{"id":19,"date":"2012-09-05T11:22:25","date_gmt":"2012-09-05T15:22:25","guid":{"rendered":"https:\/\/people.clas.ufl.edu\/template\/?page_id=19"},"modified":"2026-03-19T08:29:20","modified_gmt":"2026-03-19T12:29:20","slug":"publications","status":"publish","type":"page","link":"https:\/\/people.clas.ufl.edu\/ebraun\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"\r\n
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Publications<\/h1>\n\n\n\n

Links:<\/h3>\n\n\n\n

\u00a0 \u00a0 \u00a0Braun Google Scholar Page<\/a><\/h3>\n\n\n\n

\u00a0 \u00a0 \u00a0Braun ORCID Page<\/a><\/h3>\n\n\n\n

<\/a><\/h3>\n\n\n\n\n\n\n\n

Complete list (student and postdoc coauthors indicated using superscripts (U = undergraduate, G = graduate, P = postdoc)<\/a><\/h3>\n\n\n\n\n\n\n\n
  1. Tiley, GPG<\/sup>, A PandeyG<\/sup>, RT Kimball, EL Braun<\/strong> & JG Burleigh. 2020. Whole genome phylogeny of Gallus<\/em>: introgression and data-type effects. Avian Research<\/em><\/strong>, 11<\/strong>: 7. https:\/\/doi.org\/10.1186\/s40657-020-00194-w<\/a><\/li>\n
  2. Pandey, AG<\/sup> & EL Braun<\/strong>. 2020. Phylogenetic analyses of sites in different protein structural environments result in distinct placements of the metazoan root. Biology<\/em><\/strong>, 9<\/strong>: 64. https:\/\/doi.org\/10.3390\/biology9040064<\/a><\/li>\n
  3. Braun, EL<\/strong>, J Cracraft & P Houde.<\/strong> 2019. Resolving the avian tree of life from top to bottom: The promise and potential boundaries of the phylogenomic era. in Avian Genomics in Ecology and Evolution – From the lab into the wild<\/em> (RHS Kraus, editor) Springer, Cham, Switzerland. pp. 151-210. https:\/\/doi.org\/10.1007\/978-3-030-16477-5_6<\/a>.<\/li>\n
  4. Houde, P, EL Braun<\/strong>, N Narula, U Minjares & S Mirarab. 2019. Phylogenetic signal of indels and the neoavian radiation. Diversity<\/em><\/strong>, 11<\/strong>: 108. https:\/\/doi.org\/10.3390\/d11070108<\/a><\/li>\n
  5. Kimball, RT, CH Oliveros, N Wang, ND White, FK Barker, DJ Field, DT Ksepka, RT Chesser, RG Moyle, MJ Braun, RT Brumfield, BC Faircloth, BT Smith & EL Braun<\/strong>. 2019. A phylogenomic supertree of birds. Diversity<\/em><\/strong>, 11<\/strong>: 109. https:\/\/doi.org\/10.3390\/d11070109<\/a><\/li>\n
  6. Oliveros, CH, DJ Field, DT Ksepka, FK Barker, A Aleixo, MJ Andersen, P. Alstr\u00f6m, BW Benz, EL Braun<\/strong>, MJ Braun, GA Bravo, RT Brumfield, RT Chesser,\u2028S Claramunt, J Cracraft, AM Cuervo, EP Derryberry, TC Glenn, MG Harvey, PA Hosner, L Joseph, RT Kimball, AL Mack, CM Miskelly, AT Peterson, MB Robbins, FH Sheldon, LF Silveira, BT Smith, ND White, RG Moyle & BC Faircloth. 2019. Earth history and the passerine superradiation. Proceedings of the National Academy of Sciences<\/em><\/strong>, 116<\/strong>: 7916-7925. https:\/\/doi.org\/10.1073\/pnas.1813206116<\/a><\/li>\n
