Related Experiment Video
Updated: Feb 8, 2026
07:27
Transcriptome Analysis of Single Cells
Published on: April 25, 2011
30.7K
[SSR loci information analysis in transcriptome of Andrographis paniculata]
Jun-Ren Li1, Xiu-Zhen Chen1, Xiao-Ting Tang1
1Research Center of Chinese Herbal Resource Science and Engineering, Guangzhou University of Chinese Medicine, Key Laboratory of Chinese Medicinal Resource from Lingnan, Ministry of Education, Joint Laboratory of National Engineering Research Center for the Pharmaceutics of Traditional Chinese Medicines, Guangzhou 510006, China.
Summary
Researchers identified 14,135 simple sequence repeat (SSR) loci in Andrographis paniculata, developing 4,740 potential molecular markers. These SSR markers offer high polymorphism for advancing gene mining and marker-assisted breeding in this medicinal plant.
Area of Science:
- Plant Molecular Biology
- Genomics
- Biotechnology
Background:
- Andrographis paniculata is a valuable medicinal herb.
- Developing molecular markers is crucial for its genetic improvement.
- Transcriptome data provides a rich resource for marker discovery.
Purpose of the Study:
- To identify simple sequence repeat (SSR) loci within the Andrographis paniculata transcriptome.
- To design and validate SSR-based molecular markers.
- To analyze the distribution and characteristics of SSRs for marker development.
Main Methods:
- Bioinformatic analysis of 43,683 Unigenes from A. paniculata transcriptome.
- SSR identification and characterization using MicroSAtellite software.
- Primer design with Primer 3.0 and validation via PCR.
Main Results:
- 14,135 SSR loci were identified in 9,973 Unigenes (32.36% distribution).
- Di-nucleotide and Tri-nucleotide repeats were dominant (75.54%), with AT/AT and CCG/CGG as predominant motifs.
- 4,740 SSR primer pairs were designed, with 10/20 validated for producing expected fragments.
Conclusions:
- The study identified a significant number of SSR loci in the A. paniculata transcriptome.
- Developed SSR markers exhibit rich types, specificity, and high polymorphism potential.
- These SSR markers are valuable for candidate gene mining and marker-assisted breeding in Andrographis paniculata.
Related Concept Videos
01:23Root Loci for Positive-Feedback Systems
352
The Hartley oscillator is a positive feedback system that sustains oscillations by feeding the output back to the input in phase, thereby reinforcing the signal. Positive feedback systems can be viewed as negative feedback systems with inverted feedback signals. In these systems, the root locus encompasses all points on the s-plane where the angle of the system transfer function equals 360 degrees.
The construction rules for the root locus in positive feedback systems are similar to those in...
The construction rules for the root locus in positive feedback systems are similar to those in...
352
03:46Qualitative Analysis
24.6K
For solutions containing mixtures of different cations, the identity of each cation can be determined by qualitative analysis. This technique involves a series of selective precipitations with different chemical reagents, each reaction producing a characteristic precipitate for a specific group of cations. Metal ions within a group are further separated by varying the pH, heating the mixture to redissolve a precipitate, or adding other reagents to form complex ions.
For instance, group IV...
For instance, group IV...
24.6K
03:40Dimensional Analysis
65.0K
Dimensional analysis, also known as the factor label method, is a versatile approach for mathematical operations. The main principle behind this approach is: the units of quantities must be subjected to the same mathematical operations as their associated numbers. This method can be applied to computations ranging from simple unit conversions to more complex and multi-step calculations involving several different quantities and their units.
Conversion Factors and Dimensional Analysis
The unit...
Conversion Factors and Dimensional Analysis
The unit...
65.0K
01:27Dimensional Analysis
682
Dimensional analysis is a valuable technique in fluid mechanics for simplifying complex problems by reducing them into dimensionless groups. These groups capture the essential relationships between the variables involved, allowing researchers and engineers to analyze fluid flow without dealing with each variable individually. This approach reduces the number of independent variables, allowing for easier analysis and better understanding of physical phenomena.
In fluid mechanics, dimensional...
In fluid mechanics, dimensional...
682
01:35Pedigree Analysis
89.7K
Overview
89.7K
01:09Epistasis Analysis
5.8K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
5.8K