ArticleChromosoma2004
Coding properties of Oxytricha trifallax (Sterkiella histriomuscorum) macronuclear chromosomes: analysis of a pilot genome project.
Article in Chromosoma, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
18 citing papers in PubMed.
- Codon Usage Bias Analysis in Macronuclear Genomes of Ciliated Protozoa.Microorganisms · 2023Article
- The macronuclear genome of the Antarctic psychrophilic marine ciliate Euplotes focardii reveals new insights on molecular cold adaptation.Scientific reports · 2021Article
- Article
- Insights into an Extensively Fragmented Eukaryotic Genome: De Novo Genome Sequencing of the Multinuclear Ciliate Uroleptopsis citrina.Genome biology and evolution · 2018Article
- Identification of osmoadaptive strategies in the halophile, heterotrophic ciliate Schmidingerothrix salinarum.PLoS biology · 2018Article
- The Oxytricha trifallax macronuclear genome: a complex eukaryotic genome with 16,000 tiny chromosomes.PLoS biology · 2013Article
- Article
- Exploiting Oxytricha trifallax nanochromosomes to screen for non-coding RNA genes.Nucleic acids research · 2011Article
- Macronuclear genome structure of the ciliate Nyctotherus ovalis: single-gene chromosomes and tiny introns.BMC genomics · 2008Article
- Spatial and temporal plasticity of chromatin during programmed DNA-reorganization in Stylonychia macronuclear development.Epigenetics & chromatin · 2008Article
- Evolutionary convergence on highly-conserved 3' intron structures in intron-poor eukaryotes and insights into the ancestral eukaryotic genome.PLoS genetics · 2008Article
- Cell cycle-dependent regulation of telomere tethering in the nucleus.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2008Article
- Intron Evolution and Information processing in the DNA polymerase alpha gene in spirotrichous ciliates: a hypothesis for interconversion between DNA and RNA deletion.Biology direct · 2007Article
- Interconversion of germline-limited and somatic DNA in a scrambled gene.Journal of molecular evolution · 2006Article
- Conserved linkage of two genes on the same macronuclear chromosome in spirotrichous ciliates.Chromosoma · 2006Article
- Gene structure of the ciliate Sterkiella histriomuscorum based on a combined analysis of DNA and cDNA sequences from 21 macronuclear chromosomes.Chromosoma · 2005Article
- snRNA and heterochromatin formation are involved in DNA excision during macronuclear development in stichotrichous ciliates.Eukaryotic cell · 2005Article
- MDS_IES_DB: a database of macronuclear and micronuclear genes in spirotrichous ciliates.Nucleic acids research · 2005Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
The macronuclear genomes of spirotrichous ciliates are almost entirely polyploid, single-gene chromosomes ("nanochromosomes"). We recently performed a pilot genome project for a member of this group, Oxytricha trifallax ( Sterkiella histriomuscorum), in which approximately 2000 nanochromosomes were cloned at random and end-sequenced. Here we describe the global properties of the coding regions predicted for these molecules, including nucleotide composition, codon usage, and intron properties. In identifying splice donor, acceptor and branch sites, we found that longer introns in Oxytricha have a stronger signal at the donor site than do smaller introns, as has been found for Caenorhabditis elegans and Drosophila, despite the overall small size of the introns. A systematic search for multi-gene chromosomes identified 11 candidate nanochromosomes. We compare the results from this large dataset with those obtained from earlier studies and with statistics recorded from ciliates and other eukaryotes.
Indexed as
Identifiers
15258807What OpenQuestion holds
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.