Genome-wide analysis of genes encoding core components of the ubiquitin system in soybean (Glycine max) reveals a potential role for ubiquitination in host immunity against soybean cyst nematode

Table 1 Summary of the number of soybean UBS components identified after HMMER analysis, BLAST search against the Pfam and NCBI databases, and manual validation

Methods	UBC genes	RING genes	U-box genes	F-box genes
HMMER search^a	107	1234	158	579
Pfam Search	99	826	127	572
NCBI Search	106	1034	145	470
Preliminary Hits^b	106	1034	145	547
Manual Validation	91	760	124	472

^aMultiple annotated proteins corresponding to alternative spliced transcripts of the same gene were found in HMMER search. The sequence of the primary transcript for these genes as specified by the database was used
^bThe number of Preliminary Hit denote the number of corresponding UBS component identified after combining the Pfam and NCBI searches

ISSN: 1471-2229