  7. Tamashiro, RAU<\/sup>, ND White, MJ Braun, BC Faircloth, EL Braun<\/strong> & RT Kimball. 2019. What are the roles of taxon sampling and model fit in tests of cyto-nuclear discordance using avian mitogenomic data? Molecular Phylogenetics and Evolution<\/em><\/strong>, 130<\/strong>: 132-142. https:\/\/doi.org\/10.1016\/j.ympev.2018.10.008<\/a><\/li>\n
  8. Braun, EL<\/strong>. 2018. An evolutionary model motivated by physicochemical properties of amino acids reveals variation among proteins. Bioinformatics<\/em><\/strong>, 34<\/strong>: i350-i356. https:\/\/doi.org\/10.1093\/bioinformatics\/bty261<\/a><\/li>\n
  9. Chen, DP<\/sup>, EL Braun<\/strong>, M Forthman, RT Kimball & Z Zhang. 2018. A simple strategy for recovering ultraconserved elements, exons, and introns from low coverage shotgun sequencing of museum specimens: placement of the partridge genus Tropicoperdix<\/em> within the Galliformes. Molecular Phylogenetics and Evolution<\/em><\/strong>, 129<\/strong>: 304-314. https:\/\/doi.org\/10.1016\/j.ympev.2018.09.005<\/a><\/li>\n
  10. Eimanifar, AP<\/sup>, RT Kimball, EL Braun<\/strong> & JD Ellis. 2018. Mitochondrial genome diversity and population structure of two western honey bee subspecies in the Republic of South Africa. Scientific Reports<\/em><\/strong>, 8<\/strong>: 1333. https:\/\/doi.org\/10.1038\/s41598-018-19759-3<\/a><\/li>\n
  11. Liang, B, N Wang, N Li, RT Kimball & EL Braun<\/strong>. 2018. Comparative genomics reveals a burst of homoplasy-free numt<\/em> insertions, Molecular Biology and Evolution<\/em><\/strong>, 35: 2060-2064. https:\/\/doi.org\/10.1093\/molbev\/msy112<\/a><\/li>\n
  12. Tiley, GPG<\/sup>, RT Kimball, EL Braun<\/strong> & JG Burleigh. 2018. Comparison of the Chinese bamboo partridge and red junglefowl genome sequences highlights the importance of demography in genome evolution. BMC Genomics<\/em><\/strong>, 19: 336. https:\/\/doi.org\/10.1186\/s12864-018-4711-0<\/a><\/li>\n
  13. Ascunce, MSP<\/sup>, JC Huguet-TapiaP<\/sup>, A Ortiz-Urquiza, NO Keyhani, EL Braun<\/strong> & EM Goss. 2017. Phylogenomic analysis supports multiple instances of polyphyly in the oomycete peronosporalean lineage. Molecular Phylogenetics and Evolution<\/em><\/strong>, 114<\/strong>: 199-211. https:\/\/doi.org\/10.1016\/j.ympev.2017.06.013<\/a><\/li>\n
  14. Hosner, PAP<\/sup>, JA Tobias, EL Braun<\/strong> & RT Kimball. 2017. How do seemingly non-vagile clades accomplish trans-marine dispersal? Trait and dispersal evolution in the landfowl. Proceedings of the Royal Society B: Biological Sciences<\/em><\/strong>, 284<\/strong>: 20170210. https:\/\/doi.org\/10.1098\/rspb.2017.0210<\/a><\/li>\n
  15. Feng, GG<\/sup>, JG Burleigh, EL Braun<\/strong>, W Mei & WB Barbazuk. 2017. Evolution of the 3R-MYB gene family in plants. Genome Biology and Evolution<\/em><\/strong>, 9<\/strong>: 1013-1029. https:\/\/doi.org\/10.1093\/gbe\/evx056<\/a><\/li>\n
