Publication: Laborwelt
Recently published technical paper on possible modifications of E.coli strains,
written by Dr Tim Zepperfeld & Dr Harald Krantz of GeneBridges
Manipulation of the E.coli Chromosome for Optimizing Production Strains
Gene Bridges Publications
Ambrogio C, Stern P, Scuoppo C, Kranz H, Barbacid M and Santamaría D, 2014, Lentiviral-based approach for the validation of cancer therapeutic targets in vivo, BioTechniques, 57, 179
Vaisman A, McDonald JP, Noll S, Huston D, Loeb G, Goodmann MF and Woodgate R, 2014, Investigating the mechanisms of ribonucleotide excision repair in Escherichia coli, Mutation Res, 761, 21
Noll S, Reyelt J, Rysiok T, Kellner, R, Güssow D, Jäkel S, Hager S and Kranz H, 2013, Gezielte Optimierung von Escherichia coli BL21(DE3), Biospektrum, 19, 211
Hager S, Lösch S, Noll S, Khan-Vaughan L, Ehrlich ME and Kranz H, 2012, Red/ET recombination with chimeric oligonucleotides allows rapid generation of BAC transgene harboring full-length or truncated huntingtin cDNA, BioTechniques Rapid Dispatches, doi: 10.2144/000113908
Noll S, Hampp G, Bausbacher H, Pellegata NS and Kranz H, 2009, Site-directed mutagenesis of multi-copy-number plasmids: Red/ET recombination and unique restriction site elimination, BioTechniques, 46, 527
Braatsch S, Helmark S, Kranz H, Koebmann B and Jensen PR, 2008, Escherichia coli strains with promoter libraries constructed by Red/ET recombination pave the way for transcriptional fine-tuning, BioTechniques, 45, 335
Fu J, Wenzel SC, Perlova O, Wang J, Gross F, Tang Z, Yin Y, Stewart, AF, Müller R and Zhang Y, 2008, Efficient transfer of two large secondary metabolite pathway gene clusters into heterologous hosts by transposition, Nucleic Acids Research, 36, 17
Heermann R, Zeppenfeld T and Jung K, 2008, Simple generation of site-directed point mutations in the Escherichia coli chromosome using Red/ET Recombination, Microbial Cell Factories 7, 14
Lösch S, Braatsch S and Kranz H, 2007, Red/ET Recombination. λ vs. Mu: base-precise modification of the E. coli genome, BIOspektrum
Wang J, Sarov M, Rientjes J, Fu J, Hollak H, Kranz H, Xie W, Stewart AF and Zhang Y, 2006, An improved recombineering approach by adding RecA to lambda Red recombination, Mol Biotechnol, 32, 43
Zeppenfeld T and Kranz H, 2006, Manipulation des E. coli-Chromosoms zur Optimierung von Produktionsstämmen, Laborwelt, 5, 25
Zhang Y, Stevens G, Stewart AF, 2002, Ein neues Prinzip der DNA-Klonierung, LaborPraxis, 72
Citations
2013/2014: Strain modification & metabolic engineering approaches
Satoh et al., 2014, New gene responsible for para-aminobenzoate biosynthesis, J Bioscience and Bioeng, 117, 178
Jung et al., 2013, Removal of pathogenic factors from 2,3-butanediol-producing Klebsiella species by inactivating virulence-related wabG gene, Apppl Gen & Mol Biotech, 97, 1997
Wang et al., 2013, Engineering furfural tolerance in Escherichia coli improves the fermentation of lignocellulosic sugars into renewable chemicals, PNAS, 110, 4021
Pfander et al., 2013, Recombination-mediated genetic engineering of Plasmodium berghei DNA, Malaria, 923, 127
Howard et al., 2013, Synthesis of customized petroleum-replica fuel molecules by targeted modification of free fatty acid pools in Escherichia coli, PNAS, 110, 7636
Kim et al., 2013, Cloning and characterization of a putative UDP-rhamnose synthase 1 from Populus euramericana Guinier, J Plant Biol, 56, 7
Heinrich et al., 2013, From waste to plastic: Synthesis of pPpoly(3-Hydroxypropionate) in Shimwellia blattae, AEM, 79, 3582
Tan et al., 2013, Activating phosphoenolpyruvate carboxylase and phosphoenolpyruvate carboxykinase in combination for improving succinate production, AEM, doi: 10.1128/AEM.00826-13
Kim et al., 2013, Biosynthesis of bioactive O-methylated flavonoids in Escherichia coli, AMB, 97, 7195
Arbel-Goren et al., 2013, Effects of post-transcriptional regulation on phenotypic noise in Escherichia coli, Nucleic Acid Res, 41, 4825
Wang et al., 2013, Engineered heterologous FPP synthases-mediated Z,E-FPP synthesis in E. coli, Metabolic Eng, 18, 53
Kim et al., 2013, Production of hydroxycinnamoyl-shikimates and chlorogenic acid in Escherichia coli: production of hydroxycinnamic acid conjugates, Microbiol Cell Factories, 12, 15
Xiao et al., 2013, Engineering Escherichia coli to convert acetic acid to free fatty acids, Biochem Engineering J, 76, 60
Cimini et al., 2013, Homologous overexpression of rfaH in E. coli K4 improves the production of chondroitin-like capsular polysaccharide, Microbial Cell Factories, 12, 46
