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Table 1 Efficiency of each step of screening Meloidogyne datasets for HGT candidates

From: Horizontally transferred genes in plant-parasitic nematodes: a high-throughput genomic approach

Name

Original

First screen

Second screen

Final candidates

WMi

1,799

16 (0.889%)

12 (0.667%)

12 (0.667%)

WMj

3,119

11 (0.353%)

7 (0.224%)

7 (0.224%)

NMi

12,841

99 (0.771%)

27 (0.210%)

5 (0.038%)

NMj

5,630

54 (0.959%)

16 (0.284%)

6 (0.107%)

NMh

6,514

4 (0.061%)

0 (0.00%)

0 (0.00%)

  1. Clustered ESTs (W) were from the Parasitic Nematode Sequencing Project at Washington University. Raw ESTs (N) were extracted from NCBI's GenBank. Mi, Meloidogyne incognita; Mj, M. javanica; Mh, M. hapla. 'Original number' gives the size of the initial dataset. For both screens, matches were declared when e-values were less than 1.0e-10. The percentage of the original number of sequences remaining after each screen is listed in parentheses. 'Final candidates' reflects total number of candidates after removal of redundancy.
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Genome Biology

ISSN: 1474-760X

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