Co-expression of adjacent genes in yeast cannot be simply attributed to shared regulatory system

BMC Genomics

Table 1 Summary of the orthologous adjacent genes in Saccharomyces sensu stricto species relative to the 5,702 gene pairs in S. cerevisiae.

	Annotated ORFs^a	Orthologous genes	Orthologous adjacent pairs^b	Divergent pairs^e	Convergent pairs^e	Tandem pairs^e
S. cerevisiae	6310	5743	5702	1491	1474	2737
S. castellii	4681	3857	2053	528	604	921
S. bayanus	4970	4642	3975	1029	1051	1895
S. kudriavzevii	3778	3212	2376	637	647	1092
S. mikatae	3109	2435	1609	437	424	748
Stringently conserved pairs (ratio)^c				94 (6.30%)	95 (6.45%)	156 (5.70%)
Loosely conserved pairs (ratio)^d				942 (63.18%)	973 (66.01%)	1667 (60.91%)

^aFor analysis, the annotated ORFs exclude dubious and silent ORFS as well as overlapping genes.
^bThe orthologous adjacent pairs of the sensu stricto species are determined based on conservation of the orthologs as well as their adjacency relationship in S. cerevisiae.
^cGene pairs with adjacency relationship preserved in all five species for the orthologous pairs.
^dGene pairs with adjacency relationship preserved in any three species, or in S. castelli with at least one another yeast species used in this study.
^eThe proportions of conservation for different adjacent patterns are similar to those for random sampling composition (p > 0.05, chi-square test).

ISSN: 1471-2164