2013/2014: Other approaches
Fried et al., 2013, Identification of a target gene and activating Stimulus for the YpdA/YpdB histidine kinase/response regulator system in Escherichia coli, J Bacteriol, 195, 807
Sivakamasundari et al., 2013, Pax1EGFP: New wildtype and mutant EGFP mouse lines for molecular and fate mapping studies, Genesis, 51, 420
Huong et al., 2013, In vivo analysis of aicda gene regulation: A critical balance between upstream enhancers and intronic silencers governs appropriate expression, PlosOne 8, e61433
Katsumata et al., 2013, Bioluminescence imaging of β cells and intrahepatic insulin gene activity under normal and pathological conditions, PlosOne, 8, e60411
Miyazaki et al., 2013, Galnt3 deficiency disrupts acrosome formation and leads to oligoasthenoteratozoospermia, Histochem & Cell Biol, 139, 339
Zhou et al., 2013, An essential function for the ATR-Activation-Domain (AAD) of TopBP1 in mouse development and cellular senescence, PlosGeneteics, 9, e1003702
Spatz et al., 2013, Expression of chicken parvovirus VP2 in chicken embryo fibroblasts requires codon optimization for production of naked DNA and vectored meleagrid herpesvirus type 1 vaccines, Virus Genes, 47, 259
Webber et al., 2013, The relationship between long-range chromatin occupancy and polymerization of the Drosophila ETS family transcriptional repressor Yan, Genetics, 193, 633
Sugimoto et al., 2013, Generation and characterization of ScxCre transgenic mice, Genesis, 51, 275
Nagase et al., 2013, Deiodinase 2 upregulation demonstrated in osteoarthritis patients cartilage causes cartilage destruction in tissue-specific transgenic rats, Osteoarthritis and Cartilage, 21, 514
Thomas et al., 2013, Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state, Genes&Dev, 27, 390
Schraml et al., 2013, Genetic tracing via DNGR-1 expression history defines dendritic cells as a hematopoietic lineage, Cell, 154, 843
Tanaka et al., 2013, Astrocytic Ca2 signals are required for the functional integrity of tripartite synapses, Molecular Brain, 6, 6
Akieda-Asai et al., 2013, Involvement of guanylin and GC-C in rat mesenteric macrophages in resistance to a high-fat diet, J Lip Res, 54, 85
Charleswort, 2013, Plant sex chromosome evolution, J Experi Botany, 64, 405
Chien et al., 2013, Misregulated progesterone secretion and impaired pregnancy in Cyp11a1 transgenic mice, Biol of Reproduction, doi:10.1095/biolreprod.113.110833
Manu et al., 2013, Sex-specific pattern formation during early Drosophila development, Genetics, 194, 163
Ogiwara et al., 2013, Nav1.1 haploinsufficiency in excitatory neurons ameliorates seizure-associated sudden death in a mouse model of Dravet syndrome, Hum Mol Genetics, 22, 4784
Sato et al., 2013, Fluoroquinolone resistance mechanisms in an Escherichia coli isolate, HUE1, without quinolone resistance-determining region mutations, Front Microbiol, 4, 125
Tanaka et al., 2013, Epigenetic Thpok silencing limits the time window to choose CD4 helper-lineage fate in the thymus, EMBO J, 32, 1183
Wang et al., 2013, A molecular genetic approach to uncovering the differential functions of dopamine D2 receptor isoforms, Dopamine: Methods in Mol Biol, 964
Fukuzawa et al., 2013, SGLT5 reabsorbs fructose in the kidney but its deficiency paradoxically exacerbates hepatic steatosis induced by fructose, PlosOne, 8, e56681
Morales et al., 2013, Utx is required for proper induction of ectoderm and mesoderm during differentiation of embryonic stem cells, PlosOne, 8, e60020
Murata et al., 2013, Contribution of myocyte enhancer factor 2 family transcription factors to BZLF1 expression in Epstein-Barr virus reactivation from latency, J Virology, 87, 10148
Liu et al., 2013, Direct and indirect roles of Fgf3 and Fgf10 in innervation and vascularisation of the vertebrate hypothalamic neurohypophysis, Development, 140, 1111
Klose et al., 2013, Fosmid-based structure-function analysis reveals functionally distinct domains in the cytoplasmic domain of Drosophila crumbs, G3, 3, 153
Delenda et al., 2013, Bio-applications derived from site-directed genome modification technologies, site-directed insertion of transgenes, Topics in Current Genetics, 23
Koayashi et al., 2013, Genetic dissection of medial habenula–interpeduncular nucleus pathway function in mice, Frot Behav Neurosci, 7, 17
Matkovic et al., 2013, The Bruchpilot cytomatrix determines the size of the readily releasable pool of synaptic vesicles, JCB, 202, 667
