Synergistic use of plant-prokaryote comparative genomics for functional annotations

BMC Genomics

Table 1 Selection of candidate hypothetical genes families conserved in Arabidopsis (AT) and prokaryotes for in silico functional predictions and potential experimental verification – an overview.

AT gene families in this study	AT genes (and families) screened	AT genes with prokaryote homolog(s)	AT genes selected for *in silico* analysis	Gene families connected to metabolic areas	Families with specific hypotheses formulated	Families experimentally tested in this study	Families with validated functions -
							in this study	by others
Singletons	3,625	666 (18.4%)	178	42	21	10	3	5
Duplets	3,204 (1,602 x2)	909 (28.4%)	190	21	13	7	3	2
Triplets ^a	2,421 (807 x3)	849 (35.0%)	262	14	6	3	2	3
					(+1)^b	(+1)^b	(+1)^b
Total	9,250 (6,034)	2,325 (25.1%)	630	78	41	21 ^c	9	10

^a Includes several Arabidopsis gene families with 4 or more paralogs
^b One candidate was not in the Arabidopsis set (number 4 in Table 2).
^c Includes 9 families with functions experimentally validated, 4 invalidated, and 8 for which experimental validation is currently in progress (see Table 2 and Table 3 for details).

ISSN: 1471-2164