DNA Mismatch-repair in Escherichia Coli Counteracting the Hydrolytic Deamination of 5-methyl-cytosine Residues

Overview

Journal EMBO J

Specialties Biotechnology
Molecular Biology

Date 1987 Jun 1

PMID 3038536

Citations 79

Authors

R Zell

H J Fritz

Affiliations

Soon will be listed here.

Abstract

Derivatives of phage M13 were constructed and used for the in vitro preparation of heteroduplex DNA molecules containing base/base mismatches that mimick DNA lesions caused by hydrolytic deamination of 5-meC residues in Escherichia coli DNA (i.e. they carry a T/G mismatch in the special sequence context provided by the recognition site -CCA/TGG-of the Dcm-methyltransferase). Upon introduction of these heteroduplex DNAs into CaCl2-treated E. coli cells, the mismatches are efficiently repaired with high bias in favour of the DNA strand containing the mismatched guanine residue. This special DNA mismatch-repair operates on fully dam-methylated DNA and is independent of gene mutH. It thus fulfills the salient requirements of a repair pathway responsible for counteracting the spontaneous hydrolytic deamination of 5-meC in vivo. The repair efficiency is boosted by a 5-methyl group present on the cytosine residue at the next-nearest position to the 5' side of the mismatched guanine. The repair is severely impaired in host strains carrying a mutation in any of the three loci dcm, mutL and mutS.

Citing Articles

Structural basis of antimicrobial membrane coat assembly by human GBP1.

Kuhm T, Taisne C, de Agrela Pinto C, Gross L, Giannopoulou E, Huber S Nat Struct Mol Biol. 2024; 32(1):172-184.

PMID: 39394410 PMC: 11746146. DOI: 10.1038/s41594-024-01400-9.

Filament structure and subcellular organization of the bacterial intermediate filament-like protein crescentin.

Liu Y, van den Ent F, Lowe J Proc Natl Acad Sci U S A. 2024; 121(7):e2309984121.

PMID: 38324567 PMC: 10873595. DOI: 10.1073/pnas.2309984121.

Structure, mechanism, and inhibition of Hedgehog acyltransferase.

Coupland C, Andrei S, Ansell T, Carrique L, Kumar P, Sefer L Mol Cell. 2021; 81(24):5025-5038.e10.

PMID: 34890564 PMC: 8693861. DOI: 10.1016/j.molcel.2021.11.018.

Dynamics of Adaptation During Three Years of Evolution Under Long-Term Stationary Phase.

Katz S, Avrani S, Yavneh M, Hilau S, Gross J, Hershberg R Mol Biol Evol. 2021; 38(7):2778-2790.

PMID: 33734381 PMC: 8233507. DOI: 10.1093/molbev/msab067.

Megabodies expand the nanobody toolkit for protein structure determination by single-particle cryo-EM.

Uchanski T, Masiulis S, Fischer B, Kalichuk V, Lopez-Sanchez U, Zarkadas E Nat Methods. 2021; 18(1):60-68.

PMID: 33408403 PMC: 7611088. DOI: 10.1038/s41592-020-01001-6.

References

Claverys J, Lacks S . Heteroduplex deoxyribonucleic acid base mismatch repair in bacteria. Microbiol Rev. 1986; 50(2):133-65. PMC: 373061. DOI: 10.1128/mr.50.2.133-165.1986. View

Dohet C, Wagner R, Radman M . Repair of defined single base-pair mismatches in Escherichia coli. Proc Natl Acad Sci U S A. 1985; 82(2):503-5. PMC: 397067. DOI: 10.1073/pnas.82.2.503. View

Kramer B, Kramer W, Fritz H . Different base/base mismatches are corrected with different efficiencies by the methyl-directed DNA mismatch-repair system of E. coli. Cell. 1984; 38(3):879-87. DOI: 10.1016/0092-8674(84)90283-6. View

Su S, Modrich P . Escherichia coli mutS-encoded protein binds to mismatched DNA base pairs. Proc Natl Acad Sci U S A. 1986; 83(14):5057-61. PMC: 323889. DOI: 10.1073/pnas.83.14.5057. View

Messing J, Vieira J . A new pair of M13 vectors for selecting either DNA strand of double-digest restriction fragments. Gene. 1982; 19(3):269-76. DOI: 10.1016/0378-1119(82)90016-6. View

Wagner Jr R, Meselson M . Repair tracts in mismatched DNA heteroduplexes. Proc Natl Acad Sci U S A. 1976; 73(11):4135-9. PMC: 431357. DOI: 10.1073/pnas.73.11.4135. View

Coulondre C, Miller J, Farabaugh P, Gilbert W . Molecular basis of base substitution hotspots in Escherichia coli. Nature. 1978; 274(5673):775-80. DOI: 10.1038/274775a0. View

Kramer W, Drutsa V, Jansen H, Kramer B, PFLUGFELDER M, Fritz H . The gapped duplex DNA approach to oligonucleotide-directed mutation construction. Nucleic Acids Res. 1984; 12(24):9441-56. PMC: 320472. DOI: 10.1093/nar/12.24.9441. View

Lieb M . Specific mismatch correction in bacteriophage lambda crosses by very short patch repair. Mol Gen Genet. 1983; 191(1):118-25. DOI: 10.1007/BF00330898. View

10.

Pukkila P, Peterson J, Herman G, Modrich P, Meselson M . Effects of high levels of DNA adenine methylation on methyl-directed mismatch repair in Escherichia coli. Genetics. 1983; 104(4):571-82. PMC: 1202127. DOI: 10.1093/genetics/104.4.571. View

11.

Lieb M . Recombination in the lambda repressor gene: evidence that very short patch (VSP) mismatch correction restores a specific sequence. Mol Gen Genet. 1985; 199(3):465-70. DOI: 10.1007/BF00330759. View

12.

Kalnins A, Otto K, Ruther U, Muller-Hill B . Sequence of the lacZ gene of Escherichia coli. EMBO J. 1983; 2(4):593-7. PMC: 555066. DOI: 10.1002/j.1460-2075.1983.tb01468.x. View

13.

Langley K, Villarejo M, Fowler A, Zamenhof P, Zabin I . Molecular basis of beta-galactosidase alpha-complementation. Proc Natl Acad Sci U S A. 1975; 72(4):1254-7. PMC: 432510. DOI: 10.1073/pnas.72.4.1254. View

14.

Duncan B, Miller J . Mutagenic deamination of cytosine residues in DNA. Nature. 1980; 287(5782):560-1. DOI: 10.1038/287560a0. View

15.

Fazakerley G, Quignard E, Woisard A, GUSCHLBAUER W, van der Marel G, VAN Boom J . Structures of mismatched base pairs in DNA and their recognition by the Escherichia coli mismatch repair system. EMBO J. 1986; 5(13):3697-703. PMC: 1167413. DOI: 10.1002/j.1460-2075.1986.tb04702.x. View