Method for enhancing the hybridization efficiency of target nucleic acids using a self-addressable, self-assembling microelectronic device

Abstract

A self-addressable, self-assembling microelectronic device is designed and fabricated to actively carry out and control multi-step and multiplex molecular biological reactions in microscopic formats. These reactions include nucleic acid hybridizations, antibody/antigen reactions, diagnostics, and biopolymer synthesis. The device can be fabricated using both microlithographic and micro-machining techniques. The device can electronically control the transport and attachment of specific binding entities to specific microlocations. The specific binding entities include molecular biological molecules such as nucleic acids and polypeptides. The device can subsequently control the transport and reaction of analytes or reactants at the addressed specific microlocations. The device is able to concentrate analytes and reactants, remove non-specifically bound molecules, provide stringency control for DNA hybridization reactions, and improve the detection of analytes. The device can be electronically replicated.

What is claimed is:  
     
         1 . A method for transport and hybridization of DNA in an active electronic system comprising the steps of: 
 providing a low conductivity, zwitterionic buffer on said device,    electrophoretically transporting said nucleic acid towards a microlocation,    applying current and voltage to the microlocation to effect transportation, whereby the local pH above the microlocation is below the pH of the buffer at its isoelectric point, whereby hybridization between the nucleic acid and a probe located at the microlocation is enhanced.    
     
     
         2 . The method for enhanced transport and hybridization of nucleic acids of  claim 1 , wherein the low conductivity, zwitterionic buffer is histidine.  
     
     
         3 . The method for enhanced transport and hybridization of nucleic acids of  claim 1 , wherein the low conductivity, zwitterionic buffer is L-histidine.  
     
     
         4 . The method for enhanced transport and hybridization of nucleic acids of  claim 1 , wherein the low conductivity, zwitterionic buffer is D-histidine.  
     
     
         5 . A method for the effective transport and hybridization of DNA on an active, electronic matrix device, the device having a plurality of microlocations, at least certain of the microlocations including probes, comprising the steps of: 
 providing a first low-conductivity, zwitterionic buffer to the device,    providing said nucleic acids to the device in said low conductivity, zwitterionic buffer,    applying current and potential to at least certain microlocations so as to effect transport of said nucleic acids to selected microlocations,    changing the buffer to a second buffer with a high salt concentration, and    effecting hybridization of said nucleic acid with said probe at selected microlocations.    
     
     
         6 . The method for effecting transport and hybridization of nucleic acids of  claim 5 , wherein the low conductivity, zwitterionic buffer is cystine.  
     
     
         7 . The method for effecting transport and hybridization of nucleic acids of  claim 5 , wherein the low conductivity, zwitterionic buffer is alanine.  
     
     
         8 . The method for effecting transport and hybridization of nucleic acids of  claim 5 , wherein the salt concentration is from approximately 50 mM to 100 mM.  
     
     
         9 . A method for detection of point mutations in double stranded amplicons comprising the steps of: 
 providing amplicon products to an active, programmable electronic matrix device,    dilute said products in a low conductance histidine buffer, denature said products,    hybridize said denatured products in the histidine buffer on the device,    perform stringency so as to discriminate matches versus mismatches, and    detect and analyze said products.    
     
     
         10 . The method of  claim 9  for detecting point mutations in amplicons wherein the stringency includes electronic stringency.  
     
     
         11 . The method of  claim 9  for detecting point mutations in amplicons wherein the detection is fluorescent detection.  
     
     
         12 . The method of  claim 9  for detecting point mutations in amplicons wherein a fluorescent reporter probe sequence is hybridized with said product.