Gene Discovery

Based on the phylogenetic relationships within the genus Meloidogyne, and the biological differences between species (such as host range, susceptibility of host R-loci, etc.) we have chosen 6 species for EST sequencing. As of August 2001, we have processed (trimming, Phred20, etc.) annotated and entered into GenBank dbEST: M. incognita: 5,713 ESTs, M. javanica: 3,994 ESTs, M. arenaria: 568 ESTs

The NemaGene clustering tool has revealed more than 2,000 Meloidogyne genes from our initial sequencing, which likely accounts for >10% of the gene complement. Annotation of the M. incognita v1.0 clusters showed that 76% of identified transcripts have significant database matches in other organisms (BLAST, E<10^-5). Matches to other species were dominated by C. elegans; 66% of transcripts matched a C. elegans gene, and 52% had a C. elegans gene as their best matching sequence.

Abundant transcripts Assignment C. elegans Match E-value   calponin-like unc-87 10-150 NOVEL none - alpha crystallin beta chain CE00072 10-35 nod-L none 10-56 sec-I CE00134 10-67 mip transmembrane protein CE01275 10-54 mitochondrial murf-2 protein none 10-5 myosin light chain - ½ CE20545 10-76 NOVEL none - Troponin-T like CE02761 10-107 NOVEL CE19175 10-16 myosin light chain CE01236 10-75 NOVEL CE18818 10-19

Best nematode conservation Assignment C. elegans Match E-value   actin act-2 10-240 intermediate filament protein CE02618 10-182 myosin myo-3 10-170 calponin-like CE07537 10-156 galactoside-binding lectin lec-2 10-144 ribosomal protein L2 CE18478 10-134 NOVEL CE23744 10-133 lactate dehydrogenase ldh-1 10-125 aconitate hydratase CE00516 10-122 elongation factor 2 CE15900 10-121 fructose-bisphosphate aldolase CE01225 10-118 ribosomal protein S3a homolog CE00664 10-117 tubulin CE09434 10-115

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