scholarly journals Conjugation-based genome engineering in Deinococcus radiodurans

2021 ◽  
Author(s):  
Stephanie L Brumwell ◽  
Katherine D Van Belois ◽  
Daniel J Giguere ◽  
David R Edgell ◽  
Bogumil J Karas
Keyword(s):  
Genome Engineering ◽  
Deinococcus Radiodurans ◽  
Industrial Applications ◽  
Gene Deletions ◽  
Modification System ◽  
E Coli ◽  
Restriction Modification System ◽  
Biological Studies ◽  
Resistance Markers ◽  
Restriction Modification

D. radiodurans has become an attractive microbial platform for the study of extremophile biology and industrial bioproduction. To improve the genomic manipulation and tractability of this species, the development of tools for whole genome engineering and design is necessary. Here, we report the development of a simple and robust conjugation-based transformation system from E. coli to D. radiodurans allowing for the introduction of stable, replicating plasmids expressing antibiotic resistance markers. Using this method with nonreplicating plasmids, we developed a protocol for creating sequential gene deletions in D. radiodurans by target-ing restriction-modification system genes. Importantly, we demonstrated a conjugation-based method for cloning the large (178 kb), high G+C content MP1 megaplasmid from D. radiodurans in E. coli. The conjugation-based tools described here will facili-tate the development of D. radiodurans strains with synthetic genomes for biological studies and industrial applications.

A novel plasmid-mediated DNA restriction-modification system in E. coli

Plasmid ◽  
1980 ◽  
Vol 4 (3) ◽  
pp. 350-351 ◽  
Author(s):  
L.I. Glatman ◽  
A.F. Moroz ◽  
M.B. Yablokova ◽  
B.A. Rebentish ◽  
G.V. Kc̵holmina
Keyword(s):  
Modification System ◽  
E Coli ◽  
Restriction Modification System ◽  
Dna Restriction ◽  
Restriction Modification

scholarly journals Evolutionary genome engineering using a restriction–modification system

2011 ◽  
Vol 39 (20) ◽  
pp. 9034-9046 ◽  
Author(s):  
Yoko Asakura ◽  
Hiroyuki Kojima ◽  
Ichizo Kobayashi
Keyword(s):  
Genome Engineering ◽  
Modification System ◽  
Restriction Modification System ◽  
Restriction Modification

Molecular cloning and expression of NlaIII restriction-modification system in E. coli

Gene ◽  
1996 ◽  
Vol 183 (1-2) ◽  
pp. 215-218 ◽  
Author(s):  
Richard D. Morgan ◽  
Russell R. Camp ◽  
Geoffrey G. Wilson ◽  
Shuang-yong Xu
Keyword(s):  
Molecular Cloning ◽  
Cloning And Expression ◽  
Modification System ◽  
E Coli ◽  
Restriction Modification System ◽  
Restriction Modification

scholarly journals Characterization of Plasmid pPO1 from the HyperacidophilePicrophilus oshimae

Archaea ◽  
2011 ◽  
Vol 2011 ◽  
pp. 1-4 ◽  
Author(s):  
Angel Angelov ◽  
Jörn Voss ◽  
Wolfgang Liebl
Keyword(s):  
Ph Optimum ◽  
Modification System ◽  
Moderately Thermophilic ◽  
E Coli ◽  
Restriction Modification System ◽  
Picrophilus Torridus ◽  
Transcriptional Start Sites ◽  
Native Host ◽  
Restriction Modification

Picrophilus oshimaeandPicrophilus torridusare free-living, moderately thermophilic and acidophilic organisms from the lineage ofEuryarchaeota. With a pH optimum of growth at pH 0.7 and the ability to even withstand molar concentrations of sulphuric acid, these organisms represent the most extreme acidophiles known. So far, nothing is known about plasmid biology in these hyperacidophiles. Also, there are no genetic tools available for this genus. We have mobilized the 7.6 Kbp plasmid fromP. oshimaeinE. coliby introducing origin-containing transposons and described the plasmid in terms of its nucleotide sequence, copy number in the native host, mode of replication, and transcriptional start sites of the encoded ORFs. Plasmid pPO1 may encode a restriction/modification system in addition to its replication functions. The information gained from the pPO1 plasmid may prove useful in developing a cloning system for this group of extreme acidophiles.

Cloning the KpnI restriction-modification system in Escherichia coli

Gene ◽  
1991 ◽  
Vol 97 (1) ◽  
pp. 97-102 ◽  
Author(s):  
Alan W. Hammond ◽  
Gary F. Gerard ◽  
Deb K. Chatterjee
Keyword(s):  
Escherichia Coli ◽  
Modification System ◽  
Restriction Modification System ◽  
Restriction Modification

scholarly journals A putative mobile genetic element carrying a novel type IIF restriction-modification system (PluTI)

2010 ◽  
Vol 38 (9) ◽  
pp. 3019-3030 ◽  
Author(s):  
Feroz Khan ◽  
Yoshikazu Furuta ◽  
Mikihiko Kawai ◽  
Katarzyna H. Kaminska ◽  
Ken Ishikawa ◽  
...  
Keyword(s):  
Mobile Genetic Element ◽  
Genetic Element ◽  
Modification System ◽  
Restriction Modification System ◽  
Restriction Modification

scholarly journals Complete Genome Sequence of Brevibacterium linens SMQ-1335

2016 ◽  
Vol 4 (6) ◽  
Author(s):  
Alessandra G. de Melo ◽  
Simon J. Labrie ◽  
Jeannot Dumaresq ◽  
Richard J. Roberts ◽  
Denise M. Tremblay ◽  
...  
Keyword(s):  
Complete Genome Sequence ◽  
Open Reading Frames ◽  
Type I ◽  
Industrial Strain ◽  
Modification System ◽  
Brevibacterium Linens ◽  
Restriction Modification System ◽  
New Type ◽  
Restriction Modification ◽  
Reading Frames

Brevibacterium linens is one of the main bacteria found in the smear of surface-ripened cheeses. The genome of the industrial strain SMQ-1335 was sequenced using PacBio. It has 4,209,935 bp, a 62.6% G+C content, 3,848 open reading frames, and 61 structural RNAs. A new type I restriction-modification system was identified.

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