Abstract
BackgroundClonorchiasis, which is primarily caused by liver fluke (Platyhelminthes), is a fatal infectious disease that is mainly associated with bile duct malignancy and the subsequent development of cholangiocarcinoma. Thus, a genomic approach now represents an important step to further our knowledge of biology and the pathology of these parasites. The results of expressed sequence tags (ESTs) sequencing need to be well organized into databases to provide an integrated set of tools and functional information.FindingsHere, the ClonorESTdb database represents a collection of Clonorchis sinensis ESTs that is intended as a resource for parasite functional genomics. A total of 55,736 successful EST sequences, which are cleaned and clustered into non-redundant 13,305 C. sinensis assembled EST sequences (6,497 clusters and 6,808 singletons), were obtained from three in-house prepared cDNA libraries of C. sinensis at different developmental stages. The assembled consensus sequences were annotated using the BLAST algorithm or/and hmm against NCBI NR, UniProt, KEGG and InterProScan. The ClonorESTdb database provides functional annotation, their expression profiles, tandem repeats and putative single nucleotide polymorphisms with utility tools such as local BLAST search and text retrieval.ConclusionsThis resource enables the researcher to identify and compare expression signatures under different biological stages and promotes ongoing parasite drug and vaccine development and biological research.Database URL:http://pathod.cdc.go.kr/clonorestdb/
Highlights
Clonorchiasis, which is primarily caused by liver fluke (Platyhelminthes), is a fatal infectious disease that is mainly associated with bile duct malignancy and the subsequent development of cholangiocarcinoma
It is estimated that Clonorchiasis affects approximately 35 million people worldwide [1] and more than 600 million people are at risk of infection in East Asia and Eastern Europe [2]
Metacercariae of C. sinensis exist in the small intestine and the juvenile worms migrate up through the Ampulla of
Summary
Clonorchiasis, which is primarily caused by liver fluke (Platyhelminthes), is a fatal infectious disease that is mainly associated with bile duct malignancy and the subsequent development of cholangiocarcinoma. The aim of this study is to provide important database resources for the characterization and understanding of the functional genes of C. sinensis. We have constructed and described ClonorESTdb, a web-based ESTs database resource that involves systematic functional annotation, which comprises more than 55,736 high-quality ESTs based on three full-length enriched cDNA libraries.
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