Arabidopsis thaliana has many attributes, including short generation times, small size, large number of offspring, and relatively small nuclear genomes, that make it a very attractive model system for plant genomics. Arabidopsis thaliana was the first plant, and the third multicellular organism after Caenorhabditis elegans and Drosophila melanogaster, to be completely sequenced. The availability of the Arabidopsis thaliana genome sequence dramatically enhances our understanding of the full range of genes expressed by typical flowering plants and will lead to a thorough analysis of the function of these genes. The many resources available in the Arabidopsis experimental system also make it an ideal springboard for understanding gene function in economically important plants such as tomato.

CD Genomics is a leading service provider for agricultural genomics research, offering reliable Arabidopsis thaliana genome sequencing services to support research and breeding efforts in the field of Arabidopsis thaliana genomics for clients worldwide.

Our Arabidopsis thaliana genome sequencing service

CD Genomics offers comprehensive and customizable Arabidopsis thaliana genome sequencing services using cutting-edge technology and expertise to characterize the Arabidopsis thaliana genome at the cytogenetic, genetic, and molecular levels. Our services cover all stages of the sequencing process, from library preparation to data analysis, ensuring high-quality and accurate results.

With our advanced next-generation sequencing and long-read sequencing technology platforms, as well as bioinformatics tools, we can accurately analyze the genome of the flowering plant Arabidopsis thaliana. The sequenced region covered 115.4 megabases of the 125 megabases genome and extended to the centromeric region.

Our sequencing strategies for Arabidopsis thaliana

CD Genomics offers whole-genome shotgun sequencing strategies for Arabidopsis thaliana. We use large-insert bacterial artificial chromosome (BAC), phage (P1) and transformation-competent artificial chromosome (TAC) libraries as the primary substrates for sequencing.

We ensure to provide a complete analysis of the Arabidopsis genome sequence, including annotation of predicted genes and assignment of functional classes. In addition, we analyze chromosome dynamics and architecture, the distribution of transposable elements and other repeats, the extent of lateral gene transfer from organelles, and the comparison of the genome sequence and structure to that of other Arabidopsis accessions (distinctive lines maintained by single-seed descent) and plant species.

Applications of Arabidopsis thaliana genome sequencing

Our Arabidopsis thaliana genome sequencing data support the following studies:

• Functional genomics

The Arabidopsis genome sequence allows researchers to study the role of specific genes in plant development, environmental response, and stress tolerance. The availability of gene disruption lines and mutant collections can facilitate these studies and help you uncover the complex network of gene interactions and regulatory pathways in Arabidopsis.

• Comparative genomics

By comparing the Arabidopsis genome to those of other plant species, we help you identify conserved genomic regions, track changes in gene families, and gain insight into the mechanisms of genome evolution.

• Crop improvement

Data obtained by studying Arabidopsis genes and their functions can be applied to crops to enhance desired traits such as yield, stress tolerance, and nutritional value. The identification of gene homologs in crop species allows targeted genetic engineering and breeding efforts to improve Arabidopsis varieties.

• Systems biology

Integration of Arabidopsis genomic data with other genomics technologies (e.g., transcriptomics, proteomics, and metabolomics) allows the analysis of multiple molecular-level interactions to understand complex biological processes in Arabidopsis. By combining genome-wide information with experimental data, mathematical models, and computational simulations, we help you analyze the complexity of Arabidopsis plant systems and predict their behavior under different conditions.

Case study of Arabidopsis thaliana genome sequencing

Arabidopsis thaliana has been used as a model organism for genetics and plant biology research for decades. Its small size, short life cycle, and well-annotated genome make it an ideal candidate for studying various aspects of plant biology. In recent years, the advent of whole genome sequencing technology has revolutionized the field, allowing researchers to explore Arabidopsis genetic diversity and population structure in unprecedented detail. Researchers use state-of-the-art sequencing technology to obtain high-quality genomic data from each species. The resulting sequences are then analyzed to identify genetic variation, including single nucleotide polymorphisms (SNPs), small insertions and deletions (indels), structural variation, and transposable elements.

Fig. 1. Sequencing of 80 A. thaliana strains. (Cao et al., 2011)

• Genetic variation: Analysis of the Arabidopsis genome has revealed millions of genetic variants across germplasm. These variants provide valuable insights into the genetic diversity that exists within species. By studying these variants, researchers can better understand the evolutionary history and population dynamics of Arabidopsis.
• Genotype estimation: By utilizing sequencing data from 80 strains, researchers were able to accurately estimate the genotypes of SNP loci covered by arrays in other species. This interpolation approach enhances the value of existing genotyping platforms and facilitates the integration of genomic data from different sources.
• Population differentiation and migration patterns: This study links regional differences in limited linkage disequilibrium (LD) patterns to the demographic history of Arabidopsis thaliana. In addition, this study identifies regions of the Arabidopsis genome that show signs of selective scanning, indicating strong positive selection on specific genetic regions. These selective removals may indicate adaptive evolution in response to environmental factors or pathogen stress.

CD Genomics offers cutting-edge Arabidopsis thaliana genome sequencing services to provide comprehensive genomic information to researchers and breeders for their studies. We aim to provide data to support basic research on the genetics of important Arabidopsis thalianatraits. If you are interested, please feel free to contact us.

Reference

1. Cao, Jun, et al. Whole-genome sequencing of multiple Arabidopsis thaliana populations. Nature genetics. 43.10 (2011): 956-963