  16. Reddy, S, RT Kimball, A PandeyG<\/sup>, PA HosnerP<\/sup>, MJ Braun, SJ Hackett, K-L Han, J Harshman, CJ Huddleston, S Kingston, BD Marks, KJ Miglia, WS Moore, FH Sheldon, CC Witt, T Yuri & EL Braun<\/strong>. 2017. Why do phylogenomic data sets yield conflicting trees? Data type influences the avian tree of life more than taxon sampling. Systematic Biology<\/em><\/strong>, 66<\/strong>: 857-879. (Altmetric 43; top 5%) https:\/\/doi.org\/10.1093\/sysbio\/syx041<\/a><\/li>\n
  17. Wang, N, RT Kimball, EL Braun<\/strong>, B Liang & Z Zhang. 2017. Ancestral range reconstruction of Galliformes: the effects of topology and taxon sampling. Journal of Biogeography<\/em><\/strong>, 44<\/strong>: 122-135. https:\/\/doi.org\/10.1111\/jbi.12782<\/a><\/li>\n
  18. Wang, N, PA HosnerP<\/sup>, B Liang, EL Braun<\/strong> & RT Kimball. 2017. Historical relationships of three enigmatic phasianid genera (Aves: Galliformes) inferred using phylogenomic and mitogenomic data. Molecular Phylogenetics and Evolution<\/em><\/strong>, 109<\/strong>: 217-225. https:\/\/doi.org\/10.1016\/j.ympev.2017.01.006<\/a><\/li>\n
  19. Corrochano, LM, A Kuo, M Marcet-Houben, S Polaino, A Salamov, JM Villalobos, MI \u00c1lvarez, J Avalos, EP Benito, I Benoit, G Burger, LP Camino, D C\u00e1novas, E Cerd\u00e1-Olmedo, J-F Cheng, A Dom\u00ednguez, M Eli\u00e1\u0161, AP Eslava, F Glaser, J Grimwood, G Guti\u00e9rrez, J Heitman, B Henrissat, EA Iturriaga, BF Lang, JL Lav\u00edn, SC Lee, We Li, E Lindquist, S L\u00f3pez-Garc\u00eda, EM Luque, AT Marcos, J Martin, K McCluskey, HR Medina, A Miralles-Dur\u00e1n, A Miyazaki, E Mu\u00f1oz-Torres, JA Oguiza, R Ohm, M Olmedo, M Orejas, L Ortiz-Castellanos, AG Pisabarro, J Rodr\u00edguez-Romero,J Ruiz-Herrera, R Ruiz-V\u00e1zquez, C Sanz, W Schackwitz, J Schmutz, M Shahriari, E Shelest, F Silva-Franco, D Soanes, K Syed, VG Tagua, NJ Talbot, M Thon, RP de Vries, A Wiebenga, JS Yadav, EL Braun<\/strong>, S Baker, V Garre, B Horwitz, S Torres-Mart\u00ednez, A Idnurm, A Herrera-Estrella, T Gabald\u00f3n & IV Grigoriev. Expansion of signal transduction pathways in fungi by whole-genome duplication. Current Biology<\/em><\/strong>, 26<\/strong>: 1577-1584. https:\/\/doi.org\/10.1016\/j.cub.2016.04.038<\/a><\/li>\n
  20. Hosner, PAP<\/sup>, EL Braun<\/strong> & RT Kimball. 2016. Rapid and recent diversification of curassows, guans, and chachalacas (Galliformes: Cracidae) out of Mesoamerica: Phylogeny inferred from mitochondrial, intron, and ultraconserved element sequences. Molecular Phylogenetics and Evolution<\/em><\/strong>, 102<\/strong>: 320-330. https:\/\/doi.org\/10.1016\/j.ympev.2016.06.006<\/a><\/li>\n
  21. Hosner, PAP<\/sup>, BC Faircloth, TC Glenn, EL Braun<\/strong> & RT Kimball. 2016. Avoiding missing data biases in phylogenomic inference: an empirical study in the landfowl (Aves: Galliformes). Molecular Biology and Evolution<\/em><\/strong>, 33<\/strong>: 1110-1125. https:\/\/doi.org\/10.1093\/molbev\/msv347<\/a><\/li>\n
  22. Meiklejohn, KAP<\/sup>, BC Faircloth, TC Glenn, RT Kimball & EL Braun<\/strong>. 2016. Analysis of a rapid evolutionary radiation using ultraconserved elements (UCEs): Evidence for a bias in some multi-species coalescent methods. Systematic Biology<\/em><\/strong>, 65<\/strong>: 612-627.<\/li>\n
