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ParameciumDB specifications


Unique identifier OMICS_19268
Name ParameciumDB
Restrictions to use None
Database management system PostgreSQL
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes


  • person_outline Linda Sperling

Publications for ParameciumDB

ParameciumDB citations


Sfr1, a Tetrahymena thermophila Sfi1 Repeat Protein, Modulates the Production of Cortical Row Basal Bodies

PMCID: 5112337
PMID: 27904881
DOI: 10.1128/mSphere.00257-16
call_split See protocol

[…] y name (“Sfr1”) in addition to its TTHERM identifier. The Tetrahymena Sfr1 protein sequence was used as the query sequence for a BLAST search of the P. tetraurelia genome (Paramecium Genome Database [ParameciumDB]) to uncover the Paramecium Sfr1 homologue (GSPATP00030126001), which serves as the reciprocal best BLAST hit. Multiple-sequence alignment of the two Sfr1 homologues and box shading of re […]


TFIIS Dependent Non coding Transcription Regulates Developmental Genome Rearrangements

PLoS Genet
PMCID: 4503560
PMID: 26177014
DOI: 10.1371/journal.pgen.1005383

[…] In order to find putative Paramecium TFIIS homologs, BLASTp and tBLASTn searches were performed against a library of predicted proteins and the P. tetraurelia somatic genome, respectively (ParameciumDB, []), using the sequence of Dst1p, the sole TFIIS present in S. cerevisiae []. We identified six genes encoding TFIIS-like proteins, representing four evolutionarily distant TFIIS familie […]


Genome Wide Analysis of the Phosphoinositide Kinome from Two Ciliates Reveals Novel Evolutionary Links for Phosphoinositide Kinases in Eukaryotic Cells

PLoS One
PMCID: 3823935
PMID: 24244373
DOI: 10.1371/journal.pone.0078848

[…] ed gene since the PIPKc-like domain is not expressed at all as judged by RNA sequencing . Paramecium PIKs were subsequently identified by BLASTP searches with representative TtPIKs and retrieved from ParameciumDB ( . Reciprocal BLASTP searches with representative PtPIKs at the non-redundant database of NCBI retrieved all identified ciliate PIKs. Predicted gene pr […]


Symbiodinium Transcriptomes: Genome Insights into the Dinoflagellate Symbionts of Reef Building Corals

PLoS One
PMCID: 3329448
PMID: 22529998
DOI: 10.1371/journal.pone.0035269

[…] number of sequences: 165,532). Finally, all protein sequences from selected outgroup taxa were included in the analysis: Plasmodium falciparum and P. vivax from PlasmoDB , Paramecium tetraurelia from ParameciumDB , and Thalassiosira pseudonana, Arabidopsis thaliana, Drosophila melanogaster and human from BioMart . Outgroup protein sequences were analyzed with HMMER as described above. […]


Identification of Intracellular and Plasma Membrane Calcium Channel Homologues in Pathogenic Parasites

PLoS One
PMCID: 3194816
PMID: 22022573
DOI: 10.1371/journal.pone.0026218

[…] nd C. intestinalis were carried out against the National Center for Biotechnology (NCBI) genomic protein databases. Searches of the P. tetraurelia genome were carried out using the BLASTP facility of ParameciumDB (v.1.59) ( to search the protein database (version 1, published 2006). The S. mansoni genome was searched using the BLASTP search facility of GeneDB (ht […]


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

PLoS Genet
PMCID: 3077386
PMID: 21533177
DOI: 10.1371/journal.pgen.1002049
call_split See protocol

[…] LIG and XRCC4 genes were identified in the macronuclear genome of P. tetraurelia by BLAST searches at ParameciumDB ( . For DNA ligases, we first selected the genes that blasted against ligase genes from other organisms in the automated annotation of the MAC genome se […]

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ParameciumDB institution(s)
Centre de Génétique Moléculaire, CNRS FRE3144, Gif-sur-Yvette, France; Université Paris-Sud 11, Orsay, France
ParameciumDB funding source(s)
Supported by the Centre National de la Recherche Scientifique and the Agence National de la Recherche (project ParaDice ANR-08- BLAN-0233).

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