Table 2

Similarity searches of Pt unigene sequences to related fungal databases

Pgt ESTs

Pgt genome a

Pgt proteins b

Pt genome c

Pst ESTs d

Mlp proteins e

U. maydis ESTs f

U. maydis genome g


e_value

BLASTN

TBLASTX

BLASTX

BLASTN

BLASTN

TBLASTX

BLASTX

TBLASTX

TBLASTX


< = -100

863 (867)

131 (131)

490 (490)

394 (394)

285 (285)

(3426)

120 (120)

79 (70)

117 (117)

68 (68)

67 (67)

-100 < × ≤ -50

434 (442)

466 (466)

749 (751)

829 (829)

763 (763)

(678)

151 (151)

253 (254)

434 (434)

277 (277)

249 (249)

-50 < × ≤ -20

452 (481)

879 (879)

786 (815)

971 (972)

957 (958)

(395)

211 (213)

377 (381)

795 (796)

533 (535)

487 (489)

-20 < × ≤ -5

513 (612)

878 (878)

753 (849)

832 (899)

745 (764)

(250)

270 (292)

473 (516)

758 (781)

629 (656)

656 (680)

TOTAL

2262 (2402)

2354 (2354)

2778 (2905)

3026 (3094)

2750 (2770)

(4749)

752 (776)

1182 (1230)

2104 (2128)

1507 (1535)

1459 (1485)


a the 6,308 most-likely Pt unigene subset (as well as the complete 13,328 Pt unigene sequences: numbers in parentheses) were compared to available Pgt ESTs and genome sequences (upper and lower line in each cell, respectively), using the algorithms indicated

b results comparing the 20,567 and 18,241 (excluding mostly TE-related) gene calls, were identical

c early Pt genome Sanger and 454 sequences

d set of 3,297 published, most-likely P. striiformis f. sp. tritici EST sequences from NCBI dbEST [17,20,21]

e set of 16,831 predicted proteins from the Melampsora laricis-populina genome (http://genome.jgi-psf.org/Mellp1/Mellp1.home.html webcite)

f predicted/valid transcripts (many matching ESTs, [43,56,57], Morrison et al. in preparation] and 364 additional EST unigenes not predicted in the Um genome at MIPS

g MUMDB (http://mips.helmholtz-muenchen.de/genre/proj/ustilago webcite)

Xu et al. BMC Genomics 2011 12:161   doi:10.1186/1471-2164-12-161

Open Data