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PHYLUCE is a software package for the analysis of conserved genomic loci

Bioinformatics, 2016-03, Vol.32 (5), p.786-788

Faircloth, Brant C

2016

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msatcommander: detection of microsatellite repeat arrays and automated, locus-specific primer design

Molecular ecology notes, 2008, Vol.8 (1), p.92-94

FAIRCLOTH, BRANT C

2008

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A Phylogenomic Perspective on the Radiation of Ray-Finned Fishes Based upon Targeted Sequencing of Ultraconserved Elements (UCEs)

PloS one, 2013-06, Vol.8 (6), p.e65923-e65923

2013

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Identifying conserved genomic elements and designing universal bait sets to enrich them

Methods in ecology and evolution, 2017-09, Vol.8 (9), p.1103-1112

2017

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Not all sequence tags are created equal: designing and validating sequence identification tags robust to indels

PloS one, 2012-08, Vol.7 (8), p.e42543

2012

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A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing

PloS one, 2013-01, Vol.8 (1), p.e54848-e54848

2013

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Sequence capture of ultraconserved elements from bird museum specimens

Molecular ecology resources, 2016-09, Vol.16 (5), p.1189-1203

2016

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Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales

Systematic biology, 2012-10, Vol.61 (5), p.717-726

2012

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Enriching the ant tree of life: enhanced UCE bait set for genome‐scale phylogenetics of ants and other Hymenoptera

Methods in ecology and evolution, 2017-06, Vol.8 (6), p.768-776

2017

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Cultivation and genomics of the first freshwater SAR11 (LD12) isolate

The ISME Journal, 2018-07, Vol.12 (7), p.1846-1860

2018

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Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales

Systematic biology, 2014-01, Vol.63 (1), p.83-95

2014

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Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics

Molecular phylogenetics and evolution, 2016-01, Vol.94 (Pt A), p.447-462

2016

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Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among Hymenoptera

Molecular ecology resources, 2015-05, Vol.15 (3), p.489-501

2015

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Tectonic collision and uplift of Wallacea triggered the global songbird radiation

Nature communications, 2016-08, Vol.7 (1), p.12709-12709, Article 12709

2016

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Relating belowground microbial composition to the taxonomic, phylogenetic, and functional trait distributions of trees in a tropical forest

Ecology letters, 2015-12, Vol.18 (12), p.1397-1405

2015

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Analysis of a Rapid Evolutionary Radiation Using Ultraconserved Elements: Evidence for a Bias in Some Multispecies Coalescent Methods

Systematic biology, 2016-07, Vol.65 (4), p.612-627

2016

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An island ‘endemic’ born out of hybridization between introduced lineages

Molecular ecology, 2024-03, Vol.33 (5), p.e16990-n/a

2024

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High phylogenetic utility of an ultraconserved element probe set designed for Arachnida

Molecular ecology resources, 2017-07, Vol.17 (4), p.812-823

2017

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Adapterama I: universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext)

PeerJ (San Francisco, CA), 2019-10, Vol.7, p.e7755, Article e7755

2019

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Ultraconserved elements (UCEs) resolve the phylogeny of Australasian smurf-weevils

PloS one, 2017-11, Vol.12 (11), p.e0188044-e0188044

2017

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Divergence, gene flow, and speciation in eight lineages of trans‐Beringian birds

Molecular ecology, 2020-09, Vol.29 (18), p.3526-3542

2020

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Ecophysiology and genomics of the brackish water adapted SAR11 subclade IIIa

The ISME Journal, 2023-04, Vol.17 (4), p.620-629

2023

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A phylogenomic framework for pelagiarian fishes (Acanthomorpha: Percomorpha) highlights mosaic radiation in the open ocean

Proceedings of the Royal Society. B, Biological sciences, 2019-09, Vol.286 (1910), p.20191502

2019

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Adapterama III: Quadruple-indexed, double/triple-enzyme RADseq libraries (2RAD/3RAD)

PeerJ (San Francisco, CA), 2019-10, Vol.7, p.e7724, Article e7724

2019

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Explosive diversification of marine fishes at the Cretaceous–Palaeogene boundary

Nature ecology & evolution, 2018-04, Vol.2 (4), p.688-696

2018

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PHYLUCE is a software package for the analysis of conserved genomic loci

msatcommander: detection of microsatellite repeat arrays and automated, locus-specific primer design

A Phylogenomic Perspective on the Radiation of Ray-Finned Fishes Based upon Targeted Sequencing of Ultraconserved Elements (UCEs)

Identifying conserved genomic elements and designing universal bait sets to enrich them

Not all sequence tags are created equal: designing and validating sequence identification tags robust to indels

A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing

Sequence capture of ultraconserved elements from bird museum specimens

Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales

Enriching the ant tree of life: enhanced UCE bait set for genome‐scale phylogenetics of ants and other Hymenoptera

Cultivation and genomics of the first freshwater SAR11 (LD12) isolate

Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales

Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics

Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among Hymenoptera

Tectonic collision and uplift of Wallacea triggered the global songbird radiation

Relating belowground microbial composition to the taxonomic, phylogenetic, and functional trait distributions of trees in a tropical forest

Analysis of a Rapid Evolutionary Radiation Using Ultraconserved Elements: Evidence for a Bias in Some Multispecies Coalescent Methods

An island ‘endemic’ born out of hybridization between introduced lineages

High phylogenetic utility of an ultraconserved element probe set designed for Arachnida

Adapterama I: universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext)

Ultraconserved elements (UCEs) resolve the phylogeny of Australasian smurf-weevils

Divergence, gene flow, and speciation in eight lineages of trans‐Beringian birds

Ecophysiology and genomics of the brackish water adapted SAR11 subclade IIIa

A phylogenomic framework for pelagiarian fishes (Acanthomorpha: Percomorpha) highlights mosaic radiation in the open ocean

Adapterama III: Quadruple-indexed, double/triple-enzyme RADseq libraries (2RAD/3RAD)

Explosive diversification of marine fishes at the Cretaceous–Palaeogene boundary

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