Understanding Rapid Transmitting, Invasive, Corona Pandemics through (Aair), (IS::Tn::IS), Crispr/Cas-9 DNA Editing

Mapping Intimacies ◽

10.47363/jvrr/2020(1)103 ◽

2020 ◽

pp. 1-8

Author(s):

Nitosh Kumar Brahma ◽

Keyword(s):

Escherichia Coli ◽

Dna Sequences ◽

Immune Surveillance ◽

Illegitimate Recombination ◽

Spike Protein ◽

Sequence Length ◽

Base Pairs ◽

Healthy Life ◽

Short Palindromic Repeat ◽

Dna Editing

Antiadherent Immune Response (AAIR) against serotype 026: EPEC (Enteropathogenic (invasive) Escherichia coli) a fatal diarrhoea causing E.coli was successful in Balb/c mice experiment by the author. IS(Insertion Sequence) represented by IS1, IS2, IS3,-..IS10 flanking transposons (Tn) “IS::Tn::IS” and its illegitimate recombination was also studied curiously by the author to observe their spontaneous jumping, illegitimate recombination activities among DNA, chromosome and plasmids in Escherichia coli. Considering the fatality rate of corona as pandemic globally, the author has attempted to realise the possible application of AAIR, IS::Tn::IS and Crispr/Cas-9 in designing vaccine against corona, to prevent corona virus not to adhere in trachea and lung cells, to repair and to bring healthy life to mankind. is-Tn-is was observed/studied/discovered in Maize by Barbara Mc Clintock, USA, Peter Starlinger and Heinz Saedler, Germany studied the same in bacteria. Due to spontaneous mutations in corona, it is speculated by the author, that “IS::Tn::IS” DNA sequences might be present in corona, to mutate and to change the adhering, invasive and infective spike protein. The presence of IS-Tn-IS sequence have not been studied in SARS-COV-2, COVID-19, and corona. The sequence length, varied from IS1 (0.8kb) to IS10, (1.2 kb) (kilo base pairs) showed the potentiality spontaneous to do illegitimate recombination. If any of the sequence IS1, IS2, IS3…IS10 found common among HIV, MERS, SARS, Influenza, and H1N1 viruses, it could be useful to develop AAIR. Both AAIR vaccine concept and recent revolution in DNA editing, Crispr/cas-9(Clustered, Repeat Interspaced Short Palindromic Repeat), / (Crispr-associated protein-9) both could essentially be used, bidirectional in corona vaccine to protect pandemics and their repeats in future. The IR mechanisms which is proposed, that IS::Tn::IS cloned spike pathogenic DNA as involved in AAIR monoclonal antibody will block the adherence of corona spikes and Crispr/cas-9 will repair, the transmitted, invasive corona, in human body by programmable DNA of non-pathogenic influenza virus. The author describes few of those possible mechanisms of Is:: spike protein and Crispr based transposons to mobilize IR vaccine against corona, considering the nanostructures of corona and the use of it huge surface area in immune surveillance.

Download Full-text

Cloning of promoter-like sequences from Lactobacillus paracasei subsp. paracasei CG11 and their expression in Escherichia coli, Lactococcus lactis, and Lactobacillus reuteri

Canadian Journal of Microbiology ◽

10.1139/m94-165 ◽

1994 ◽

Vol 40 (12) ◽

pp. 1043-1050 ◽

Cited By ~ 17

Author(s):

Gordana Djordjevic ◽

Bojana Bojovic ◽

Ana Banina ◽

Ljubisa Topisirovic

Keyword(s):

