Sequence-Determined DNA Fragments for Gene Isolation and Mapping
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Solution Overview
Problem
Current methods for mapping and sequencing genomes, particularly in plants like corn, wheat, soybean, and Arabidopsis, face challenges in isolating and identifying specific gene fragments and regulatory regions, as well as modulating gene expression effectively.
Innovation Solution
The development of Sequence-Determined DNA Fragments (SDFs) that include complete cDNA sequences, genomic DNA, and regulatory elements, along with probes and methods for hybridization, and constructs for modulating gene expression using viral, bacterial, or plant artificial chromosomes.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If conventional genome mapping and sequencing methods are used, then genome sequences can be obtained, but isolation and identification of specific gene fragments and regulatory regions remain difficult
Solution Approach 1:
The patent segments the genome into specific gene fragments and regulatory regions by designing probes that target particular sequences. This allows researchers to isolate and identify specific genes of interest without having to work with the entire complex genome, thereby improving measurement precision while reducing the effective complexity of the analysis.
Solution Approach 2:
The patent introduces probes as intermediary molecules that mediate between the complex genome and the detection system. These probes hybridize to specific target sequences, enabling the isolation and identification of gene fragments and regulatory regions without requiring direct manipulation of the entire genome, thus simplifying the process.
2Loss of information
If complete genome sequences are obtained, then comprehensive genetic information is available, but efficient modulation of gene expression becomes challenging
Solution Approach 1:
The patent extracts specific regulatory elements and gene fragments from the complete genome sequence. By isolating these functional elements, the patent enables targeted modulation of gene expression without requiring manipulation of the entire genome, thereby maintaining comprehensive genetic information availability while significantly improving the ease of operation for gene expression studies.
3Productivity
If traditional cloning methods are used, then gene fragments can be isolated, but detection of spliced messages and regulatory elements is inefficient
Solution Approach 1:
The patent creates a universal probe system that can simultaneously detect multiple features including spliced messages, regulatory elements, and gene fragments. This multi-functional approach increases productivity by enabling comprehensive analysis in a single experimental framework while maintaining high measurement precision through specific hybridization-based detection.
Applied Scientific Principles
This section explains which scientific principles are used to turn an abstract innovation direction into a practical engineering solution.
Function Achieved in This Case
Enables efficient isolation and identification of gene fragments, detection of spliced messages, and modulation of gene expression, facilitating genetic mapping, cloning, and crop improvement by utilizing SDFs and associated constructs.
Implementation Method 1
contacting a probe with a polynucleotide sample under conditions that permit hybridization and formation of a polynucleotide duplex
Data Source
AI summary
The present invention provides DNA molecules that constitute fragments of the genome of a plant, and polypeptides encoded thereby. The DNA molecules are useful for specifying a gene product in cells, either as a promoter or as a protein coding sequence or as an UTR or as a 3′ termination sequence, and are also useful in controlling the behavior of a gene in the chromosome, in controlling the expression of a gene or as tools for genetic mapping, recognizing or isolating identical or related DNA fragments, or identification of a particular individual organism, or for clustering of a group of organisms with a common trait.