Genome coverage estimations for eight Oryza species based on hybridization and extended analysis utilizing whole genome FPC physical maps and BAC end sequences
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|
Genome |
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| AA |
BB |
BBCC |
EE |
FF |
HHKK |
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|
|
O. nivara |
O. rufipogon |
O. glaberrima |
O. punctata |
O. minuta |
O. australiensis |
O. brachyantha |
O. coarctata |
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| Number of hits | 255 | 153 | 149 | 122 | 153 | 78 | 77 | 128 | 147 | 79 | |||||||||
| Number of loci | 12 | 12 | 12 | 12 | 12 | 9 | 7 | 12 | 12 | 7 | |||||||||
| HX coveragea | 21.3 | 12.8 | 12.4 | 10.2 | 12.8
|
8.7
|
11 | 10.7 | 12.3
|
11.3
|
|||||||||
| 11.0b | 11.9b | ||||||||||||||||||
| FPC X coveragec
|
17.5
|
9.7
|
12.2
|
11
|
8.6
|
9.6
|
9.1
|
8.7
|
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↵a Genome coverage based on the total number of hybridization and BES hits identified by extended analysis divided by the total number of loci per genome in the diploids or subgenome in the tetraploids (dispersed clones and undetected homeologous contigs [see Supplemental Table 2] were not taken into account for estimating genome coverage)
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↵b Average HX coverage of both subgenomes for each tetraploid species (see Supplemental Table 2 for details)
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↵c Calculated coverage of the FPC physical maps (excluding singletons)