  23. Persons, NWU<\/sup>, PA HosnerP<\/sup>, KA MeiklejohnP<\/sup>, EL Braun<\/strong> & RT Kimball. 2016. Sorting out relationships among the grouse and ptarmigan using intron, mitochondrial, and ultra-conserved element sequences. Molecular Phylogenetics and Evolution<\/em><\/strong>, 98<\/strong>: 123-132. https:\/\/doi.org\/10.1016\/j.ympev.2016.02.003<\/a><\/li>\n
  24. Burleigh, JG, RT Kimball & EL Braun<\/strong>. 2015. Building the avian tree of life using a large-scale, sparse supermatrix. Molecular Phylogenetics and Evolution<\/em><\/strong>, 84<\/strong>: 53-63. https:\/\/doi.org\/10.1016\/j.ympev.2014.12.003<\/a><\/li>\n
  25. Cracraft, J, P Houde, SYW Ho, DP Mindell, J Fjelds\u00e5, B Lindow, SV Edwards, C Rahbek, S Mirarab, T Warnow, MTP Gilbert, G Zhang, EL Braun<\/strong> & ED Jarvis. 2015. Response to comment on \u201cWhole-genome analyses resolve early branches in the Tree of Life of modern birds\u201d Science<\/em><\/strong>, 349<\/strong>: 1460. https:\/\/doi.org\/10.1126\/science.aab1578<\/a><\/li>\n
  26. Hosner, PAP<\/sup>, EL Braun<\/strong> & RT Kimball. 2015. Tertiary land bridges and global cooling shaped the colonization history and diversification of New World quail (Aves: Galliformes: Odontophoridae). Journal of Biogeography<\/em><\/strong>, 42<\/strong>: 1883-1895. https:\/\/doi.org\/10.1111\/jbi.12555<\/a><\/li>\n
  27. Jarvis, ED, S Mirarab, AJ Aberer, Bo Li, P Houde, C Li, SYW Ho, BC Faircloth, B Nabholz, JT Howard, A Suh, CC Weber, RR da Fonseca, A Alfaro-N\u00fa\u00f1ez, N Narula, L Liu, D Burt, H Ellegren, SV Edwards, A Stamatakis, DP Mindell, J Cracraft, EL Braun<\/strong>, T Warnow, Wang J, MTP Gilbert, G Zhang & The Avian Phylogenomics Consortium. 2015. Phylogenomic analyses data of the Avian Phylogenomics Project. GigaScience<\/em><\/strong>, 4<\/strong>: 4. https:\/\/doi.org\/10.1186\/s13742-014-0038-1<\/a><\/li>\n
  28. Pope, WH, CA Bowman, DA Russell, D Jacobs-Sera, DJ Asai, SG Cresawn, WR Jacobs, RW Hendrix, JG Lawrence, GF Hatfull, Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science<\/strong>, Phage Hunters Integrating Research and Education & Mycobacterial Genetics Course. 2015. Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity. Elife<\/em><\/strong>, 4<\/strong>: e06416. https:\/\/doi.org\/10.7554\/eLife.06416<\/a>\u00a0(Braun contributed to this paper as an instructor in the UF SEA \u201cphage hunters\u201d course)<\/li>\n
  29. Suh, A, G Churakov, MP Ramakodi, RN Platt II, J Jurka, KK Kojima, J Caballero, A Smit, FG Hoffmann, J Brosius, EL Braun<\/strong>, RE Green, H Ellegren, DA Ray & J Schmitz. 2015. Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes. Genome Biology and Evolution<\/em><\/strong>, 7<\/strong>: 205-217. https:\/\/doi.org\/10.1093\/gbe\/evu256<\/a><\/li>\n
