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Primers were designed by Primer Premier 5.0 to amplify 535 bp from the partial coding regions of CAV.
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The final alignment included 1937 bp, with 1095 bp coming from the partial cyt b and 842 bp for the complete ATPase 8/6 (see also [23], [27]).
For this analysis we constructed a smaller 2530 bp region from the Partial dataset that contained those nucleotide sites shared by all proviruses.
Secondly, a unique 459-bp region, consisting of 17 tandem 27-bp repeats derived from the partial duplication of the adjacent trnY gene, was found to cause the trnE- trnY intergenic spacer (IGS) of the filmy fern Vandenboschia radicans to expand approximately 3-fold in length.
We obtained 642 bp of the partial Cytb gene from 156 individuals and 594 bp of the partial COI gene from 153 individuals.
A fragment of ≈260 bp, which encodes the partial NS3 gene of EHDV, was detected from pooled tissue and the BHK-21 monolayer with cytopathic effect (2 ).
The partial 16S rRNA gene (1309 bp) from the strain ME27-1 showed a maximum identity of 99% with that of Paenibacillus terrae AM141T (T: type strain).
The one in #10 was the product of replacing a stretch of 29 bp (from the ATG towards 3′ end) of pig sequence with 36 bp (6 bp 5′ of the ATG and 26 bp afterwards) of the donor sequence.
A 100% match to both the 12 bp barcode sequence and the partial NgoMIV restriction site were crucial to retain the reads from each sample.
A phylogenetic tree (Fig. 1) for a 4130 bp alignment from the conserved domains (the Partial data set) shared by 106 ERV-K genomes, had a topology congruent to those obtained previously for both ERV-K genomic fragments [21] and complete genomes [9].
All clones from fertile and sterile lines contained a 120 bp 3' UTR in addition to the partial CDS region.
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