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comparative analysis of the a. mellifera and h. halys genomes with n. viridula, the latter two of which are also closely related (see fig. 5 ), has shown them to be more highly conserved than the genomes of the honey bee and migratory locust, p. migratultum [ 148, 149 ] (fig. 5 ). the honey bee is much more highly conserved than n. viridula, which is the result of the relatively more fragmented a. mellifera genome; only n. viridula is more highly conserved than a. mellifera. the honey bee genome is more heterozygous and more fragmented than n. viridula, and the latter two have more immune-related genes.
among the three genomes, we identified a core set of 315 proteins that are orthologous to other insect genomes, representing the core set of proteins for the insecta. of the remaining proteins, we identified another 16,725 proteins from the h. halys assembly that were unique to this species. these represent an additional set of genes or gene families that are specifically present in the h. halys genome and are therefore expected to play some role in the biology and ecology of this species.
using the h. halys genome, we predicted and analyzed the complete complement of coding sequences, splice sites and non-coding rnas. a combined set of 1,054 structural and non-coding rnas were identified, including 90 long non-coding rnas (lncrna), 1,120 micrornas, and 809 small nucleolar rnas. of the non-coding rnas, 26 were annotated as putative microrna precursors and one putative snorna precursor. in addition, we identified five trnas, seven 5s rrnas, two 5.8s rrnas, one 7s rrna and one 18s rrna. using the lncrnas as a benchmark, we showed that prediction of lncrnas in h. halys was among the most sensitive and accurate. our results suggest that this genome represents a rich resource of developmental and regulatory rnas for further analysis.
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