  30. Green, RE, EL Braun<\/strong>, J Armstrong, D Earl, N Nguyen, MW Vandewege, JA St John, S Capella-Guti\u00e9rrez, TA Castoe, C Kern, MK Fujita, JC Opazo, J Jurka, KK Kojima, J Caballero, RM Hubley, AAF Smit, RN Platt II, CA Lavoie, M Ramakodi, JW Finger, A Suh, SR Isberg, L Miles, AY Chong, W Jaratlerdsiri, J Gongora, C Moran, A Iriarte, BC Faircloth, J McCormack, SC Burgess, SV Edwards, E Lyons, C Williams, M Breen, CR Gresham, DG Peterson, J Schmitz, DD Pollock, D Haussler, EW Triplett, G Zhang, N Irie, ED Jarvis, CA Brochu, C Schmidt, F McCarthy, FG Hoffmann, TC Glenn, T Gabald\u00f3n, B Paten & DA Ray. 2014.<\/em> Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science<\/em><\/strong>, 346<\/strong>: 1254449. http:\/\/doi.org\/10.1126\/science.1254449<\/a><\/li>\n
  31. Jarvis, ED, S Mirarab, AJ Aberer, B Li, P Houde, C Li, SYW Ho, BC Faircloth, B Nabholz, JT Howard, A Suh, CC Weber, RR da Fonseca, J Li, F Zhang, H Li, L Zhou, N Narula, L Liu, G Ganapathy, B Boussau, Md S Bayzid, V Zavidovych, S Subramanian, T Gabald\u00f3n, S Capella-Guti\u00e9rrez, J Huerta-Cepas, B Rekepalli, K Munch, M Schierup, B Lindow, WC Warren, D Ray, RE Green, M Bruford, X Zhan, A Dixon, S Li, N Li, Y Huang, EP Derryberry, MF Bertelsen, F Sheldon, RT Brumfield, C Mello, PV Lovell, M Wirthlin, JA Samaniego, AMV Velazquez, A Alfaro-N\u00fa\u00f1ez, PF Campos, T Sicheritz-Ponten, A Pas, T Bailey, P Scofield, M Bunce, D Lambert, Q Zhou, P Perelman, AC Driskell, G Ruby, B Shapiro, Z Xiong, Y Zeng, S Liu, Z Li, B Liu, K Wu, J Xiao, X Yinqi, Q Zheng, Y Zhang, H Yang, J Wang, L Smeds, FE Rheindt, M Braun, J Fjelds\u00e5, L Orlando, K Barker, KA J\u00f8nsson, W Johnson, K-P Koepfli, S O’Brien, D Haussler, OA Ryder, C Rahbek, E Willerslev, GR Graves, TC Glenn, J McCormack, D Burt, H Ellegren, P Alstr\u00f6m, SV Edwards, A Stamatakis, DP Mindell, J Cracraft, EL Braun<\/strong>, T Warnow, Wang J, MTP Gilbert & G Zhang. 2014. Whole genome analyses resolve the early branches in the Tree of Life of modern birds. Science<\/em><\/strong>, 346<\/strong>: 1320-1331. https:\/\/doi.org\/10.1126\/science.1253451<\/a>\u00a0(the link to the National Public Radio interview of ED Jarvis and myself by Geoff Brumfiel is permanently available at http:\/\/www.npr.org\/blogs\/health\/2014\/12\/11\/370087804\/birds-of-a-feather-arent-necessarily-related<\/a>)<\/li>\n
  32. Kimball, RT & EL Braun<\/strong>. 2014. Does more sequence data improve estimates of galliform phylogeny? Analyses of a rapid radiation using a complete data matrix. PeerJ<\/em><\/strong>, 2<\/strong>: e361. https:\/\/doi.org\/10.7717\/peerj.361<\/a><\/li>\n
  33. Meiklejohn, KAP<\/sup>, MJ Danielson, BC Faircloth, TC Glenn, EL Braun<\/strong> & RT Kimball. 2014. Incongruence among different mitochondrial regions: A case study using complete mitogenomes. Molecular Phylogenetics and Evolution<\/em><\/strong>, 78<\/strong>:314-323. https:\/\/doi.org\/10.1016\/j.ympev.2014.06.003<\/a><\/li>\n
