Analysis of Variation In Chloroplast DNA Sequences

The lack of recombination, conserved evolutionary patterns, suitable genome size, and high copy numbers per cell make complete chloroplast genome sequences valuable in phylogenetic analysis and species identification. Chloroplast DNA has been used at an early stage to study biological systems at the interspecies and genera levels and to use different chloroplast sequences for a variety of purposes. The researchers have successfully used restriction endonucleases to analyze the variation of chloroplast gene sequence, and then the purified chloroplast DNA was digested by electrophoresis gel before electrophoresis. At present, sequencing of long cpDNA fragments obtained by amplifying chloroplast primers by PCR is still the most commonly used method to obtain sequence information. The size difference of chloroplast DNA PCR amplification products can be seen directly on the electrophoresis gel. In addition, the similarity of most of the appearance of some plants makes the identification and classification of plants within the genus difficult. Therefore, it is necessary to establish a set of methods for determining chloroplast gene sequences to analyze the distribution of differential sites, genetic distances, and phylogenetic relationships of the target sequences, so as to provide a theoretical basis for the study of plant resource utilization, phylogenetic history and DNA barcoding.

Fig. 1. Schematic alignment of Gentianella chloroplast DNA sequence showing presence of small insertions/ deletions that are often tandemly repeated sequence tracts. (Heinze B, et al., 2014)

Services

Over the years, the team at Lifeasible has extensive experience in the analysis of chloroplast DNA sequence variation. We have successfully identified and designed highly suitable polymorphic chloroplast loci as unique markers for different taxa. Additionally, we can help you identify the hypervariable regions of the chloroplast genome to identify different hotspots. The sequences of our designed variable regions are widely used in species identification and evolutionary studies by customers around the world, and are applicable to a variety of population studies. We are dedicated to analyzing point mutations and deletions/insertions in noncoding regions of cpDNA through several methods:

• Sanger sequencing.
• Post-PCR restriction fragment length polymorphism (RFLP).
• Gel electrophoresis.
• Fragment analysis on automated DNA sequencers.
• Denaturing high performance liquid chromatography (dHPLC).
• Chloroplast micro- and minisatellites.

Competitive Advantages

• Professional bioinformatics analysis team.
• Ease and speed of obtaining results.
• The procedure is simple and is a low-cost option.
• Supported by a variety of advanced analytical detection technologies.
• Complete and detailed results analysis report.

Lifeasible can meet the needs of customers on time and on budget through a wide range of strategies for analyzing chloroplast genome sequences. Our aim is to be customer-centric and to provide the highest quality service to customers around the world. Our skilled and dedicated scientific researchers ensure that the most appropriate methods and techniques are selected for each specialized chloroplast project. Our customer service representatives are enthusiastic and trustworthy 24 hours a day, 7 days a week. If you are interested in our services, please feel free to contact us for more information or a detailed discussion.

References

1. Heinze B, Koziel-Monte A, Jahn D. (2014) Analysis of variation in chloroplast DNA sequences[M]//Molecular Plant Taxonomy. Humana Press, Totowa, NJ. 85-120.
2. Palmer J D, Jansen R K, Michaels H J, et al. (1988) Chloroplast DNA variation and plant phylogeny[J]. Annals of the Missouri Botanical Garden. 1180-1206.