Fusion primer and nested integrated PCR (FPNI-PCR): a new high-efficiency strategy for rapid chromosome walking or flanking sequence cloning

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Fusion primer and nested integrated PCR (FPNI-PCR): a new high-efficiency strategy for rapid chromosome walking or flanking sequence cloning

BACKGROUND The advent of genomics-based technologies has revolutionized many fields of biological enquiry. However, chromosome walking or flanking sequence cloning is still a necessary and important procedure to determining gene structure. Such methods are used to identify T-DNA insertion sites and so are especially relevant for organisms where large T-DNA insertion libraries have been created,...

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The insertion position of exogenous genes in plant genomes is usually identified by adapter ligation-mediated polymerase chain reaction (PCR), thermal asymmetric interlaced PCR, and restriction site extension PCR in transgenic plant research. However, these methods have various limitations, such as the complexity of designing primers and time-consuming and multiple-step procedures. The goal of ...

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A Nonspecific Primer Anchored PCR Technique for Chromosome Walking

A chromosome walking method was improved in this work. The new method was named as nonspecific primer anchored PCR (NPA-PCR). Nested gene specific primers were designed based on the known region and long random primer using degeneracy oligonucleotides for nonspecific anchoring. Annealing temperatures were varied to control the priming. Target sequences were obtained by PCR with random primer an...

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Biologically-generated primer for PCR: PCR primer of unknown sequence

We describe a method for producing specific PCR primers directly from PCR product, bypassing the usual need to know the primer sequence. Lack of abundance of primers derived from a PCR product is compensated for by the incorporation of an arbitrary 5'TAG sequence which acts as a surrogate template target for the bulk amplification phase. We use the technique to amplify clonospecific rearranged ...

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Chromosome walking by cloning of distinct PCR fragments.

For functional characterization of genes, it is often interesting to identify additional upor downstream sequences in a fast and inexpensive way. Constructing a phage λ or cosmid library is time consuming, and subcloning of the corresponding fragments has to be performed to isolate DNA that can be sequenced (3). Alternative methods such as inverse PCR (2) or onesided PCR (4) have been developed...

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ژورنال

عنوان ژورنال: BMC Biotechnology

سال: 2011

ISSN: 1472-6750

DOI: 10.1186/1472-6750-11-109