A whole genome duplication drives the genome evolution of Phytophthora betacei, a closely related species to Phytophthora infestans

Table 2 Gene annotation statistics from MAKER2 and CAZymes for Phytophthora betacei P8084 and P. infestans assemblies

Assembly	P. betacei P8084	P. infestans RC1-10	P. infestans T30-4
*MAKER 2 annotation*
Total genes	23 457	15 893	17 475
Genes annotated via InterPro, GO, Pfam, and SUPERFAMILY terms.	13 659	8771	9545
Genes annotated uniquely via BLAST against UniRef90	1270	909	961
Genes matching uncharacterized proteins in UniRef90	8001	5789	6553
Genes without assigned functional annotation	527	424	416
Cummulative gene coverage (bp)	34 360 829	22 155 935	25 324 938
Percentage of the genome covered by genes	12.68 %	10.89 %	11.08 %
*Proteins with CAZymes functional annotation*
Glycoside Hydrolase Family	327	220	217
Glycosyltransferase Family	187	115	124
Polysaccharide Lyase Family	54	30	36
Carbohydrate Esterases	67	38	32
Carbohydrate-Binding Module Family	77	41	51
Auxiliary Activities	48	34	32

Genes without assigned functional annotation: Those without matches to either Uniref90 or InterPro databases. Genes annotated via InterPro, GO, Pfam, and SUPERFAMILY terms: Counted as the number of gene elements in the GFF file with entries in the Dbxref field. Genes annotated uniquely via BLAST against UniRef90: Genes with functional terms derived from BLAST matches but without domain-related information from InterPro. Genes matching uncharacterized proteins in UniRef90: Genes with BLAST match to proteins labeled as uncharacterized that do not have associated functional domains. Cummulative gene coverage (bp): Cummulative number of bases from gene elements in the GFF file
[This table should appear in the same page than the Results section named Gene prediction and functional annotation]

ISSN: 1471-2164