Quantifying the Information Content of Homing Endonuclease Target Sites by Single Base Pair Profiling

2014 ◽  
pp. 135-149 ◽  
Author(s):  
Joshua I. Friedman ◽  
Hui Li ◽  
Raymond J. Monnat
Keyword(s):  
Information Content ◽  
Base Pair ◽  
Homing Endonuclease ◽  
Single Base ◽  
Target Sites ◽  
Single Base Pair

scholarly journals Overexpression of the MtrC-MtrD-MtrE Efflux Pump Due to an mtrR Mutation Is Required for Chromosomally Mediated Penicillin Resistance in Neisseria gonorrhoeae

2002 ◽  
Vol 184 (20) ◽  
pp. 5619-5624 ◽  
Author(s):  
Wendy L. Veal ◽  
Robert A. Nicholas ◽  
William M. Shafer
Keyword(s):  
Neisseria Gonorrhoeae ◽  
Base Pair ◽  
Efflux Pump ◽  
Penicillin Resistance ◽  
Single Base ◽  
Base Pair Deletion ◽  
Resistance To Penicillin ◽  
Single Base Pair ◽  
High Level ◽  
Level Resistance

ABSTRACT The importance of the mtrCDE-encoded efflux pump in conferring chromosomally mediated penicillin resistance on certain strains of Neisseria gonorrhoeae was determined by using genetic derivatives of penicillin-sensitive strain FA19 bearing defined mutations (mtrR, penA, and penB) donated by a clinical isolate (FA6140) expressing high-level resistance to penicillin and antimicrobial hydrophobic agents (HAs). When introduced into strain FA19 by transformation, a single base pair deletion in the mtrR promoter sequence from strain FA6140 was sufficient to provide high-level resistance to HAs (e.g., erythromycin and Triton X-100) but only a twofold increase in resistance to penicillin. When subsequent mutations in penA and porIB were introduced from strain FA6140 into strain WV30 (FA19 mtrR) by transformation, resistance to penicillin increased incrementally up to a MIC of 1.0 μg/ml. Insertional inactivation of the gene (mtrD) encoding the membrane transporter component of the Mtr efflux pump in these transformant strains and in strain FA6140 decreased the MIC of penicillin by 16-fold. Genetic analyses revealed that mtrR mutations, such as the single base pair deletion in its promoter, are needed for phenotypic expression of penicillin and tetracycline resistance afforded by the penB mutation. As penB represents amino acid substitutions within the third loop of the outer membrane PorIB protein that modulate entry of penicillin and tetracycline, the results presented herein suggest that PorIB and the MtrC-MtrD-MtrE efflux pump act synergistically to confer resistance to these antibiotics.

Dinucleotide microsatellites from Eucalyptus sieberi: inheritance, diversity, and improved scoring of single-base differences

Genome ◽  
2001 ◽  
Vol 44 (6) ◽  
pp. 1041-1045 ◽  
Author(s):  
J C Glaubitz ◽  
L C Emebiri ◽  
G F Moran
Keyword(s):  
Base Pair ◽  
Mendelian Inheritance ◽  
Null Alleles ◽  
Fixation Index ◽  
Eucalyptus Nitens ◽  
Internal Reference ◽  
Single Base ◽  
Hardy Weinberg Equilibrium ◽  
Single Base Pair ◽  
Flanking Regions

Eight dinucleotide microsatellites were developed in Eucalyptus sieberi L. Johnson (silvertop ash), a member of the subgenus Eucalyptus. Transfer of six of these to the subgenus Symphyomyrtus and their Mendelian inheritance are demonstrated using a full-sib cross in Eucalyptus nitens. Genetic diversity parameters are presented for the eight loci based on a sample of 100 old-growth E. sieberi trees from a single natural stand. One locus, Es266, had an atypically high fixation index, and significantly deviated from Hardy-Weinberg equilibrium genotypic proportions, indicating the likely presence of null alleles. Two of the loci, Es076 and Es140, had many alleles that differed in size by only a single base pair, possibly because of short poly(A) or poly(T) stretches in their flanking regions. These two loci were by far the most polymorphic, but were difficult to score reliably on a capillary DNA sequencer. Reliability of scoring of these two one-base microsatellite loci was markedly improved by the incorporation of internal reference alleles into each sample analysed.Key words: SSRs, single base pair alleles, null alleles, internal reference alleles.

scholarly journals ISWI Remodelers Slide Nucleosomes with Coordinated Multi-Base-Pair Entry Steps and Single-Base-Pair Exit Steps

Cell ◽  
2013 ◽  
Vol 152 (3) ◽  
pp. 442-452 ◽  
Author(s):  
Sebastian Deindl ◽  
William L. Hwang ◽  
Swetansu K. Hota ◽  
Timothy R. Blosser ◽  
Punit Prasad ◽  
...  
Keyword(s):  
Base Pair ◽  
Single Base ◽  
Single Base Pair

scholarly journals Hybridization of synthetic oligodeoxyribonucleotides to ΦX174 DNA: the effect of single base pair mismatch

1979 ◽  
Vol 6 (11) ◽  
pp. 3543-3558 ◽  
Author(s):  
R. Bruce Wallace ◽  
J. Shaffer ◽  
R.F. Murphy ◽  
J. Bonner ◽  
T. Hirose ◽  
...  
Keyword(s):  
Base Pair ◽  
Single Base ◽  
Base Pair Mismatch ◽  
Single Base Pair

scholarly journals Reversal of a Single Base-Pair Step Controls Guanine Photo-Oxidation by an Intercalating Ruthenium(II) Dipyridophenazine Complex

2015 ◽  
Vol 127 (29) ◽  
pp. 8484-8488 ◽  
Author(s):  
Páraic M. Keane ◽  
Fergus E. Poynton ◽  
James P. Hall ◽  
Igor V. Sazanovich ◽  
Michael Towrie ◽  
...  
Keyword(s):  
Base Pair ◽  
Single Base ◽  
Photo Oxidation ◽  
Single Base Pair
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