Literature DB >> 27116033

Transformation-associated recombination (TAR) cloning for genomics studies and synthetic biology.

Natalay Kouprina1, Vladimir Larionov2.   

Abstract

Transformation-associated recombination (TAR) cloning represents a unique tool for isolation and manipulation of large DNA molecules. The technique exploits a high level of homologous recombination in the yeast Sacharomyces cerevisiae. So far, TAR cloning is the only method available to selectively recover chromosomal segments up to 300 kb in length from complex and simple genomes. In addition, TAR cloning allows the assembly and cloning of entire microbe genomes up to several Mb as well as engineering of large metabolic pathways. In this review, we summarize applications of TAR cloning for functional/structural genomics and synthetic biology.

Entities:  

Keywords:  HAC; Human artificial chromosome; Synthetic biology; TAR cloning; Transformation-associated recombination

Mesh：

Year:  2016        PMID： 27116033      PMCID： PMC5025352          DOI： 10.1007/s00412-016-0588-3

Source DB:  PubMed          Journal:  Chromosoma        ISSN： 0009-5915            Impact factor:   4.316


  100 in total

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Review 4.  Recent advances in the heterologous expression of microbial natural product biosynthetic pathways.

Authors:  Sarah E Ongley; Xiaoying Bian; Brett A Neilan; Rolf Müller
Journal:  Nat Prod Rep       Date:  2013-07-05       Impact factor: 13.423

5.  Functional evidence for a metastasis suppressor gene for rat prostate cancer within a 60-kilobase region on human chromosome 8p21-p12.

Authors:  Naoki Nihei; Natalya Kouprina; Vladimir Larionov; Junko Oshima; George M Martin; Tomohiko Ichikawa; J Carl Barrett
Journal:  Cancer Res       Date:  2002-01-15       Impact factor: 12.701

6.  Replacement of chromosome segments with altered DNA sequences constructed in vitro.

Authors:  S Scherer; R W Davis
Journal:  Proc Natl Acad Sci U S A       Date:  1979-10       Impact factor: 11.205

7.  Mutational analysis of SPANX genes in families with X-linked prostate cancer.

Authors:  Natalay Kouprina; Vladimir N Noskov; Greg Solomon; John Otstot; William Isaacs; Jianfeng Xu; Johanna Schleutker; Vladimir Larionov
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8.  Functional analysis of environmental DNA-derived type II polyketide synthases reveals structurally diverse secondary metabolites.

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Journal:  Proc Natl Acad Sci U S A       Date:  2011-07-18       Impact factor: 11.205

Review 9.  Advances in high-capacity extrachromosomal vector technology: episomal maintenance, vector delivery, and transgene expression.

Authors:  Michele M P Lufino; Pauline A H Edser; Richard Wade-Martins
Journal:  Mol Ther       Date:  2008-07-15       Impact factor: 11.454

10.  DNA assembler, an in vivo genetic method for rapid construction of biochemical pathways.

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Journal:  Nucleic Acids Res       Date:  2008-12-12       Impact factor: 16.971
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  38 in total

1.  Atolypenes, Tricyclic Bacterial Sesterterpenes Discovered Using a Multiplexed In Vitro Cas9-TAR Gene Cluster Refactoring Approach.

Authors:  Seong-Hwan Kim; Wanli Lu; Mahmoud Kamal Ahmadi; Daniel Montiel; Melinda A Ternei; Sean F Brady
Journal:  ACS Synth Biol       Date:  2018-12-21       Impact factor: 5.110

Review 2.  Using human artificial chromosomes to study centromere assembly and function.

Authors:  Oscar Molina; Natalay Kouprina; Hiroshi Masumoto; Vladimir Larionov; William C Earnshaw
Journal:  Chromosoma       Date:  2017-07-07       Impact factor: 4.316

Review 3.  Heterologous expression-facilitated natural products' discovery in actinomycetes.

Authors:  Min Xu; Gerard D Wright
Journal:  J Ind Microbiol Biotechnol       Date:  2018-11-16       Impact factor: 3.346

4.  Selective isolation of large segments from individual microbial genomes and environmental DNA samples using transformation-associated recombination cloning in yeast.

Authors:  Natalay Kouprina; Vladimir N Noskov; Vladimir Larionov
Journal:  Nat Protoc       Date:  2020-01-31       Impact factor: 13.491

5.  Direct cloning and heterologous expression of natural product biosynthetic gene clusters by transformation-associated recombination.

Authors:  Jia Jia Zhang; Kazuya Yamanaka; Xiaoyu Tang; Bradley S Moore
Journal:  Methods Enzymol       Date:  2019-03-21       Impact factor: 1.600

Review 6.  Pluripotent stem cell-based gene therapy approach: human de novo synthesized chromosomes.

Authors:  Sergey A Sinenko; Sergey V Ponomartsev; Alexey N Tomilin
Journal:  Cell Mol Life Sci       Date:  2020-10-03       Impact factor: 9.261

7.  Refactoring the Cryptic Streptophenazine Biosynthetic Gene Cluster Unites Phenazine, Polyketide, and Nonribosomal Peptide Biochemistry.

Authors:  Katherine D Bauman; Jie Li; Kazuya Murata; Simone M Mantovani; Samira Dahesh; Victor Nizet; Hanna Luhavaya; Bradley S Moore
Journal:  Cell Chem Biol       Date:  2019-03-07       Impact factor: 8.116

8.  Replication and single-cycle delivery of SARS-CoV-2 replicons.

Authors:  Inna Ricardo-Lax; Joseph M Luna; Tran Thi Nhu Thao; Jérémie Le Pen; Yingpu Yu; H-Heinrich Hoffmann; William M Schneider; Brandon S Razooky; Javier Fernandez-Martinez; Fabian Schmidt; Yiska Weisblum; Bettina Salome Trüeb; Inês Berenguer Veiga; Kimberly Schmied; Nadine Ebert; Eleftherios Michailidis; Avery Peace; Francisco J Sánchez-Rivera; Scott W Lowe; Michael P Rout; Theodora Hatziioannou; Paul D Bieniasz; John T Poirier; Margaret R MacDonald; Volker Thiel; Charles M Rice
Journal:  Science       Date:  2021-10-14       Impact factor: 47.728

9.  CRAGE enables rapid activation of biosynthetic gene clusters in undomesticated bacteria.

Authors:  Gaoyan Wang; Zhiying Zhao; Jing Ke; Yvonne Engel; Yi-Ming Shi; David Robinson; Kerem Bingol; Zheyun Zhang; Benjamin Bowen; Katherine Louie; Bing Wang; Robert Evans; Yu Miyamoto; Kelly Cheng; Suzanne Kosina; Markus De Raad; Leslie Silva; Alicia Luhrs; Andrea Lubbe; David W Hoyt; Charles Francavilla; Hiroshi Otani; Samuel Deutsch; Nancy M Washton; Edward M Rubin; Nigel J Mouncey; Axel Visel; Trent Northen; Jan-Fang Cheng; Helge B Bode; Yasuo Yoshikuni
Journal:  Nat Microbiol       Date:  2019-10-14       Impact factor: 17.745

Review 10.  Heterologous production of cyanobacterial compounds.

Authors:  Dipesh Dhakal; Manyun Chen; Hendrik Luesch; Yousong Ding
Journal:  J Ind Microbiol Biotechnol       Date:  2021-06-04       Impact factor: 4.258
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