Escherichia Coli ◽

Lactococcus Lactis ◽

Dna Sequences ◽

Lactobacillus Reuteri ◽

Lactobacillus Paracasei ◽

Translational Efficiency ◽

Broad Host Range ◽

Chromosomal Dna ◽

Base Pairs ◽

E Coli

Fragments of chromosomal DNA from Lactobacillus paracasei subsp. paracasei CG11 (formerly Lactobacillus casei CG11) capable of functioning as promoters were isolated using the broad host range, promoter-probe vector pGKV210. Five such fragments designated P61, P79, P80, P116, and P144 were completely sequenced and analyzed. Fragment P61 had the highest transcriptional efficiency in Escherichia coli and Lactobacillus reuteri whereas P80 was the most active in Lactococcus lactis. In general, the orders of the transcriptional strengths were almost identical in E. coli and Lactobacillus reuteri but different from that in Lactococcus lactis. Mapping of the 5′ end of cat mRNA showed that different regions of fragments P79 and P144 were used as promoters in Lactococcus lactis than in E. coli and Lactobacillus reuteri. Analysis of these DNA sequences revealed that the putative −35 and −10 hexanucleotides resembled those of E. coli, Bacillus subtilis, and lactococci. The spacing between these two hexanucleotides and between the putative −10 hexanucleotide and the transcriptional start point (A residues predominated) ranged from 17 to 18 base pairs and from 5 to 7 base pairs, respectively. Each of the cloned Lactobacillus paracasei CG11 promoter-like fragments contained an AT-rich sequence upstream of the putative −35 region (from 60 to 73%).Key words: Lactobacillus, promoter-like sequences, transcriptional efficiency, translational efficiency.

Download Full-text

Characterization and in Vivo Cloning of prlC, a Suppressor of Signal Sequence Mutations in Escherichia coli K12

Genetics ◽

10.1093/genetics/116.4.513 ◽

1987 ◽

Vol 116 (4) ◽

pp. 513-521

Author(s):

Nancy J Trun ◽

Thomas J Silhavy

Keyword(s):

Escherichia Coli ◽

Genetic Mapping ◽

Signal Sequence ◽

Illegitimate Recombination ◽

Mutant Phenotype ◽

E Coli ◽

Physical Location ◽

Sequence Deletion ◽

New Alleles

ABSTRACT The prlC gene of E. coli was originally identified as an allele, prlC1, which suppresses certain signal sequence mutations in the genes for several exported proteins. We have isolated six new alleles of prlC that also confer this phenotype. These mutations can be placed into three classes based on the degree to which they suppress the lamBsignal sequence deletion, lamBs78. Genetic mapping reveals that the physical location of the mutations in prlC correlates with the strength of the suppression, suggesting that different regions of the gene can be altered to yield a suppressor phenotype. We also describe an in vivo cloning procedure using λplacMu9H. The procedure relies on transposition and illegitimate recombination to generate a specialized transducing phage that carries prlC1. This method should be applicable to any gene for which there is a mutant phenotype.

Download Full-text

Developing a Genetic System in Deinococcus radiodurans for Analyzing Mutations

Genetics ◽

10.1093/genetics/166.2.661 ◽

2004 ◽

Vol 166 (2) ◽

pp. 661-668

Author(s):

Mandy Kim ◽

Erika Wolff ◽

Tiffany Huang ◽

Lilit Garibyan ◽

Ashlee M Earl ◽

...

Keyword(s):

Dna Sequences ◽

Deinococcus Radiodurans ◽

Genetic System ◽

Base Change ◽

Base Substitution ◽

Wild Type ◽

Base Pairs ◽

E Coli ◽

Radiation Induced ◽

Induced Mutagenesis

Abstract We have applied a genetic system for analyzing mutations in Escherichia coli to Deinococcus radiodurans, an extremeophile with an astonishingly high resistance to UV- and ionizing-radiation-induced mutagenesis. Taking advantage of the conservation of the β-subunit of RNA polymerase among most prokaryotes, we derived again in D. radiodurans the rpoB/Rif r system that we developed in E. coli to monitor base substitutions, defining 33 base change substitutions at 22 different base pairs. We sequenced >250 mutations leading to Rif r in D. radiodurans derived spontaneously in wild-type and uvrD (mismatch-repair-deficient) backgrounds and after treatment with N-methyl-N′-nitro-N-nitrosoguanidine (NTG) and 5-azacytidine (5AZ). The specificities of NTG and 5AZ in D. radiodurans are the same as those found for E. coli and other organisms. There are prominent base substitution hotspots in rpoB in both D. radiodurans and E. coli. In several cases these are at different points in each organism, even though the DNA sequences surrounding the hotspots and their corresponding sites are very similar in both D. radiodurans and E. coli. In one case the hotspots occur at the same site in both organisms.

