Protein-nucleic acid conjugate for producing specific nucleic acid

• US 20060019353A1
• Filed: 11/18/2003
• Published: 01/26/2006
• Est. Priority Date: 01/13/1994
• Status: Abandoned Application

• Current Assignee: Enzo Biochem Incorporated
• Original Assignee: Enzo Diagnostics, Inc.
• Inventors: Donegan, James J., Rabbani, Elazar, Engelhardt, Dean L., Stayrianopoulos, Jannis G.
• Application Number:
  US10/717,140
• Publication Number:
  US 20060019353A1
• Time in Patent Office: Days
• US Class Current: 435/91.100
• CPC Class Codes: C12N 15/10 Processes for the isolation, preparation or purification of DNA or RNA chemical preparation of DNA or RNA C07H21/00; preparation of non-structural polynucleotides from microorganisms or with enzymes C12P19/34
• CPC Class Codes: C12P 19/34 Polynucleotides, e.g. nucleic acids, oligoribonucleotides
• CPC Class Codes: C12Q 1/6844 Nucleic acid amplification reactions
• CPC Class Codes: C12Q 1/6853 using modified primers or templates
• CPC Class Codes: C12Q 1/6858 Allele-specific amplification
• CPC Class Codes: C12Q 1/686 Polymerase chain reaction [PCR]
• CPC Class Codes: C12Q 1/6865 Promoter-based amplification, e.g. nucleic acid sequence amplification [NASBA], self-sustained sequence replication [3SR] or transcription-based amplification system [TAS]
• CPC Class Codes: C12Q 2521/119 RNA polymerase
• CPC Class Codes: C12Q 2525/203 incorporating a composite nucleic acid containing a polypeptide sequence other than PNA

Abstract

This invention provides inter alia an in vitro process for producing multiple specific nucleic acid copies in which the copies are produced under isostatic conditions, e.g., temperature, buffer and ionic strength, and independently of any requirement for introducing an intermediate structure for producing the copies. In other aspects, the invention provides in vitro processes for producing multiple specific nucleic acid copies in which the products are substantially free of any primer-coded sequences, such sequences having been substantially or all removed from the product to regenerate a primer binding site, thereby allowing new priming events to occur and multiple nucleic acid copies to be produced. This invention further provides a promoter-independent non-naturally occurring nucleic acid construct that produces a nucleic acid copy or copies without using or relying on any gene product that may be coded by the nucleic acid construct. Another aspect of this invention concerns a protein-nucleic acid construct in the form of a conjugate linked variously, e.g., covalent linkage, complementary nucleic acid base-pairing, nucleic acid binding proteins, or ligand receptor binding. Further disclosed in this invention is an in vivo process for producing a specific nucleic acid in which such a protein-nucleic acid construct conjugate is introduced into a cell. A still further aspect of the invention relates to a construct comprising a host promoter, second promoter and DNA sequence uniquely located on the construct. The host transcribes a sequence in the construct coding for a different RNA polymerase which after translation is capable of recognizing its cognate promoter and transcribing from a DNA sequence of interest in the construct with the cognate promoter oriented such that it does not promote transcription from the construct of the different RNA polymerase.

Claims

1. (canceled)

2-90. -90. (canceled)

91. A conjugate, which when present in a cell, produces a specific nucleic acid, said conjugate comprising a protein-nucleic acid construct that comprises:

(i) at least one promoter;

(ii) at least one segment of said specific nucleic acid comprising a sequence coding for a protein; and

(iii) an RNA polymerase.

92. The conjugate of claim 91, wherein said at least one promoter (i) comprises a cognate promoter for said RNA polymerase (iii).

93. The conjugate of claim 91, wherein said protein-nucleic acid construct comprises a double-stranded nucleic acid.

94. The conjugate of claim 91, wherein said protein-nucleic acid construct comprises a single-stranded nucleic acid.

95. The conjugate of claim 91, wherein said protein-nucleic acid construct comprises a partially single-stranded nucleic acid.

96. The conjugate of claim 91, wherein said sequence coding for a protein in said segment (ii) comprises a sequence for said RNA polymerase (iii).

97. The conjugate of claim 91, wherein said sequence coding for a protein in said segment (ii) comprises a protein other than said RNA polymerase (iii).

98. The conjugate of claim 91, wherein said sequence coding for a protein in said segment (ii) comprises a sequence for said RNA polymerase and a sequence for a protein other than said RNA polymerase.

99. The conjugate of claim 91, wherein said sequence coding for a protein in said segment (ii) comprises a sequence for a second RNA polymerase that is different from said RNA polymerase (iii).

100. The conjugate of claim 99, further comprising a second promoter for said second RNA polymerase.

101. The conjugate of claim 91, wherein said RNA polymerase (iii) comprises T7, T3, SP6 or a combination thereof.

102. The conjugate of claim 100, further comprising a sequence for a protein, wherein said protein is transcribed from said second promoter.

103. The conjugate of claim 102, wherein said protein comprises DNA polymerase or reverse transcriptase.

104. The conjugate of claim 103, wherein said protein-nucleic acid construct comprises at least one chemically modified nucleotide or nucleotide analog.

105. The conjugate of claim 91, wherein said RNA polymerase (iii) is linked to said protein-nucleic acid construct by means of a covalent linkage.

106. The conjugate of claim 91, wherein said RNA polymerase (iii) is linked to said protein-nucleic acid construct by means of base-pairing of complementary nucleic acid sequences.

107. The conjugate of claim 91, wherein said RNA polymerase (iii) is linked to said nucleic acid construct by means of a nucleic acid binding protein.

108. The conjugate of claim 107, wherein said nucleic acid binding protein comprises a repressor protein bound to an enzyme.

109. The conjugate of claim 91, wherein said RNA polymerase (iii) is linked to said protein-nucleic acid construct by means of ligand receptor binding.

110. A conjugate, which when present in a cell, produces a specific nucleic acid, said conjugate comprising a protein-nucleic acid construct that comprises:

(i) at least one promoter;

(ii) at least one segment of said specific nucleic acid comprising a template for transcription; and

(iii) an RNA polymerase.

111. The conjugate of claim 110, wherein said specific nucleic acid being produced comprises sense RNA, antisense RNA transcripts or a combination of both.

112. The conjugate of claim 111, wherein said sense RNA codes for a protein.

113. The conjugate of claim 112, wherein said protein coding sense RNA codes for said RNA polymerase (iii).

114. The conjugate of claim 112, wherein said protein coding sense RNA codes for a protein other than said RNA polymerase (iii).

115. The conjugate of claim 112, wherein said protein coding sense RNA codes for said RNA polymerase (iii) and a protein other than said RNA polymerase (iii).

116. The conjugate of claim 112, wherein said protein coding sense RNA comprises a sequence for a second RNA polymerase that is different from said RNA polymerase (iii).

117. The conjugate of claim 116, further comprising a second promoter for said second RNA polymerase.

118. The conjugate of claim 117, further comprising a sequence for a protein, wherein said protein is transcribed from said second promoter.

119. A conjugate, which when present in a cell, produces a specific nucleic acid, said conjugate comprising a protein-nucleic acid construct that comprises:

(i) at least one promoter;

(ii) at least one single-stranded segment comprising a sequence complementary to a primer present in said cell; and

(iii) a polymerase.

120. The conjugate of claim 119, wherein said polymerase comprises an RNA polymerase or a DNA polymerase.

121. The conjugate of claim 119, wherein said polymerase comprises DNA polymerase or reverse transcriptase.

122. The conjugate of claim 119, wherein said primer comprises tRNA.

123. The conjugate of claim 119, wherein said sequence codes for a protein.