Edward L Braun

Edward L Braun

UNVERIFIED PROFILE

Are you Edward L Braun?   Register this Author

Register author
Edward L Braun

Edward L Braun

Publications by authors named "Edward L Braun"

Are you Edward L Braun?   Register this Author

63Publications

2010Reads

49Profile Views

What are the roles of taxon sampling and model fit in tests of cyto-nuclear discordance using avian mitogenomic data?

Mol Phylogenet Evol 2019 01 12;130:132-142. Epub 2018 Oct 12.

Department of Biology, University of Florida, Gainesville, FL 32611, USA. Electronic address:

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S10557903183019
Publisher Site
http://dx.doi.org/10.1016/j.ympev.2018.10.008DOI Listing
January 2019

A simple strategy for recovering ultraconserved elements, exons, and introns from low coverage shotgun sequencing of museum specimens: Placement of the partridge genus Tropicoperdix within the galliformes.

Mol Phylogenet Evol 2018 12 7;129:304-314. Epub 2018 Sep 7.

MOE Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing 100875, China.

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S10557903183012
Publisher Site
http://dx.doi.org/10.1016/j.ympev.2018.09.005DOI Listing
December 2018

Comparative Genomics Reveals a Burst of Homoplasy-Free Numt Insertions.

Mol Biol Evol 2018 08;35(8):2060-2064

Department of Biology, University of Florida, Gainesville, FL.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msy112DOI Listing
August 2018

An evolutionary model motivated by physicochemical properties of amino acids reveals variation among proteins.

Authors:
Edward L Braun

Bioinformatics 2018 07;34(13):i350-i356

Department of Biology and Genetics Institute, University of Florida, Gainesville, FL, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bty261DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6022633PMC
July 2018

Mitochondrial genome diversity and population structure of two western honey bee subspecies in the Republic of South Africa.

Sci Rep 2018 01 22;8(1):1333. Epub 2018 Jan 22.

Honey Bee Research and Extension Laboratory, Entomology and Nematology Department, University of Florida, Gainesville, Florida, 32611-0620, USA.

View Article

Download full-text PDF

Source
http://www.nature.com/articles/s41598-018-19759-3
Publisher Site
http://dx.doi.org/10.1038/s41598-018-19759-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5778041PMC
January 2018

Phylogenomic analysis supports multiple instances of polyphyly in the oomycete peronosporalean lineage.

Mol Phylogenet Evol 2017 09 20;114:199-211. Epub 2017 Jun 20.

Emerging Pathogens Institute, University of Florida, Gainesville, FL, USA; Department of Plant Pathology, University of Florida, Gainesville, FL, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2017.06.013DOI Listing
September 2017

Historical relationships of three enigmatic phasianid genera (Aves: Galliformes) inferred using phylogenomic and mitogenomic data.

Mol Phylogenet Evol 2017 04 11;109:217-225. Epub 2017 Jan 11.

Department of Biology, University of Florida, Gainesville, FL 32611, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2017.01.006DOI Listing
April 2017

Evolution of the 3R-MYB Gene Family in Plants.

Genome Biol Evol 2017 Apr;9(4):1013-1029

Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evx056DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5405339PMC
April 2017

Rapid and recent diversification of curassows, guans, and chachalacas (Galliformes: Cracidae) out of Mesoamerica: Phylogeny inferred from mitochondrial, intron, and ultraconserved element sequences.

Mol Phylogenet Evol 2016 09 28;102:320-30. Epub 2016 Jun 28.

Department of Biology, University of Florida, Gainesville, FL, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2016.06.006DOI Listing
September 2016

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

Syst Biol 2016 Jul 10;65(4):612-27. Epub 2016 Feb 10.

Department of Biology, University of Florida, Gainesville, FL; Genetics Institute, University of Florida, Gainesville, FL.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/sysbio/syw014DOI Listing
July 2016

Expansion of Signal Transduction Pathways in Fungi by Extensive Genome Duplication.

Curr Biol 2016 06 26;26(12):1577-1584. Epub 2016 May 26.

US Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5089372PMC
http://dx.doi.org/10.1016/j.cub.2016.04.038DOI Listing
June 2016

Sorting out relationships among the grouse and ptarmigan using intron, mitochondrial, and ultra-conserved element sequences.

Mol Phylogenet Evol 2016 May 12;98:123-32. Epub 2016 Feb 12.

Department of Biology, University of Florida, Gainesville, FL 32611, United States. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2016.02.003DOI Listing
May 2016

Avoiding Missing Data Biases in Phylogenomic Inference: An Empirical Study in the Landfowl (Aves: Galliformes).

Mol Biol Evol 2016 Apr 29;33(4):1110-25. Epub 2015 Dec 29.

