title: Transcriptome generation and analysis from spleen of Indian catfish, Clarias batrachus (Linnaeus, 1758) through normalized cDNA library.
abstract: Catfishes are commercially important fish for both the fisheries and aquaculture industry. Clarias batrachus, an Indian catfish species is economically important owing to its high demand. A normalized cDNA library was constructed from spleen of the Indian catfish to identify genes associated with immune function. One thousand nine hundred thirty seven ESTs were submitted to the GenBank with an average read length of approximately 700 bp. Clustering analysis of ESTs yielded 1,698 unique sequences, including 184 contigs and 1,514 singletons. Significant homology to known genes was found by homology searches against data in GenBank in 576 (34 %) ESTs, including similarity to functionally annotated unigenes for 158 ESTs. Additionally, 433 ESTs revealed similarity to unigenes and ESTs in the dbEST but the remaining 658 EST sequences (39 %) did not match any sequence in GenBank. Of a total of 1,698 ESTs generated, 65 ESTs were found to be associated with immune functions. Gene Ontology and KEGG pathway analyses of C. batrachus ESTs collectively revealed a preponderance of immune relevant pathways apart from the presence of pathways involved in protein processing, localization, folding and protein degradation. This study constitutes first EST analysis of lymphoid organ in aquaculturally important Indian catfish species and could pave the way for further research of immune-related genes and functional genomics in this catfish.
authors.affiliation: National Bureau of Fish Genetic Resources (ICAR), Canal Ring Road, P. O. Dilkusha, Lucknow, 226002, UP, India.
authors.forename: Akanksha
authors.initials: A
authors.lastname: Singh
authors.forename: A S
authors.initials: AS
authors.lastname: Barman
authors.forename: Neeraj
authors.initials: N
authors.lastname: Sood
authors.forename: Vindhya
authors.initials: V
authors.lastname: Mohindra
mesh_terms: D000818:Animals; D001483:Base Sequence; D002397:Catfishes / Q000235:genetics*; D020224:Expressed Sequence Tags; D029941:Fish Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D020869:Gene Expression Profiling; D015723:Gene Library; D063990:Gene Ontology; D007194:India; D058977:Molecular Sequence Annotation; D017434:Protein Structure, Tertiary; D017422:Sequence Analysis, DNA; D015398:Signal Transduction / Q000235:genetics; D013154:Spleen / Q000378:metabolism*; D059467:Transcriptome / Q000235:genetics*
chemical_list: D029941:Fish Proteins