Related Experiment Video
Updated: Mar 21, 2026
10:41
Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
Published on: May 9, 2017
9.7K
Next-generation biology: Sequencing and data analysis approaches for non-model organisms
Rute R da Fonseca1, Anders Albrechtsen1, Gonçalo Espregueira Themudo2
1The Bioinformatics Centre, Department of Biology, University of Copenhagen, Copenhagen, Denmark.
Marine Genomics
|May 18, 2016
Summary
Genomic studies of non-model organisms are now feasible thanks to affordable sequencing. This review guides researchers on choosing methods and managing data for evolutionary studies with limited resources and challenging samples.
Area of Science:
- Genomics
- Evolutionary Biology
- Bioinformatics
Background:
- Affordable sequencing technologies enable large-scale evolutionary studies for any organism.
- Researching non-model organisms presents challenges in selecting appropriate methods, managing budgets, and handling difficult sample materials.
- Advances in sequencing technology offer new research opportunities but require careful consideration of method assumptions and limitations.
Purpose of the Study:
- To provide an overview of current sequencing technologies and high-throughput data analysis pipelines.
- To contextualize DNA sequencing applications for non-model organism biology.
- To offer practical advice for researchers working with non-model organisms.
Main Methods:
- Review of current high-throughput DNA sequencing technologies.
- Analysis of typical data analysis pipelines.
- Discussion of applications in non-model organism research.
Main Results:
- An overview of sequencing technologies and data analysis methods.
- Contextualization of applications for non-model organisms.
- Guidance on managing unconventional samples and low-depth sequencing data.
Conclusions:
- Researchers can leverage advanced sequencing for non-model organism genomics.
- Effective strategies are available for comparative and population genetics without full genome assembly.
- Awareness of method limitations is crucial for successful evolutionary studies in non-model organisms.
Related Concept Videos
03:21RNA-seq
12.4K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
12.4K
02:54Evolutionary Relationships through Genome Comparisons
7.2K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
7.2K
03:00Next-generation Sequencing
100.7K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
100.7K
01:29Modern Molecular Taxonomy
826
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
826
02:02Genomics
41.6K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
41.6K
03:36Genome Annotation and Assembly
21.4K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
21.4K