Hu et al., 2013, VirD: A virion display array for profiling functional membrane proteins, Anal Chem, 85, 8046
Older
Wang et al., 2006, An improved recombineering approach by adding RecA to lambda Red recombination, Mol Biotechnol, 32, 43
Wenzel et al., 2005, Heterologous expression of a myxobacterial natural products assembly line in pseudomonads via red/ET recombineering, Chem Biol, 12, 349
Glaser et al., 2005, Current issues in mouse genome engineering, Nat Genet, 37, 1187
Vetcher et al., 2005 Rapid engineering of the geldanamycin biosynthesis pathway by Red/ET recombination and gene complementation, Appl Environ Microbiol, 71, 1829
Ikeya et al., 2005, Gene disruption/knock-in analysis of mONT3: Vector construction by employing both in vivo and in vitro recombinations, Int J Dev Biol, 49, 807
Testa et al., 2004, A reliable lacZ expression reporter cassette for multipurpose, knockout-first alleles. Genesis, 38, 151
Testa et al., 2003, Engineering the mouse genome with bacterial artificial chromosomes to create multipurpose alleles. Nat Biotechnol, 21, 443
Zhang et al., 2003, Phage annealing proteins promote oligonucleotide-directed mutagenesis in Escherichia coli and mouse ES cells, BMC Mol Biol, 4, 1
Muyrers et al., 2002, Introducing Red/ET recombination: DNA engineering for the 21st Century, Gene Cloning & Expression Technologies, Biotechniques
Shimshek et al., 2002, Codon-Improved Cre recombinase (iCre) expression in the mouse, Genesis 32, 19
Voziyanov et al., 2002, A dual reporter screening system identifies the amino acid at position 82 in Flp site-specific recombinase as a determinant for target specificity, Nucleic Acids Res, 30, 1656
Muyrers et al., 2001, Recombinogenic engineering: New options for manipulating DNA Trends in Biochemical Sciences, 26, 325
Schaft et al., 2001, Efficient FLP recombination in mouse ES cells and oocytes, Genesis, 31, 6
Buchholz et al., 2001, LoxP-directed cloning: Use of Cre recombinase as a universal restriction enzyme, Biotechniques, 31, 906
Muyrers et al., 2000, ET cloning: Think recombination first, Genetic Engineering, Principles and Methods, 22, 77
Muyrers et al., 2000, Point mutation of bacterial artificial chromosomes by ET recombination, EMBO Reports, 1, 239
Hill et al., 2000, BAC trimming minimizing clone overlaps, Genomics, 64, 111
Muyrers et al., 2000, RecE/RecT and Reda/Redb initiate double stranded break repair by specifically interacting with their respective partners, Genes and Development, 14, 1971
Zhang, et al., 2000, DNA cloning by homologous recombination in Escherichia coli, Nature Biotechnology 18, 1314
Rodriguez et al., 2000, High-efficiency deleter mice show that FLPe is an alternative to Cre-loxP, Nat Genet. 25, 139
Testa et al., 2000, Creating a transloxation: Interchromosomal translocations in mice, EMBO Reports, 1, 120
Muyrers et al., 1999, Rapid modification of Bacterial Artificial Chromosomes by ET-recombination, Nucleic Acids Res, 27, 1555
Angrand et al., 1999, Simplified generation of targeting constructs using ET recombination, Nucleic Acids Res, 27, e16
Narayanan et al., 1999, Efficient and precise engineering of a 200 kb beta-globin human/bacterial artificial chromosome in E. coli DH10B using an inducible homologous recombination system, Gene Ther, 6, 442
Ringrose et al., 1999, Quantitative comparison of DNA looping in vitro and in vivo: Chromatin increases effective DNA flexibility at short distances, EMBO J, 23, 6630
Zhang et al., 1998, A new logic for DNA engineering using recombination in E. coli, Nature Genetics, 20, 123
Schwenk et al., 1998, Temporally and spatially regulated somatic mutagenesis in mice, Nucleic Acids Res, 26, 1427
Angrand et al., 1998, Inducible transgene expression based on regulated recombination, Nucleic Acids Res, 26, 3263
Ringrose et al., 1998, Comparative kinetic analysis of Flp and Cre recombinases: Mathematical models for DNA binding and recombination, J Mol Biol, 284, 363
Ringrose et al., 1997, The Kw recombinase, an integrase from Kluyveromyces waltii, Eur J Biochem, 248, 903
Buchholz et al., 1996, A simple assay to verify the functionality of Cre and FLP recombination targets in genomic manipulation constructs, Nucleic Acids Res, 24, 3118
Buchholz et al., 1996, Different thermostabilities of FLP and Cre recombinases: Implications for applied site specific recombination, Nucleic Acids Res, 24, 4256
Logie et al., 1995, Ligand-regulated site-specific recombination, PNAS, 92, 5940
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