Expressed Sequence Tags from the Ciliate Protozoan Parasite Ichthyophthirius Multifiliis
Researchers sequenced 10,368 expressed sequence tags (EST) clones using a normalized cDNA library made from pooled samples of the trophont, tomont, and theront life-cycle stages, and generated 9,769 sequences (94.2% success rate). Post-sequencing processing led to 8,432 high quality sequences. Clustering analysis of these ESTs allowed identification of 4,706 unique sequences containing 976 contigs and 3,730 singletons.
The ciliate protozoan Ichthyophthirius multifiliis (Ich) is an important parasite of freshwater fish that causes 'white spot disease' leading to significant losses. A genomic resource for large-scale studies of this parasite has been lacking. To study gene expression involved in Ich pathogenesis and virulence, our goal was to generate ESTs for the development of a powerful microarray platform for the analysis of global gene expression in this species. Here, we initiated a project to sequence and analyze over 10,000 ESTs.
Resources in this dataset:
Resource Title: Data Dictionary - Supplemental Tables 1, 2, and 3.
File Name: IchthyophthiriusESTs_DataDictionary.csv
Resource Description: Machine-readable comma-separated values (CSV) definitions for data elements of Supplemental Tables 1-3 concerning *I. multifiliis* unique EST sequences, BLAST searches of the Ich ESTs against *Tetrahymena thermophila* and *Plasmodium falciparum* genomes, and gene ontology (GO) profile.
Resource Title: Table 3. Table of gene ontology (GO) profiles..
File Name: 12864_2006_889_MOESM3_ESM.xls
Resource Description: Supplemental Table 3, Excel spreadsheet; Table of gene ontology (GO) profiles; Provided information includes unique EST name, accession numbers, BLASTX top hit, GO identification numbers and enzyme commission (EC) numbers. Data resources found on the main article page under the "Electronic supplementary material" section: http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-176 Direct download for this resource: https://static-content.springer.com/esm/art:10.1186/1471-2164-8-176/MediaObjects/12864_2006_889_MOESM3_ESM.xls Title: Table I. Multifiliis unique EST sequences.
File Name: 12864_2006_889_MOESM1_ESM.xls
Resource Description: Supplemental Table 1 for article, "Generation and analysis of expressed sequence tags from the ciliate protozoan parasite Ichthyophthirius multifiliis." Excel spreadsheet; Table of I. multifiliis unique EST sequences; Provided information includes I. multifiliis BLASTX top hits to the non-redundant database in GenBank with unique EST name and accession numbers. Also included are significant protein domain comparisons to the Swiss-Prot database. Putative secretory proteins are highlighted. Data resources found on the main article page under the "Electronic supplementary material" section: http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-176 Direct download for this resource: https://static-content.springer.com/esm/art:10.1186/1471-2164-8-176/MediaObjects/12864_2006_889_MOESM1_ESM.xls Title: Table 2. Excel spreadsheet; Summary of BLAST searches of the Ich ESTs against Tetrahymena thermophila and Plasmodium falciparum genomes.
File Name: 12864_2006_889_MOESM2_ESM.xls
Resource Description: Table 2 from "Generation and analysis of expressed sequence tags from the ciliate protozoan parasite Ichthyophthirius multifiliis." Excel spreadsheet; Summary of BLAST searches of the Ich ESTs against Tetrahymena thermophila and Plasmodium falciparum genomes. Provided information includes I. multifiliis BLASTX top hits to the non-redundant database in GenBank with unique EST name, tBLASTx top hits to the T. thermophila genome, and BLASTX top hits to the P. falciparum genome sequences. This table correlates with the Venn diagram in figure 1. Data resources found on the main article page under the "Electronic supplementary material" section: http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-176 Direct download link for this data resource: https://static-content.springer.com/esm/art:10.1186/1471-2164-8-176/MediaObjects/12864_2006_889_MOESM2_ESM.xls
Funding
Agricultural Research Service, 58-6420-5-030
U.S. Department of Agriculture, 2006-35616-16685
U.S. Department of Agriculture, 2005-35206-15274
History
Data contact name
Liu, ZhanjiangData contact email
zliu@acesag.auburn.eduPublisher
BMC GenomicsTemporal Extent Start Date
2007-01-01Theme
- Not specified
Geographic Coverage
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WorldwideISO Topic Category
- biota
National Agricultural Library Thesaurus terms
sequence analysis; clones; cDNA libraries; complementary DNA; developmental stages; cluster analysis; Protozoa; Ichthyophthirius multifiliis; parasites; freshwater fish; genomics; gene expression; pathogenesis; virulence; microarray technology; Biological SciencesOMB Bureau Code
- 005:18 - Agricultural Research Service
OMB Program Code
- 005:040 - National Research
ARS National Program Number
- 106
Pending citation
- No
Public Access Level
- Public