable elements in Tetrahymena

(2019) Xiaolu Zhao et al.   GENES & DEVELOPMENT

Genome analyses of the new model protist Euplotes vannus focusing on genome rearrangement and resistance to environmental stressors

(2019) Xiao Chen et al.   Molecular Ecology Resources

Capture of complete ciliate chromosomes in single sequencing reads reveals widespread chromosome isoforms

(2019) Kelsi A. Lindblad et al.   BMC GENOMICS

A paradox: rapid evolution rates of germline-limited sequences are associated with conserved patterns of rearrangements in cryptic species of Chilodonella uncinata (Protista, Ciliophora)

(2018) Tengteng Zhang et al.   Science China-Life Sciences

A comparative study of genome organization and epigenetic mechanisms in model ciliates, with an emphasis on Tetrahymena , Paramecium and Oxytricha

(2017) Yurui Wang et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

A germline-limited piggyBac transposase gene is required for precise excision in Tetrahymena genome rearrangement

(2017) Lifang Feng et al.   NUCLEIC ACIDS RESEARCH

N6-adenine DNA methylation is associated with the linker DNA of H2A.Z-containing well-positioned nucleosomes in Pol II-transcribed genes in Tetrahymena

(2017) Yuanyuan Wang et al.   NUCLEIC ACIDS RESEARCH

Ribosomal DNA copy number loss and sequence variation in cancer

(2017) Baoshan Xu et al.   PLoS Genetics

Tetrahymena as a Unicellular Model Eukaryote: Genetic and Genomic Tools

(2016) Marisa D. Ruehle et al.   GENETICS

Molecular sled sequences are common in mammalian proteins

(2016) Kan Xiong et al.   NUCLEIC ACIDS RESEARCH

Histone methyltransferase TXR1 is required for both H3 and H3.3 lysine 27 methylation in the well-known ciliated protist Tetrahymena thermophila

(2016) Xiaolu Zhao et al.   Science China-Life Sciences

Enzymatic and chemical mapping of nucleosome distribution in purified micro- and macronuclei of the ciliated model organism, Tetrahymena thermophila

(2016) Xiao Chen et al.   Science China-Life Sciences

Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome

(2016) Eileen P Hamilton et al.   eLife

Tetrahymena as a Unicellular Model Eukaryote: Genetic and Genomic Tools

(2016) Marisa D. Ruehle et al.   GENETICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

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

(2014) Xiao Chen et al.   CELL

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation

(2013) S. Gao et al.   GENES & DEVELOPMENT

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

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

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

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

(2012) Wenwen Fang et al.   CELL

Transcriptome Analysis of the Model Protozoan, Tetrahymena thermophila, Using Deep RNA Sequencing

(2012) Jie Xiong et al.   PLoS One

Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology

(2012) Adam C. English et al.   PLoS One

Tetrahymena genome database Wiki: a community-maintained model organism database

(2012) N. A. Stover et al.   Database-The Journal of Biological Databases and Curation

Origins of theE. coliStrain Causing an Outbreak of Hemolytic–Uremic Syndrome in Germany

(2011) David A. Rasko et al.   NEW ENGLAND JOURNAL OF MEDICINE

Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure

(2008) Robert S Coyne et al.   BMC GENOMICS