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There are few EST sequences and one GSS (genome sequence survey) of Phalaenopsis orchids available in the public resources [39].
In this study, which is part of an ongoing genome sequence survey of E. bieneusi, three large supercontigs encompassing 429 kbp were annotated and compared to both E. cuniculi and A. locustae.
Our sequence survey of 49 individuals confirms co-segregation of the high frequency D299G and T399I SNPs whose presence identifies our allele 1 in 5.1% of the cases (Table S3).
The complement of genes identified in the original sequence survey and the 454 sequence survey were compared by reciprocal Blast.
Presented here is the first large-scale sequence survey of a pine genome.
All sequences matched the contig assembled from the 454 sequence survey, with some base mismatches.
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The total length of sequence surveyed was ∼27 kb of diploid sequence per individual, with a mean length of ∼1.3 kb per genomic region (Table S1).
In this short domain that corresponds to only 10.5% of the total sequence surveyed, we found 36.7% of the 79 novel intron gains in tetraspanins (a ratio of 3.5 times greater rate than expected over random).
Our method was validated using both extensive sequence surveys from the public domain and Polymerase Chain Reaction (PCR) experiments carried out over specimens from different Classes of vertebrates (Mammalia, Aves, Reptilia and Amphibia) and invertebrate ectoparasites (Arachnida and Insecta).
This extensive MPSS analysis confirms and supplements prior microarray floral expression studies and illustrates the utility of sequence survey-based expression analysis in functional genomics.
Methylation-filtration targets genomic sequence surveys to genic regions, providing gene-rich marker discovery data [ 15].
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