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Profiling the malaria genome: a gene survey of three species of malaria parasite with comparison to other apicomplexan species.

Abstract：

:We have undertaken the first comparative pilot gene discovery analysis of approximately 25,000 random genomic and expressed sequence tags (ESTs) from three species of Plasmodium, the infectious agent that causes malaria. A total of 5482 genome survey sequences (GSSs) and 5582 ESTs were generated from mung bean nuclease (MBN) and cDNA libraries, respectively, of the ANKA line of the rodent malaria parasite Plasmodium berghei, and 10,874 GSSs generated from MBN libraries of the Salvador I and Belem lines of Plasmodium vivax, the most geographically wide-spread human malaria pathogen. These tags, together with 2438 Plasmodium falciparum sequences present in GenBank, were used to perform first-pass assembly and transcript reconstruction, and non-redundant consensus sequence datasets created. The datasets were compared against public protein databases and more than 1000 putative new Plasmodium proteins identified based on sequence similarity. Homologs of previously characterized Plasmodium genes were also identified, increasing the number of P. vivax and P. berghei sequences in public databases at least 10-fold. Comparative studies with other species of Apicomplexa identified interesting homologs of possible therapeutic or diagnostic value. A gene prediction program, Phat, was used to predict probable open reading frames for proteins in all three datasets. Predicted and non-redundant BLAST-matched proteins were submitted to InterPro, an integrated database of protein domains, signatures and families, for functional classification. Thus a partial predicted proteome was created for each species. This first comparative analysis of Plasmodium protein coding sequences represents a valuable resource for further studies on the biology of this important pathogen.

journal_name

Mol Biochem Parasitol

journal_title

Molecular and biochemical parasitology

authors

Carlton JM,Muller R,Yowell CA,Fluegge MR,Sturrock KA,Pritt JR,Vargas-Serrato E,Galinski MR,Barnwell JW,Mulder N,Kanapin A,Cawley SE,Hide WA,Dame JB

doi

10.1016/s0166-6851(01)00371-1

subject

Has Abstract

pub_date

2001-12-01 00:00:00

pages

201-10

issue

eissn

0166-6851

issn

1872-9428

pii

S0166685101003711

journal_volume

118

pub_type

杂志文章

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Profiling the malaria genome: a gene survey of three species of malaria parasite with comparison to other apicomplexan species.