Download Full-text

Deletion between directly repeated DNA sequences measured in extracts of bacteriophage T7-infected Escherichia coli.

Journal of Biological Chemistry ◽

10.1016/s0021-9258(18)53016-7 ◽

1993 ◽

Vol 268 (11) ◽

pp. 7721-7727

Author(s):

D. Kong ◽

W. Masker

Keyword(s):

Escherichia Coli ◽

Dna Sequences ◽

Bacteriophage T7 ◽

Repeated Dna ◽

Repeated Dna Sequences

Download Full-text

Escherichia coli MutM Suppresses Illegitimate Recombination Induced by Oxidative Stress

Genetics ◽

10.1093/genetics/151.2.439 ◽

1999 ◽

Vol 151 (2) ◽

pp. 439-446 ◽

Cited By ~ 2

Author(s):

Masaaki Onda ◽

Katsuhiro Hanada ◽

Hirokazu Kawachi ◽

Hideo Ikeda

Keyword(s):

Oxidative Stress ◽

Escherichia Coli ◽

Hydrogen Peroxide ◽

Dna Damage ◽

Double Strand Breaks ◽

Illegitimate Recombination ◽

Recombination Analysis ◽

Wild Type ◽

Strand Breaks ◽

In The Wild

Abstract DNA damage by oxidative stress is one of the causes of mutagenesis. However, whether or not DNA damage induces illegitimate recombination has not been determined. To study the effect of oxidative stress on illegitimate recombination, we examined the frequency of λbio transducing phage in the presence of hydrogen peroxide and found that this reagent enhances illegitimate recombination. To clarify the types of illegitimate recombination, we examined the effect of mutations in mutM and related genes on the process. The frequency of λbio transducing phage was 5- to 12-fold higher in the mutM mutant than in the wild type, while the frequency in the mutY and mutT mutants was comparable to that of the wild type. Because 7,8-dihydro-8-oxoguanine (8-oxoG) and formamido pyrimidine (Fapy) lesions can be removed from DNA by MutM protein, these lesions are thought to induce illegitimate recombination. Analysis of recombination junctions showed that the recombination at Hotspot I accounts for 22 or 4% of total λbio transducing phages in the wild type or in the mutM mutant, respectively. The preferential increase of recombination at nonhotspot sites with hydrogen peroxide in the mutM mutant was discussed on the basis of a new model, in which 8-oxoG and/or Fapy residues may introduce double-strand breaks into DNA.

Download Full-text

THE DNA OF CAENORHABDITIS ELEGANS

Genetics ◽

10.1093/genetics/77.1.95 ◽

1974 ◽

Vol 77 (1) ◽

pp. 95-104

Author(s):

J E Sulston ◽

S Brenner

Keyword(s):

Caenorhabditis Elegans ◽

Chemical Analysis ◽

Dna Sequences ◽

Base Composition ◽

Nematode Caenorhabditis Elegans ◽

5S Rna ◽

Base Pairs ◽

Small Component ◽

E Coli ◽

The Mean

ABSTRACT Chemical analysis and a study of renaturation kinetics show that the nematode, Caenorhabditis elegans, has a haploid DNA content of 8 x IO7 base pairs (20 times the genome of E. coli). Eighty-three percent of the DNA sequences are unique. The mean base composition is 36% GC; a small component, containing the rRNA cistrons, has a base composition of 51% GC. The haploid genome contains about 300 genes for 4s RNA, 110 for 5s RNA, and 55 for (18 + 28)S RNA.

Download Full-text