Target Site Selection of Pseudomonas putida Transposon Tn4652

ABSTRACT We analyzed the target preferences of a Tn3 family transposon Tn4652. Alignment of 93 different insertion sites revealed a consensus sequence which resembles that of Tn3, indicating that despite a low similarity between Tn4652 and Tn3 transposases, their target site recognition is conserved.

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The integration preference of Sleeping Beauty at non-TA site is related to the transposon end sequences

10.21203/rs.2.19101/v1 ◽

2019 ◽

Author(s):

Yiting Zhou ◽

Guangwei Ma ◽

Jiawen Yang ◽

Yabin Guo

Keyword(s):

Site Selection ◽

Genomic Dna ◽

Consensus Sequence ◽

Mouse Cell ◽

Sleeping Beauty ◽

Consensus Sequences ◽

Target Site Selection ◽

Target Sites ◽

End Sequences ◽

Selection Of

Abstract Background: Sleeping Beauty (SB) transposon had been thought to strictly integrate into TA dinucleotides. Recently, we found that SB also integrates into non-TA sites at a lower frequency. Here we performed further study on the non-TA integration of SB. Results: 1) SB can integrate into non-TA sites in HEK293T cells as well as in mouse cell lines. 2) Both the hyperactive transposase SB100X and the traditional SB11 catalyze integrations at non-TA sites. 3) The consensus sequence of the non-TA target sites only occur at the opposite side of the sequenced junction between transposon end and the genomic sequences, indicating that the integrations at non-TA sites are mainly aberrant integrations. 4) The consensus sequence of the non-TA target sites is corresponding to the transposon end sequence. When the transposon end sequence is mutated, the consensus sequences changed too. Conclusion: The interaction between the SB transposon end and genomic DNA may be involved in the target site selection of the SB integrations at non-TA sites.

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The Integration Preference of Sleeping Beauty at Non-TA Site Is Related to the Transposon End Sequences

Frontiers in Genetics ◽

10.3389/fgene.2021.639125 ◽

2021 ◽

Vol 12 ◽

Author(s):

Yiting Zhou ◽

Guangwei Ma ◽

Jiawen Yang ◽

Zenghong Gao ◽

Yabin Guo

Keyword(s):

Site Selection ◽

Genomic Dna ◽

Consensus Sequence ◽

Mouse Cell ◽

Sleeping Beauty ◽

Consensus Sequences ◽

Target Site Selection ◽

Target Sites ◽

End Sequences ◽

Selection Of

Recently, we proved that Sleeping Beauty (SB) transposon integrates into non-TA sites at a lower frequency. Here, we performed a further study on the non-TA integration of SB and showed that (1) SB can integrate into non-TA sites in HEK293T cells as well as in mouse cell lines; (2) Both the hyperactive transposase SB100X and the traditional SB11 catalyze integrations at non-TA sites; (3) The consensus sequence of the non-TA target sites only occurs at the opposite side of the sequenced junction between the transposon end and the genomic sequences, indicating that the integrations at non-TA sites are mainly aberrant integrations; and (4) The consensus sequence of the non-TA target sites is corresponding to the transposon end sequence. The consensus sequences changed following the changes of the transposon ends. This result indicated that the interaction between the SB transposon end and genomic DNA (gDNA) may be involved in the target site selection of the SB integrations at non-TA sites.

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