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Charting the proteome of Cryptosporidium parvum sporozoites using sequence similarity-based BLAST searching.

Siddiki AM, Wastling JM - J. Vet. Sci. (2009)

Bottom Line: Most significantly, almost all the constituents of glycolysis and several mitochondrion-related proteins were identified.In addition, many hypothetical Cryptosporidium proteins were validated by the identification of their constituent peptides.The MS BLAST approach was found to be useful during the study and could provide valuable information towards a complete understanding of the unique biology of Cryptosporidium.

View Article: PubMed Central - PubMed

Affiliation: Department of Preclinical Veterinary Sciences, Faculty of Veterinary Science, University of Liverpool, Crown Street, Liverpool, L69 7ZJ, UK. zsiddiki@gmail.com

ABSTRACT
Cryptosporidium (C.) spp. are important zoonotic parasites causing widespread diarrhoeal disease in man and animals. The recent release of the complete genome sequences for C. parvum and C. hominis has facilitated the comprehensive global proteome analysis of these opportunistic pathogens. The well-known approach for mass spectrometry (MS) based data analysis using the BLAST tool (MS BLAST) is a database search protocol for identifying unknown proteins by sequence similarity to homologous proteins using peptide sequences produced by mass spectrometry. We have used several complementary approaches to explore the global sporozoite proteome of C. parvum with available proteomic tools. To optimize the output of the MS data, a sequence similarity-based MS BLAST strategy was employed for bioinformatic analysis. Most significantly, almost all the constituents of glycolysis and several mitochondrion-related proteins were identified. In addition, many hypothetical Cryptosporidium proteins were validated by the identification of their constituent peptides. The MS BLAST approach was found to be useful during the study and could provide valuable information towards a complete understanding of the unique biology of Cryptosporidium.

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Related in: MedlinePlus

Roadmap for database searches towards identifying known and putative protein sequences.
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Related In: Results  -  Collection


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Figure 1: Roadmap for database searches towards identifying known and putative protein sequences.

Mentions: The MASCOT search against the NCBI database and locally downloaded Cryptosporidium genome sequences revealed a list of contigs with significant peptides. The sequence containing those peptides was then BLAST searched (protein-protein BLAST or BLASTp) to identify sequence similarity with proteins from other organisms. The interpretation of the score and sequence similarity from BLAST searching eventually led to the identification of putative or homologous protein sequences. The whole sequential steps of this data analysis towards the identification of putative or homologous sequences are illustrated in Fig. 1.


Charting the proteome of Cryptosporidium parvum sporozoites using sequence similarity-based BLAST searching.

Siddiki AM, Wastling JM - J. Vet. Sci. (2009)

Roadmap for database searches towards identifying known and putative protein sequences.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2801136&req=5

Figure 1: Roadmap for database searches towards identifying known and putative protein sequences.
Mentions: The MASCOT search against the NCBI database and locally downloaded Cryptosporidium genome sequences revealed a list of contigs with significant peptides. The sequence containing those peptides was then BLAST searched (protein-protein BLAST or BLASTp) to identify sequence similarity with proteins from other organisms. The interpretation of the score and sequence similarity from BLAST searching eventually led to the identification of putative or homologous protein sequences. The whole sequential steps of this data analysis towards the identification of putative or homologous sequences are illustrated in Fig. 1.

Bottom Line: Most significantly, almost all the constituents of glycolysis and several mitochondrion-related proteins were identified.In addition, many hypothetical Cryptosporidium proteins were validated by the identification of their constituent peptides.The MS BLAST approach was found to be useful during the study and could provide valuable information towards a complete understanding of the unique biology of Cryptosporidium.

View Article: PubMed Central - PubMed

Affiliation: Department of Preclinical Veterinary Sciences, Faculty of Veterinary Science, University of Liverpool, Crown Street, Liverpool, L69 7ZJ, UK. zsiddiki@gmail.com

ABSTRACT
Cryptosporidium (C.) spp. are important zoonotic parasites causing widespread diarrhoeal disease in man and animals. The recent release of the complete genome sequences for C. parvum and C. hominis has facilitated the comprehensive global proteome analysis of these opportunistic pathogens. The well-known approach for mass spectrometry (MS) based data analysis using the BLAST tool (MS BLAST) is a database search protocol for identifying unknown proteins by sequence similarity to homologous proteins using peptide sequences produced by mass spectrometry. We have used several complementary approaches to explore the global sporozoite proteome of C. parvum with available proteomic tools. To optimize the output of the MS data, a sequence similarity-based MS BLAST strategy was employed for bioinformatic analysis. Most significantly, almost all the constituents of glycolysis and several mitochondrion-related proteins were identified. In addition, many hypothetical Cryptosporidium proteins were validated by the identification of their constituent peptides. The MS BLAST approach was found to be useful during the study and could provide valuable information towards a complete understanding of the unique biology of Cryptosporidium.

Show MeSH
Related in: MedlinePlus