Bioinformatic analysis of abundant, gender-enriched transcripts of adult Ascaris suum (Nematoda) using a semi-automated workflow platform

• Published in: Molecular and cellular probes Vol. 23; no. 5; pp. 205 - 217
• Main Authors: Cantacessi, C., Zou, F.C., Hall, R.S., Zhong, W., Jex, A.R., Campbell, B.E., Ranganathan, S., Sternberg, P.W., Zhu, X.Q., Gasser, R.B.
• Format: Journal Article
• Language: English
• Published: England Elsevier Ltd 01.10.2009
• Subjects: Aging - genetics; Animals; Ascaris suum; Ascaris suum - genetics; Automation - methods; Bioinformatics; Caenorhabditis elegans; Caenorhabditis elegans - genetics; Computational Biology - methods; Expressed Sequence Tags; Female; Gender-enriched; Gene Expression Profiling - methods; Gene ontology; Genetic interactions; Male; Molecular Sequence Data; Nematoda; RNA, Messenger - analysis; RNA, Messenger - genetics; Sex Characteristics; Suppressive-subtractive hybridization; Transcription, Genetic - genetics; Gene ontology; Caenorhabditis elegans; Genetic interactions; Suppressive-subtractive hybridization; Gender-enriched; Ascaris suum; Bioinformatics
• ISSN: 0890-8508; 1096-1194
• DOI: 10.1016/j.mcp.2009.03.003

Expressed sequence tag (EST) data representing transcripts with a high level of differential hybridization in suppressive-subtractive hybridization (SSH)-based microarray analysis between adult female and male Ascaris suum were subjected to detailed bioinformatic analysis. A total of 361 ESTs clustered into 209 sequences, of which 52 and 157 represented transcripts that were enriched in female and male A. suum, respectively. Thirty (57.7%) of the ‘female’ subset of 52 sequences had orthologues/homologues in other parasitic nematodes and/or Caenorhabditis elegans, 13 (25%) exclusively in other parasitic nematodes and nine (17.3%) had no match in any other organism for which sequence data are currently available; the C. elegans orthologues encoded molecules involved in reproduction as well as embryonic and gamete development, such as vitellogenins and chitin-binding proteins. Of the ‘male’ subset of 157 sequences, 73 (46.5%) had orthologues/homologues in other parasitic nematodes and/or C. elegans, 57 (37.5%) in other parasitic nematodes only, and 22 (14.5%) had no significant similarity match in any other organism; the C. elegans orthologues encoded predominantly major sperm proteins (MSPs), kinases and phosphatases, actins, myosins and an Ancylostoma secreted protein-like molecule. The findings of the present study should support further genomic investigations of A. suum.