Department of Biology, University of Florida.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msv347DOI Listing
April 2016

Whole genome sequence of the emerging oomycete pathogen Pythium insidiosum strain CDC-B5653 isolated from an infected human in the USA.

Genom Data 2016 Mar 23;7:60-1. Epub 2015 Nov 23.

Emerging Pathogens Institute, University of Florida, Gainesville, FL, United States; Department of Plant Pathology, University of Florida, Gainesville, FL, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gdata.2015.11.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4778604PMC
March 2016

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds".

Science 2015 Sep;349(6255):1460

Department of Neurobiology, Duke University Medical Center, Durham, NC 27710, USA. Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1126/science.aab1578DOI Listing
September 2015

Building the avian tree of life using a large-scale, sparse supermatrix.

Mol Phylogenet Evol 2015 Mar 27;84:53-63. Epub 2014 Dec 27.

Department of Biology, University of Florida, United States. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2014.12.003DOI Listing
March 2015

Early mesozoic coexistence of amniotes and hepadnaviridae.

PLoS Genet 2014 Dec 11;10(12):e1004559. Epub 2014 Dec 11.

Department of Evolutionary Biology (EBC), Uppsala University, Uppsala, Sweden.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1004559DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4263362PMC
December 2014

Comparative genomics reveals insights into avian genome evolution and adaptation.

Science 2014 Dec 11;346(6215):1311-20. Epub 2014 Dec 11.

China National GeneBank, Beijing Genomics Institute (BGI)-Shenzhen, Shenzhen, 518083, China. Macau University of Science and Technology, Avenida Wai long, Taipa, Macau 999078, China. Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen, Denmark. Princess Al Jawhara Center of Excellence in the Research of Hereditary Disorders, King Abdulaziz University, Jeddah 21589, Saudi Arabia. Department of Medicine, University of Hong Kong, Hong Kong.

View Article

Download full-text PDF

Source
http://jarvislab.net/wp-content/uploads/2014/12/Science-2014
Web Search
http://www.sciencemag.org/cgi/doi/10.1126/science.1251385
Publisher Site
http://dx.doi.org/10.1126/science.1251385DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4390078PMC
December 2014

Whole-genome analyses resolve early branches in the tree of life of modern birds.

Authors:
Erich D Jarvis Siavash Mirarab Andre J Aberer Bo Li Peter Houde Cai Li Simon Y W Ho Brant C Faircloth Benoit Nabholz Jason T Howard Alexander Suh Claudia C Weber Rute R da Fonseca Jianwen Li Fang Zhang Hui Li Long Zhou Nitish Narula Liang Liu Ganesh Ganapathy Bastien Boussau Md Shamsuzzoha Bayzid Volodymyr Zavidovych Sankar Subramanian Toni Gabaldón Salvador Capella-Gutiérrez Jaime Huerta-Cepas Bhanu Rekepalli Kasper Munch Mikkel Schierup Bent Lindow Wesley C Warren David Ray Richard E Green Michael W Bruford Xiangjiang Zhan Andrew Dixon Shengbin Li Ning Li Yinhua Huang Elizabeth P Derryberry Mads Frost Bertelsen Frederick H Sheldon Robb T Brumfield Claudio V Mello Peter V Lovell Morgan Wirthlin Maria Paula Cruz Schneider Francisco Prosdocimi José Alfredo Samaniego Amhed Missael Vargas Velazquez Alonzo Alfaro-Núñez Paula F Campos Bent Petersen Thomas Sicheritz-Ponten An Pas Tom Bailey Paul Scofield Michael Bunce David M Lambert Qi Zhou Polina Perelman Amy C Driskell Beth Shapiro Zijun Xiong Yongli Zeng Shiping Liu Zhenyu Li Binghang Liu Kui Wu Jin Xiao Xiong Yinqi Qiuemei Zheng Yong Zhang Huanming Yang Jian Wang Linnea Smeds Frank E Rheindt Michael Braun Jon Fjeldsa Ludovic Orlando F Keith Barker Knud Andreas Jønsson Warren Johnson Klaus-Peter Koepfli Stephen O'Brien David Haussler Oliver A Ryder Carsten Rahbek Eske Willerslev Gary R Graves Travis C Glenn John McCormack Dave Burt Hans Ellegren Per Alström Scott V Edwards Alexandros Stamatakis David P Mindell Joel Cracraft Edward L Braun Tandy Warnow Wang Jun M Thomas P Gilbert Guojie Zhang

Science 2014 Dec;346(6215):1320-31

China National GeneBank, BGI-Shenzhen, Shenzhen 518083, China. Centre for Social Evolution, Department of Biology, Universitetsparken 15, University of Copenhagen, DK-2100 Copenhagen, Denmark.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1126/science.1253451DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405904PMC
December 2014

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs.

