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Primer Extension Capture: Targeted Sequence Retrieval from Heavily Degraded DNA Sources

Primer Extension Capture: Targeted Sequence Retrieval from Heavily Degraded DNA Sources

Published on: September 3, 2009

Targeted capture in evolutionary and ecological genomics.

Matthew R Jones¹, Jeffrey M Good¹

¹Division of Biological Sciences, University of Montana, 32 Campus Dr. HS104, Missoula, MT, 59812, USA.

Molecular Ecology

|July 4, 2015

Summary

This summary is machine-generated.

High-throughput targeted capture enables evolutionary and ecological genomics research, even without reference genomes. This powerful sequencing strategy is expanding accessibility for nonmodel taxa.

Keywords:

ancient DNA detecting selection genetic mapping metagenomics next-generation sequencing phylogenomics

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Area of Science:

Genomics
Evolutionary Biology
Ecological Genomics

Background:

Next-generation sequencing provides powerful tools for biological research.
Genome-partitioning strategies, like high-throughput targeted capture, are alternatives to whole-genome sequencing for ecological and evolutionary studies.
Targeted capture is powerful but underutilized in evolutionary and ecological genomics due to design and implementation challenges, especially in species lacking reference genomes.

Purpose of the Study:

To increase the accessibility of targeted capture for researchers working with nonmodel taxa by presenting methods that do not require a reference genome.
To highlight the emerging evolutionary and ecological applications of targeted capture.
To discuss the future of genome-partitioning approaches, including targeted capture, alongside the increasing availability of whole-genome sequencing.

Main Methods:

Discussing targeted capture methods that circumvent the need for a reference genome.
Reviewing evolutionary and ecological applications of targeted capture.
Analyzing the future trajectory of genome-partitioning strategies in genomics.

Main Results:

Targeted capture methods can be implemented without a reference genome, increasing accessibility for nonmodel organisms.
Targeted capture is a powerful and increasingly feasible sequencing strategy for diverse evolutionary and ecological research questions.
The expansion of whole-genome sequencing complements the growing use of targeted capture.

Conclusions:

High-throughput targeted capture offers practical advantages and is becoming more feasible, driving its expansion in evolutionary and ecological research.
Genome-partitioning approaches, particularly targeted capture, will increasingly complement whole-genome sequencing.
Researchers can leverage targeted capture for nonmodel taxa, broadening the scope of genomic studies.