A specific oligonucleotide probe based on 5S rRNA sequences for identification of Vibrio anguillarum and Vibrio ordalii

1995 ◽  
Vol 43 (2-3) ◽  
pp. 167-171 ◽  
Author(s):  
H Ito
1998 ◽  
Vol 37 (4-5) ◽  
pp. 303-306 ◽  
Author(s):  
R. Howarth ◽  
I. M. Head ◽  
R. F. Unz

Nearly complete 16S ribosomal RNA (rRNA) sequences were determined for fully characterised axenic strains of Thiothrix, Eikelboom type O21N, and Eikelboom type 1701 originally isolated from bulking activated sludges. Thiothrix strains formed a monophyletic group (100% bootstrap support) with previously described Thiothrix nivea strain JP2 and Thiothrix ramosa. Eikelboom type O21N strain AP3 revealed a sufficiently strong relationship to the Thiothrix group to suggest a common ancestry for the two organism although it was not possible to designate type 021N as a species of Thiothrix. Eikelboom type 1701 contained within its sequence the target sequence of an oligonucleotide probe for the detection of Sphaerotilus natans.


1998 ◽  
Vol 21 (2) ◽  
pp. 255-258 ◽  
Author(s):  
Sandra Maria Rodrigues Subacius ◽  
Wilton de Oliveira Bussab

Variations observed in 5S rRNA base compositions are almost entirely due to fixation of point mutations. As a consequence, 5S rRNA size has remained relatively constant during evolution and, therefore, dependencies among the four bases can be predicted. In order to characterize the nature and to determine the degree of such dependencies, correlation analysis followed by principal component factorial analysis was conducted on a large sample of 5S rRNA sequences. The results show that the purine and pyrimidine contents tend to remain constant, so that A + G = Kpur and C + U = Kpyr. The composition of the four bases expressed now by Kpur/Kpyr relationships is also constant (Ks). These relationships imply that the behavior of the mutations in the variable sites of the molecule follows rules imposed by the chemical nature of the bases involved. Consequently, transition mutations would be more favored than substitutions in transversion sites and also than insertion-deletion (rare in 5S rRNAs), since transitions would not significantly alter the values of the Ks-index.


Author(s):  
B. I. Joffe ◽  
K. M. Valiejo Roman ◽  
V. Ya. Birstein ◽  
A. V. Troitsky
Keyword(s):  
5S Rrna ◽  

Blood ◽  
1991 ◽  
Vol 78 (9) ◽  
pp. 2276-2282 ◽  
Author(s):  
JG McFarland ◽  
RH Aster ◽  
JB Bussel ◽  
JG Gianopoulos ◽  
RS Derbes ◽  
...  

Abstract The prediction of neonatal alloimmune thrombocytopenia (NATP) in affected families has, in the past, been based on information about gene frequencies of the antigen systems involved, parental phenotyping, and fetal platelet counts. We explored the feasibility of allele- specific oligonucleotide probe typing for PIA antigens to determine the risk of second or subsequent fetuses in families where one infant had a diagnosis of anti-PIA1-mediated NATP. A total of eight families at risk for delivering an affected fetus were studied with both serologic and oligonucleotide typing. The correlation between serologic and oligonucleotide PIA types was 100%. Similarly, in an additional eight families not at risk for PIA1-mediated NATP, serologic and oligonucleotide typing maintained a perfect correlation. DNA isolated from fetal leukocytes as well as fetal amniocytes was successfully typed using this technology. Oligonucleotide-based typing of fetuses at risk for NATP whose fathers are heterozygous for the PIA antigens allows early recognition of affected fetuses so that prenatal therapy of mothers can be instituted if necessary. When fetuses are found to be unaffected, invasive, and/or expensive, prenatal interventions can be avoided.


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