Patterns of prokaryotic lateral gene transfers affecting parasitic microbial eukaryotes

Table 1 Overview of genomes analyzed and the number and type of lateral gene transfer (LGTs) detected

Taxa	Number of genes^a	Number of trees^b	P to E^c, n	E to E^d, n	LGT^e	Percentage LGT,%^f
Leishmania major	7,111	4,638	63	5	68	0.96
Entamoeba histolytica	9,090	6,331	51	12	63	0.68
Trypanosoma bruceii	9,750	6,191	45	1	46	0.47
Dictyostelium discoideum	13,605	9,921	61	1	62	0.46
Plasmodium falciparum	5,258	4,546	18	1	19	0.36
Giardia lamblia	6,394	1,923	15	6	21	0.36
Plasmodium vivax	5,393	3,766	17	0	17	0.32
Cryptosporidium parvum	4,074	3,515	8	3	11	0.27
Trichomonas vaginalis	59,681	20,729	134	15	149	0.25
Trypanosoma cruzi	20,184	14,598	46	3	49	0.24
Toxoplasma gondii	7,793	3,350	16	0	16	0.21
Plasmodium yoelii yoelii	7,813	5145	16	0	16	0.20
Encephalitozoon cuniculi	1,918	1,122	1	2	3	0.16
Total	15,8064	75,818	492	49	542

^aNumber of protein-coding genes analyzed for each genome.
^bNumber of protein-coding genes producing a phylogenetic tree in the primary screen.
^cNumber of phylogenetic trees indicative of an LGT where the query organism is separated from other eukaryotes by at least one well-supported node, or the alignment has no other closely related eukaryotes than the query taxa.
^dPotential eukaryote-to-eukaryote gene transfers involving at least one of our query taxa.
^eTotal number of LGTs. Note that the total numbers of LGTs are not additive because 'deep, ancient, transfers' to Trypanosomatides or Apicomplexa are reported for each species; the underlying LGT is inferred to have occurred once only and in the common ancestor of the group (see Figure 4).
^fPercentage of protein-coding genes in each genome that represent LGTs; entries ranked from the highest to the lowest value.

ISSN: 1474-760X