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Example sentences for: incognita
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Additional raw sequences were extracted from the July 31, 2002 NCBI GenBank dbEST build with the Entrez Search and Retrieval System (Table 1) [ 47 ] . Meloidogyne incognita and M. javanica datasets from NCBI (NMi and NMj respectively) contain the individual ESTs generated by the PNSP, and from which the clusters for the WMi and WMj datasets were generated.
To insure that sequences generated originate from M. incognita and are not contaminants, multiple steps purifying material and cross-checking sequence origin have been incorporated into the project: the starting material is purified and freed of plant material; poly (A) selection during library production is highly selective for eukaryotic transcripts, though it is possible for AT-rich prokaryotic transcripts to be cloned; analyzed sequences have been filtered for prokaryotic homology resulting in the removal of eight E. coli contaminants (0.
Sixty-four ESTs had significant homology to the putative fatty-acid-binding protein Sec-2, confirming the abundant expression of this gene reported in L2 cDNA libraries from M. incognita [ 29 ] and the cyst nematodes G. rostochiensis and G. pallida cDNA [ 30 ] . Sec-2 is secreted by plant-parasitic nematodes at relatively high levels [ 34 ] . Several abundantly expressed genes are also horizontal gene transfer candidates (see below).
To identify cases where M. incognita and C. elegans share homologous genes which have been surveyed in C. elegans for knockout phenotype using RNAi, a list of all 7,212 available C. elegans RNAi experiments (5 May 2002) from WormBase [ 56 ] was compared to the list of all M. incognita clusters with significant homology matches to the C. elegans Wormpep v.54 protein database.
A further characterization of novel M. incognita genes could begin by examining those with longer ORFs as these are most likely to be real coding regions.
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