Science 2014 Dec 11;346(6215):1254449. Epub 2014 Dec 11.

Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA. Institute for Genomics, Biocomputing and Biotechnology, Mississippi State University, Mississippi State, MS 39762, USA. Department of Biological Sciences, Texas Tech University, Lubbock, TX 79409, USA.

View Article

Download full-text PDF

Source
http://jarvislab.net/wp-content/uploads/2012/02/Green-et-al-
Web Search
http://www.sciencemag.org/cgi/doi/10.1126/science.1254449
Publisher Site
http://dx.doi.org/10.1126/science.1254449DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4386873PMC
December 2014

Incongruence among different mitochondrial regions: a case study using complete mitogenomes.

Mol Phylogenet Evol 2014 Sep 12;78:314-23. Epub 2014 Jun 12.

Department of Biology, University of Florida, Gainesville, FL, United States. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2014.06.003DOI Listing
September 2014

Does more sequence data improve estimates of galliform phylogeny? Analyses of a rapid radiation using a complete data matrix.

PeerJ 2014 22;2:e361. Epub 2014 Apr 22.

Department of Biology, University of Florida , Gainesville, FL , USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.7717/peerj.361DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4006227PMC
May 2014

Assessing phylogenetic relationships among galliformes: a multigene phylogeny with expanded taxon sampling in Phasianidae.

PLoS One 2013 31;8(5):e64312. Epub 2013 May 31.

Key Laboratory for Biodiversity Sciences and Ecological Engineering of Ministry of Education, College of Life Sciences, Beijing Normal University, Beijing, China.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0064312PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3669371PMC
February 2014

Identifying localized biases in large datasets: a case study using the avian tree of life.

Mol Phylogenet Evol 2013 Dec 20;69(3):1021-32. Epub 2013 Jun 20.

Department of Biology, University of Florida, Gainesville, FL 32611, United States. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2013.05.029DOI Listing
December 2013

Ratite nonmonophyly: independent evidence from 40 novel Loci.

Syst Biol 2013 Jan 24;62(1):35-49. Epub 2012 Jul 24.

Department of Biology, University of Florida, P.O. Box 118525, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/sysbio/sys067DOI Listing
January 2013

Assessing parameter identifiability in phylogenetic models using data cloning.

Syst Biol 2012 Dec 30;61(6):955-72. Epub 2012 May 30.

Department of Biology, University of Florida, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/sysbio/sys055DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3478565PMC
December 2012

An unbiased approach to identify genes involved in development in a turtle with temperature-dependent sex determination.

BMC Genomics 2012 Jul 15;13:308. Epub 2012 Jul 15.

Genetics Department, University of Georgia, Athens, GA 30602, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-13-308DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3434017PMC
July 2012

Evolutionary genomics implies a specific function of Ant4 in mammalian and anole lizard male germ cells.

PLoS One 2011 12;6(8):e23122. Epub 2011 Aug 12.

Department of Pathology, College of Medicine, University of Florida, Gainesville, Florida, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0023122PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3155547PMC
February 2012

Testing hypotheses about the sister group of the passeriformes using an independent 30-locus data set.

Mol Biol Evol 2012 Feb 22;29(2):737-50. Epub 2011 Sep 22.

Department of Biology, University of Florida, FL, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msr230DOI Listing
February 2012

A macroevolutionary perspective on multiple sexual traits in the phasianidae (galliformes).

Int J Evol Biol 2011 2;2011:423938. Epub 2011 May 2.

Department of Biology, University of Florida, P.O. Box 118525, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.4061/2011/423938DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3119463PMC
July 2011

Evolutionary and comparative analysis of MYB and bHLH plant transcription factors.

Plant J 2011 Apr;66(1):94-116

Plant Biotechnology Center and Department of Molecular Genetics, Ohio State University, Columbus, OH 43210, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1365-313X.2010.04459.xDOI Listing
April 2011

Comparative molecular evolution and phylogenetic utility of 3'-UTRs and introns in Galliformes.

Mol Phylogenet Evol 2010 Aug 14;56(2):536-42. Epub 2010 Apr 14.

Department of Biology, The University of Florida, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2010.04.006DOI Listing
August 2010

Turtle isochore structure is intermediate between amphibians and other amniotes.

Integr Comp Biol 2008 Oct 24;48(4):454-62. Epub 2008 Jun 24.

Department of Zoology, University of Florida, 223 Bartram Hall, PO Box 118525, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/icb/icn062DOI Listing
October 2008

Duplications and functional divergence of ADP-glucose pyrophosphorylase genes in plants.

BMC Evol Biol 2008 Aug 12;8:232. Epub 2008 Aug 12.

