Table 3 Analysis of gene loss in X and Y chromosomes combining BAC and RNA-seq data
From: Identifying new sex-linked genes through BAC sequencing in the dioecious plant Silene latifolia
Categories of genes | X-linked genes | Y-linked genes |
|---|---|---|
All new genes in BAC sequences | 49 | 10 |
No match to RNA-seq contigs | 6 | 3 |
Genes retained for analysis | 43 | 7 |
Category (i): X/Y gene pair results in RNA-seq analysis | 16 | 2 |
Category (ii): X-hemizygous results in RNA-seq analysis | 5 | 1 |
Category (iii): Not ascertained as sex-linked by RNA-seq analysis | 22 | 4 |
Estimated X/Y false negative rate for gene pairs for RNA-seq analysisa | 25 % | 25 % |
Expected number of XY pairs undetected in RNA-seq analysis | 10.75 | 1.75 |
Potential number of X-hemizygous (X0) or Y0 genes undetected in RNA-seq analysis | 11.25 | 2.25 |
Potential total number of X-hemizygous (X0) or Y0 genes (sum of detected + undetected in RNA-seq analysis numbers above) | 16.25 | 2.25 |
Potential proportion of X-hemizygous (X0) or Y0 genesb | 27-33 % | 4-5 % |