ArticleG3 (Bethesda, Md.)2011
Genome-Scale Analysis of Programmed DNA Elimination Sites in Tetrahymena thermophila.
Article in G3 (Bethesda, Md.), 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
47 citing papers in PubMed, 72 citations in OpenAlex.
- The mechanistic and evolutionary diversity of programmed DNA elimination.Nature reviews. Genetics · 2026Review
- The mycobacterial nucleoid-associated protein NapM exhibits stress-induced septal localization and modulates cell envelope gene expression.Microbiology spectrum · 2026Article
- Soma-derived 30-nt small RNAs are coupled with chromosome breakage and precisely target nontransposon DNA against elimination inScience advances · 2025Article
- From germline genome to highly fragmented somatic genome: genome-wide DNA rearrangement during the sexual process in ciliated protists.Marine life science & technology · 2024Article
- Programmed chromosome fragmentation in ciliated protozoa: multiple means to chromosome ends.Microbiology and molecular biology reviews : MMBR · 2023Review
- Molecular characterisation and antibiotic susceptibility of meningococcal isolates from healthy men who have sex with men.Sexually transmitted infections · 2022Article
- Lsr2 and Its Novel Paralogue Mediate the Adjustment of Mycobacterium smegmatis to Unfavorable Environmental Conditions.mSphere · 2021Article
- Programmed genome rearrangements in ciliates.Cellular and molecular life sciences : CMLS · 2020Review
- Combined Genome and Transcriptome Analyses of the Ciliate Schmidingerella arcuata (Spirotrichea) Reveal Patterns of DNA Elimination, Scrambling, and Inversion.Genome biology and evolution · 2020Article
- Roles of Noncoding RNAs in Ciliate Genome Architecture.Journal of molecular biology · 2020Review
- Host-transposon interactions: conflict, cooperation, and cooption.Genes & development · 2019Review
- Boundaries of eliminated heterochromatin of Tetrahymena are positioned by the DNA-binding protein Ltl1.Nucleic acids research · 2019Article
- Parasitic Protozoa: Unusual Roles for G-Quadruplexes in Early-Diverging Eukaryotes.Molecules (Basel, Switzerland) · 2019Review
- RNAi-dependentGenes & development · 2019Article
- RNA-mediated transgenerational inheritance in ciliates and plants.Chromosoma · 2018Review
- Transposable Element Domestication As an Adaptation to Evolutionary Conflicts.Trends in genetics : TIG · 2017Review
- Whats, hows and whys of programmed DNA elimination inOpen biology · 2017Review
- A germline-limited piggyBac transposase gene is required for precise excision in Tetrahymena genome rearrangement.Nucleic acids research · 2017Article
- Genome editing of the disease susceptibility gene CsLOB1 in citrus confers resistance to citrus canker.Plant biotechnology journal · 2017Article
- Flow cytometry sorting of nuclei enables the first global characterization of Paramecium germline DNA and transposable elements.BMC genomics · 2017Article
Corrections and comments
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Authors and funding
13 authors at 6 institutions in 1 country.
Funding
Abstract
Genetically programmed DNA rearrangements can regulate mRNA expression at an individual locus or, for some organisms, on a genome-wide scale. Ciliates rely on a remarkable process of whole-genome remodeling by DNA elimination to differentiate an expressed macronucleus (MAC) from a copy of the germline micronucleus (MIC) in each cycle of sexual reproduction. Here we describe results from the first high-throughput sequencing effort to investigate ciliate genome restructuring, comparing Sanger long-read sequences from a Tetrahymena thermophila MIC genome library to the MAC genome assembly. With almost 25% coverage of the unique-sequence MAC genome by MIC genome sequence reads, we created a resource for positional analysis of MIC-specific DNA removal that pinpoints MAC genome sites of DNA elimination at nucleotide resolution. The widespread distribution of internal eliminated sequences (IES) in promoter regions and introns suggests that MAC genome restructuring is essential not only for what it removes (for example, active transposons) but also for what it creates (for example, splicing-competent introns). Consistent with the heterogeneous boundaries and epigenetically modulated efficiency of individual IES deletions studied to date, we find that IES sites are dramatically under-represented in the ∼25% of the MAC genome encoding exons. As an exception to this general rule, we discovered a previously unknown class of small (<500 bp) IES with precise elimination boundaries that can contribute the 3' exon of an mRNA expressed during genome restructuring, providing a new mechanism for expanding mRNA complexity in a developmentally regulated manner.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.