scholarly journals Cognate base‐pair selectivity of hydrophobic unnatural bases in DNA ligation by T4 DNA ligase

Biopolymers ◽  
2020 ◽  
Author(s):  
Michiko Kimoto ◽  
Si Hui Gabriella Soh ◽  
Hui Pen Tan ◽  
Itaru Okamoto ◽  
Ichiro Hirao
Keyword(s):  
Base Pair ◽  
Dna Ligase ◽  
T4 Dna Ligase ◽  
Dna Ligation

Joining of Short DNA Oligonucleotides with Base Pair Mismatches by T4 DNA Ligase

2001 ◽  
Vol 129 (1) ◽  
pp. 61-68 ◽  
Author(s):  
A. Cherepanov ◽  
E. l Yildirim ◽  
S. de Vries
Keyword(s):  
Base Pair ◽  
Dna Ligase ◽  
T4 Dna Ligase ◽  
Dna Oligonucleotides

scholarly journals Plant Enzymes but Not AgrobacteriumVirD2 Mediate T-DNA Ligation In Vitro

2000 ◽  
Vol 20 (17) ◽  
pp. 6317-6322 ◽  
Author(s):  
Alicja Ziemienowicz ◽  
Bruno Tinland ◽  
John Bryant ◽  
Veronique Gloeckler ◽  
Barbara Hohn
Keyword(s):  
Plant Extracts ◽  
Test System ◽  
Dna Ligase ◽  
Target Sequence ◽  
T4 Dna Ligase ◽  
Dna Ligases ◽  
Dna Ligation ◽  
Plant Enzymes ◽  
Assay Conditions

ABSTRACT Agrobacterium tumefaciens, a gram-negative soil bacterium, transfers DNA to many plant species. In the plant cell, the transferred DNA (T-DNA) is integrated into the genome. An in vitro ligation-integration assay has been designed to investigate the mechanism of T-DNA ligation and the factors involved in this process. The VirD2 protein, which is produced in Agrobacterium and is covalently attached to T-DNA, did not, under our assay conditions, ligate T-DNA to a model target sequence in vitro. We tested whether plant extracts could ligate T-DNA to target oligonucleotides in our test system. The in vitro ligation-integration reaction did indeed take place in the presence of plant extracts. This reaction was inhibited by dTTP, indicating involvement of a plant DNA ligase. We found that prokaryotic DNA ligases could substitute for plant extracts in this reaction. Ligation of the VirD2-bound oligonucleotide to the target sequence mediated by T4 DNA ligase was less efficient than ligation of a free oligonucleotide to the target. T-DNA ligation mediated by a plant enzyme(s) or T4 DNA ligase requires ATP.

scholarly journals T4 DNA ligase structure reveals a prototypical ATP-dependent ligase with a unique mode of sliding clamp interaction

2018 ◽  
Vol 46 (19) ◽  
pp. 10474-10488 ◽  
Author(s):  
Ke Shi ◽  
Thomas E Bohl ◽  
Jeonghyun Park ◽  
Andrew Zasada ◽  
Shray Malik ◽  
...  
Keyword(s):  
Dna Ligase ◽  
T4 Dna Ligase ◽  
Sliding Clamp ◽  
Unique Mode

scholarly journals Efficient DNA ligation in DNA–RNA hybrid helices by Chlorella virus DNA ligase

2013 ◽  
Vol 42 (3) ◽  
pp. 1831-1844 ◽  
Author(s):  
Gregory J. S. Lohman ◽  
Yinhua Zhang ◽  
Alexander M. Zhelkovsky ◽  
Eric J. Cantor ◽  
Thomas C. Evans
Keyword(s):  
Dna Ligase ◽  
Chlorella Virus ◽  
Dna Ligation

scholarly journals Comprehensive Profiling of Four Base Overhang Ligation Fidelity by T4 DNA Ligase and Application to DNA Assembly

2018 ◽  
Vol 7 (11) ◽  
pp. 2665-2674 ◽  
Author(s):  
Vladimir Potapov ◽  
Jennifer L. Ong ◽  
Rebecca B. Kucera ◽  
Bradley W. Langhorst ◽  
Katharina Bilotti ◽  
...  
Keyword(s):  
Dna Ligase ◽  
Dna Assembly ◽  
T4 Dna Ligase

scholarly journals DNA ligation in relation to DNA strand breaks in phytohemagglutinin- stimulated blast cells from acute lymphoblastic and nonlymphoblastic leukemia

Blood ◽  
1988 ◽  
Vol 72 (2) ◽  
pp. 648-654 ◽  
Author(s):  
SA Feon ◽  
RM Valerius ◽  
NM Genetet ◽  
I Bernard-Griffiths ◽  
PY Le Prise ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Lymphoblastic Leukemia ◽  
Dna Ligase ◽  
Dna Breaks ◽  
Alkaline Elution ◽  
Exogenous Dna ◽  
Strand Breaks ◽  
Dna Ligation ◽  
Blast Cells ◽  
Dna Strand

DNA ligase activity was determined in the WBCs from 306 cases of acute lymphoblastic leukemia (ALL) and acute nonlymphocytic leukemia (ANLL). In T-ALL cells this activity was either low or absent. DNA analysis by nucleoid, alkaline elution, and alkaline sucrose centrifugation after cells were embedded in agarose inserts has shown more DNA breaks in T- ALL than in ANLL blasts. Phytohemagglutinin stimulation of T-ALL blasts resulted in the apparent joining of the DNA breaks. Apparent identical results can be obtained by the incubation of DNA with exogenous DNA ligase. The authors suggest that this enzyme is a crucially regulated step of replication and subsequent proliferation in this type of leukemia.

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