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Get protocols » The most complex part of using UCEs to understand evolutionary relationships, population structure, and population relationships is analyzing the DNA sequence data. Mc Cormack JE, Harvey MG, Faircloth BC, Crawford NG, Glenn TC, Brumfield RT. A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing. Generally speaking, these commercial vendors will accept DNA extracts for enrichment, conduct the library preparation and enrichment steps, sequence the enriched libraries, and return the sequence data to you. We are constantly evaluating the utility of given probe sets and probe designs, in addition to expanding the number of UCE loci we are targeting.We have created several software packages and we're working on tutorials to help get you started. A Phylogenomic Perspective on the Radiation of Ray-Finned Fishes Based upon Targeted Sequencing of Ultraconserved Elements (UCEs). We do not derive any referall revenue from these companies, but we list each here to help interested labs get started. We have several larger probes sets in the works, and we are also working on optimizing probe sets based on their capture success, phylogenetic utility, etc. You can now buy each of these probe sets direct from MYcroarray in the form of a capture kit.MYcroarray has even made a discounted "pilot" sized kit available for labs who want to do some test enrichments.Order enrichment kits from MYcroarray » The linked FASTA file (ZIP archive) contains probe sequences (120 nt) designed for synthesis as part of a Agilent Sure Select or Mycro Array My Bait target enrichment kit.
2007) identified additional regions of high conservation.
We used these probes for our analysis of early diverging teleosts.
By their deposition in Dryad, all probes are available under a CC0 license, thus freely available for you to use, without restriction.
Once we design a probe set, we follow sequence capture protocols to enrich DNA libraries for the target UCEs, usually in multiplex. Faircloth BC, Mc Cormack JE, Crawford NG, Harvey MG, Brumfield RT, Glenn TC. Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales. These talks should give a general idea of where we're going with new research projects that use UCEs.
Following enrichment, we sequence the DNA enriched for UCEs using massively parallel sequencing. Crawford NG, Faircloth BC, Mc Cormack JE, Brumfield RT, Winker K, Glenn TC. More than 1000 ultraconserved elements provide evidence that turtles are the sister group of archosaurs. Go to talks » Below are several commercial laboratories offering UCE enrichment as a service.