Program in Plant Molecular and Cellular Biology and Horticultural Sciences, University of Florida, Gainesville, Florida 32610-0245, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2148-8-232DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2529307PMC
August 2008

Duplication of accelerated evolution and growth hormone gene in passerine birds.

Mol Biol Evol 2008 Feb 28;25(2):352-61. Epub 2007 Nov 28.

Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, 4210 Silver Hill Road, Suitland, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm260DOI Listing
February 2008

Introns outperform exons in analyses of basal avian phylogeny using clathrin heavy chain genes.

Gene 2008 Feb 7;410(1):89-96. Epub 2007 Dec 7.

Department of Zoology, 223 Bartram Hall, University of Florida, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2007.11.016DOI Listing
February 2008

PHYLOGENOMICS AND SECONDARY PLASTIDS: A LOOK BACK AND A LOOK AHEAD(1).

J Phycol 2008 Feb;44(1):2-6

Department of Zoology, University of Florida, Gainesville, Florida 32611, USABiology Department, Arcadia University, 450 S. Easton Rd., Glenside, Pennsylvania 19038, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1529-8817.2007.00432.xDOI Listing
February 2008

GENOMIC INSIGHTS INTO EVOLUTIONARY RELATIONSHIPS AMONG HETEROKONT LINEAGES EMPHASIZING THE PHAEOPHYCEAE(1).

J Phycol 2008 Feb;44(1):15-8

Biology Department, Arcadia University, 450 S. Easton Rd., Glenside, Pennsylvania 19038, USADepartment of Biological Sciences and Roy J. Carver Center for Comparative Genomics, University of Iowa, 446 Biology Building, Iowa City, Iowa 52242, USAZoology Department, University of Florida, Gainesville, Florida 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1529-8817.2007.00435.xDOI Listing
February 2008

Patterns of vertebrate isochore evolution revealed by comparison of expressed mammalian, avian, and crocodilian genes.

J Mol Evol 2007 Sep 3;65(3):259-66. Epub 2007 Aug 3.

Department of Zoology, University of Florida, Gainesville, FL 32611, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00239-007-9003-2DOI Listing
September 2007

The two AGPase subunits evolve at different rates in angiosperms, yet they are equally sensitive to activity-altering amino acid changes when expressed in bacteria.

Plant Cell 2007 May 11;19(5):1458-72. Epub 2007 May 11.

Program in Plant Molecular and Cellular Biology and Horticultural Sciences, University of Florida, Gainesville, Florida 32610-0245, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1105/tpc.106.049676DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1913735PMC
May 2007

The evolution of seminal ribonuclease: pseudogene reactivation or multiple gene inactivation events?

Mol Biol Evol 2007 Apr 30;24(4):1012-24. Epub 2007 Jan 30.

Foundation for Applied Molecular Evolution, Gainesville, Florida, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm020DOI Listing
April 2007

Mitochondrial genomes and avian phylogeny: complex characters and resolvability without explosive radiations.

Mol Biol Evol 2007 Jan 24;24(1):269-80. Epub 2006 Oct 24.

Allan Wilson Centre for Molecular Ecology and Evolution, Massey University, Palmerston North, New Zealand.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msl158DOI Listing
January 2007

Innovation from reduction: gene loss, domain loss and sequence divergence in genome evolution.

Authors:
Edward L Braun

Appl Bioinformatics 2003 ;2(1):13-34

Department of Zoology, University of Florida, Gainesville, FL 32611-8525, USA.

View Article

Download full-text PDF

Source
March 2006

Molecular cloning of the estrogen and progesterone receptors of the American alligator.

Gen Comp Endocrinol 2004 Mar;136(1):122-33

Center for Integrative Bioscience, National Institute for Basic Biology, Okazaki National Research Institutes, Higashiyama, Myodaiji, Okazaki, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ygcen.2003.11.008DOI Listing
March 2004

Recently duplicated maize R2R3 Myb genes provide evidence for distinct mechanisms of evolutionary divergence after duplication.

Plant Physiol 2003 Feb;131(2):610-20

Plant Genetics Research and Plant Science Units, United States Department of Agriculture-Agricultural Research Service, University of Missouri, Columbia, Missouri 65211, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1104/pp.012047DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC166837PMC
February 2003

Examining Basal avian divergences with mitochondrial sequences: model complexity, taxon sampling, and sequence length.

Syst Biol 2002 Aug;51(4):614-25

Department of Zoology, 223 Bartram Hall, P.O. Box 118525, University of Florida, Gainesville, Florida 32611-8525, USA.

View Article

Download full-text PDF

Source
http://academic.oup.com/sysbio/article/51/4/614/1698775
Publisher Site
http://dx.doi.org/10.1080/10635150290102294DOI Listing
August 2002