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

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.

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

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.

scholarly journals Target Site Selection of Pseudomonas putida Transposon Tn4652

2007 ◽  
Vol 189 (10) ◽  
pp. 3918-3921 ◽  
Author(s):  
Paula Ann Kivistik ◽  
Maia Kivisaar ◽  
Rita Hõrak
Keyword(s):  
Pseudomonas Putida ◽  
Site Selection ◽  
Consensus Sequence ◽  
Target Site ◽  
Target Site Selection ◽  
Insertion Sites ◽  
Site Recognition ◽  
Selection Of

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.

Common Physical Properties of DNA Affecting Target Site Selection of Sleeping Beauty and other Tc1/mariner Transposable Elements

2002 ◽  
Vol 323 (3) ◽  
pp. 441-452 ◽  
Author(s):  
Thomas J. Vigdal ◽  
Christopher D. Kaufman ◽  
Zsuzsanna Izsvák ◽  
Daniel F. Voytas ◽  
Zoltán Ivics
Keyword(s):  
Transposable Elements ◽  
Physical Properties ◽  
Site Selection ◽  
Sleeping Beauty ◽  
Target Site ◽  
Target Site Selection ◽  
Selection Of

scholarly journals Behavior and Target Site Selection of Conjugative Transposon Tn916in Two Different Strains of Toxigenic Clostridium difficile

2012 ◽  
Vol 78 (7) ◽  
pp. 2147-2153 ◽  
Author(s):  
Peter Mullany ◽  
Rachel Williams ◽  
Gemma C. Langridge ◽  
Daniel J. Turner ◽  
Rachael Whalan ◽  
...  
Keyword(s):  
Clostridium Difficile ◽  
Consensus Sequence ◽  
Conjugative Transposon ◽  
Content Type ◽  
Target Site Selection ◽  
Flagellar Biosynthesis ◽  
Intergenic Regions ◽  
High Throughput Dna Sequencing ◽  
Different Strains ◽  
Selection Of

ABSTRACTThe insertion sites of the conjugative transposon Tn916in the anaerobic pathogenClostridium difficilewere determined using Illumina Solexa high-throughput DNA sequencing of Tn916insertion libraries in two different clinical isolates: 630ΔE, an erythromycin-sensitive derivative of 630 (ribotype 012), and the ribotype 027 isolate R20291, which was responsible for a severe outbreak ofC. difficiledisease. A consensus 15-bp Tn916insertion sequence was identified which was similar in both strains, although an extended consensus sequence was observed in R20291. A search of theC. difficile630 genome showed that the Tn916insertion motif was present 100,987 times, with approximately 63,000 of these motifs located in genes and 35,000 in intergenic regions. To test the usefulness of Tn916as a mutagen, a functional screen allowed the isolation of a mutant. This mutant contained Tn916inserted into a gene involved in flagellar biosynthesis.

Site Selection, Current Design and Management Practices for Land Treatment Units of Petroleum Wastes

1991 ◽  
Vol 24 (12) ◽  
pp. 83-91
Author(s):  
D. C. P. Casarini ◽  
E. Gloeden ◽  
R. C. de A. Cunha
Keyword(s):  
Site Selection ◽  
Management Practices ◽  
Design Management ◽  
Hazardous Waste Management ◽  
Land Treatment ◽  
Management Technology ◽  
Current Design ◽  
Treatment Facilities ◽  
Petroleum Refineries ◽  
Selection Of

Land treatment is defined as the hazardous waste management technology related to application and incorporation of waste into the defined treatment zone of the soil where will occur the degradation, transformation and immobilization of the constituents contained in the applied waste, to ensure protection of surface water and groundwater. This paper describes some criteria for site selection of land treatment facilities used by petroleum refineries, as well as the engineering design, management practices to optimize the process and closure and post-closure techniques.

Hybrid PSO-WDBA method for the site selection of tailings pond

2020 ◽  
Vol 143 ◽  
pp. 106429 ◽  
Author(s):  
Suizhi Luo ◽  
Weizhang Liang ◽  
Guoyan Zhao
Keyword(s):  
Site Selection ◽  
Tailings Pond ◽  
Selection Of
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