After mating, genomic DNA was harvested from individual males and PCR amplified with primers flanking the original insertion site to examine the potential P-excision site.
We further analyzed recombination in nbs1-2 by using genetic mapping of simple sequence repeats, SNPs, and small insertion deletion polymorphisms to examine the frequency and distribution of crossovers across an entire chromosome.
Finally, as our screening method tolerated small local rearrangements within conserved synteny blocks (Materials and Methods), we are able to examine whether insertion of HGT genes is accompanied or not by other local rearrangements.
To examine the insertion sites of nuwts in the nematode genome, we identified read pairs spanning the junction between the nuwt and the portion of the B. malayi genome of nematode ancestry.
To examine the insertion probability of a non-specific gene fragment in our experiment, the single KanMX gene cassette (kan) that possessed a single homologous recombination site in the K. marxianus KY3 genome was transformed into the host.
Second, to examine whether insertion or transformation into ANRIL exons affected the evolution of the TEs themselves, we built phylogenetic trees for TE13/exon 13, TE3/E3TE3, TE7/exon 7 (Additional file 2: Figures S6A and S7A), TE12/exon 12 (Additional file 2: Figures S6B and S7B), and TE8a/E8TE8a (Additional file 2: Figures S6E and S7E) (each TE indicates the highest-scoring independent TE).
The purpose of the study was to examine whether the insertion (I) and/or deletion (D) polymorphism of ACE confers susceptibility to primary pterygium in Sardinian patients in a case control study.
We used low-coverage genomic shotgun sequence data from four salamander species to examine patterns of insertion, deletion, and substitution in neutrally evolving non-long terminal repeat (LTR) retrotransposon sequences.
Thus, we performed further analyses to examine whether TE insertions accelerated or slowed the evolution of ANRIL.
To our knowledge, this is the first study to examine the appropriateness of insertion of tympanostomy tubes with data collected by independent audits of the records.
