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Table 2
Biological pathways that are significantly enriched with E/HGTs
Type	Functional category	Species group	Total enzymes	EGT	HGT

Map group	Lipid met	Ostreococcus	64	10 (2.0*)	3
Map group	Lipid met	Plasmodium	36	6 (3.2^†)	-
Map group	Lipid met	Toxoplasma	52	9 (3.7^†)	-
Map	Bsyn of steroids	Diatoms	22	7 (2.7^†)	-
Map	Bsyn of steroids	Ostreococcus	18	5 (3.5*)	-
Map	Bsyn of steroids	Theileria	7	2 (7.0*)	-
Map	Fatty acid bsyn	Toxoplasma	4	2 (10.7*)	-
Map	Fatty acid bsyn	Plasmodium	5	2 (7.8*)	-
Map	Fatty acid met	Trypanosoma	6	2 (10.1*)	-
Module	C5 isoprenoid bsyn, non-mevalonate	Diatoms	7	4 (4.3^†)	-
Module	C5 isoprenoid bsyn, non-mevalonate	Theileria	6	2 (8.6*)	-
Module	C5 isoprenoid bsyn, non-mevalonate	Plasmodium	7	2 (6.4*)	-
Module	Fatty acid bysn, elongation	Ostreococcus	3	2 (6.6*)	-
Module	Fatty acid bysn, elongation	Plasmodium	3	2 (15.0^†)	-
Module	Fatty acid bysn, elongation	Toxoplasma	3	2 (11.1^†)	-
Map group	Carbohydrate met	Cryptosporidium	65	8 (2.6^†)	2
Map group	Carbohydrate met	Phytophthora	195	22 (2.8^†)	5
Map group	Carbohydrate met	Plasmodium	82	10 (2.4^†)	2
Map group	Carbohydrate met	Theileria	61	6 (2.4*)	1
Map	Galactose met	Phytophthora	8	2 (6.3*)	1
Map	Glycolysis/Gluconeogenesis	Phytophthora	19	4 (5.3^†)	1
Map	Glycolysis/Gluconeogenesis	Plasmodium	13	3 (4.5*)	-
Map	Pentose phosphate pathway	Phytophthora	12	3 (6.3^†)	1
Map	Pyruvate met	Cryptosporidium	8	2 (5.3*)	-
Map	Pyruvate met	Plasmodium	13	3 (4.5*)	1
Map	Pentose and glucuronate interconversion	Leishmania	6	-	3 (8.2^†)
Map	Starch and sucrose met	Cryptosporidium	11	2	2 (7.7*)
Map	Starch and sucrose met	Phytophthora	22	5 (5.7^†)	1
Module	Glycolysis	Phytophthora	8	2 (7.0*)	-
Map group	Energy met	Ostreococcus	54	9 (2.1*)	2
Map	Carbon fixation	Cryptosporidium	8	2 (5.3*)	-
Map	Carbon fixation	Ostreococcus	19	5 (3.3*)	-
Map	Nitrogen met	Toxoplasma	11	-	2 (6.8*)
Map	Reductive carboxylate cycle	Leishmania	6	-	2 (5.5*)
Map group	Other AAs	Leishmania	32	-	5 (2.6*)
Map group	Other AAs	Phytophthora	54	1	4 (3.6*)
Map	Arginine and proline met	Ostreococcus	10	-	3 (5.3*)
Map	Glutamate met	Plasmodium	15	-	2 (6.6*)
Map	Glutathione met	Leishmania	10	-	3 (4.9*)
Map	Lysine bsyn	Toxoplasma	6	1	2 (12.5^†)
Map	Nicotinate and nicotinamide met	Leishmania	4	-	2 (8.2*)
Module	Chorismate bsyn, phosphoenolpyruvate + erythrose-4P = > chorismate	Diatoms	6	3 (3.8*)	-
Module	Histidine bysn, PRPP = > histidine	Ostreococcus	5	-	2 (7.1*)
Module	Lysine bsyn, aspartate = > lysine	Toxoplasma	5	1	2 (16.6^†)
Map group	Cofactor and vitamins	Diatoms	70	15 (1.8*)	2
Map group	Cofactor and vitamins	Leishmania	28	-	5 (2.9*)
Map group	Cofactor and vitamins	Ostreococcus	65	13 (2.5^†)	4
Map	Biotin met	Saccharomyces	4	-	2 (29.7^†)
Map	Porphyrin and chlorophyll met	Diatoms	20	12 (5.1^†)	-
Map	Porphyrin and chlorophyll met	Leishmania	4	-	2 (8.2*)
Map	Porphyrin and chlorophyll met	Ostreococcus	21	12 (7.1^†)	2
Map	Thiamine met	Diatoms	3	-	2 (22.4^†)
Module	Biotin bsyn, pimeloyl-CoA = > biotin	Saccharomyces	3	-	2 (31.4^†)
Module	Heme bsyn, glutamate = > protoheme/siroheme	Diatoms	10	6 (4.5^†)	-
Module	Heme bsyn, glutamate = > protoheme/siroheme	Leishmania	3	-	2 (10.3*)
Module	Heme bsyn, glutamate = > protoheme/siroheme	Ostreococcus	10	5 (4.9^†)	1
Map group	Glycan bsyn	Phytophthora	9	1	2 (10.9*)
Map	Lipopolysaccharide bsyn	Phytophthora	5	1	2 (19.6^†)
Map group	Xenobiotics biodegradation and met	Ostreococcus	15	-	3 (3.5*)
Map	Aminoacyl-tRNA bsyn	Diatoms	19	6 (2.7*)	1

Significant over-representation of E/HGTs in biological pathways is shown on the following levels: Map group, KEGG map group; Map, KEGG map; Module, KEGG module. 'Total enzymes' is the number of enzymes in the species group within the defined category; 'EGT' and 'HGT' are counts of the number of transferred enzymes in the category followed in parentheses by the over-representation statistic for E/HGTs in that category (the proportion of E/HGTs for the category divided by the proportion of E/HGTs over all categories). Only statistically significant over-representation is shown and is indicated by asterisks (95% level) and dagger symbols (99% level). Significantly enriched pathways are not listed if the pathways contained only one E/HGT. The pathways are grouped by the KEGG map group they belong to in the following order: 'lipid metabolism', 'carbohydrate metabolism', 'energy metabolism', 'amino acid metabolism' and 'metabolism of other amino acids', 'metabolism of cofactors and vitamins', 'glycan biosynthesis and metabolism', 'xenobiotic biodegradation and metabolism' and 'amino-tRNA biosynthesis'. Abbreviations used in the pathway names: AA, amino acids; bsyn, biosynthesis; met, metabolism.
Whitaker et al. Genome Biology 2009 10:R36 doi:10.1186/gb-2009-10-4-r36

Table 2