  34. Suh, A, CC Weber, C Kehlmaier, EL Braun<\/strong>, RE Green, U Fritz, DA Ray & H Ellegren. 2014. Early Mesozoic coexistence of amniotes and Hepadnaviridae. PLoS Genetics<\/em><\/strong>, 10<\/strong>: e1004559. https:\/\/doi.org\/10.1371\/journal.pgen.1004559<\/a><\/li>\n
  35. Sun, K, KA MeiklejohnP<\/sup>, BC Faircloth, TC Glenn, EL Braun<\/strong> & RT Kimball. 2014. The evolution of peafowl and other taxa with ocelli (eyespots): a phylogenomic approach. Proceedings of the Royal Society B: Biological Sciences<\/em><\/strong>, 281<\/strong>:20140823. https:\/\/doi.org\/10.1098\/rspb.2014.0823<\/a><\/li>\n
  36. Zhang G, C Li, Q Li, B Li, DM Larkin, C Lee, JF Storz, A Antunes, RW Meredith, A O\u0308deen, J Cui, Q Zhou, L Xu, H Pan, Z Wang, L Jin, P Zhang, H Hu, W Yang, J Hu, J Xiao, Z Yang, Y Liu, Q Xie, J Lian, P Wen, F Zhang, H Li, Y Zeng, Z Xiong, S Liu, L Zhou, Z Huang, N An, J Wang, Q Zheng, Y Xiong, G Wang, B Wang, J Wang, Y Fang, R da Fonseca, A Alfaro-Nu\u0301n\u0303ez, M Schubert, L Orlando, T Mourier, J Howard, G Ganapathy, J Smith, M Farre\u0301, J Narayan, G Slavov, MN Romanov, R Borges, JP Machado, I Khan, MS Springer, J Gatesy, FG Hoffmann, JC Opazo, O Ha\u030astad, MJ Greenwold, RH Sawyer, H Kim, K-W Kim, N Li, Y Huang, MW Bruford, X Zhan, A Dixon, M Bertelsen, E Derryberry, W Warren, S Li, DA Ray, RE Green, SJ O\u2019Brien, D Griffin, WE Johnson, D Haussler, OA Ryder, E Willerslev, G Graves, P Alstro\u0308m, J Fjeldsa\u030a, D Mindell, SV Edwards, EL Braun<\/strong>, C Rahbek, DW Burt, P Houde, Y Zhang, H Yang, J Wang, Avian Genome Consortium, ED Jarvis, MTP Gilbert & Wang J. 2014. Comparative genomics across modern bird species reveal insights into pan-avian genome evolution and trait biodiversity. Science<\/em><\/strong>, 346<\/strong>: 1311-1320. https:\/\/doi.org\/10.1126\/science.1251385<\/a><\/li>\n
  37. Kimball, RT, N WangG<\/sup>, V Heimer-McGinnU<\/sup>, C FergusonU<\/sup>, EL Braun<\/strong>. 2013. Identifying localized biases in large datasets: A case study using the Avian Tree of Life. Molecular Phylogenetics and Evolution<\/em><\/strong>, 69<\/strong>: 1021-1032. https:\/\/doi.org\/10.1016\/j.ympev.2013.05.029<\/a><\/li>\n
  38. Patel, SG<\/sup>, RT Kimball & EL Braun<\/strong>. 2013. Error in phylogenetic estimation for bushes in the Tree of Life. Journal of Phylogenetics & Evolutionary Biology<\/em><\/strong>, 1<\/strong>: 110. https:\/\/doi.org\/10.4172\/2329-9002.1000110<\/a><\/li>\n
  39. Shaffer, HB, P Minx, DE Warren, AM Shedlock, RC Thomson, N Valenzuela, J Abramyan, CT Amemiya, D Badenhorst, KK Biggar, GM Borchert, CW Botka, RM Bowden, EL Braun<\/strong>, AM Bronikowski, BG Bruneau, LT Buck, B Capel, TA Castoe, M Czerwinski, KD Delehaunty, SV Edwards, CC Fronick, MK Fujita, L Fulton, TA Graves, RE Green, W Haerty, R Hariharan, O Hernandez, LW Hillier, AK Holloway, D Janes, FJ Janzen, C Kandoth, L Kong, APJ de Koning, Y Li, R Literman, SE McGaugh, L Mork, M O\u2019Laughlin, RT Paitz, DD Pollock, CP Ponting, S Radhakrishnan, BJ Raney, JM Richman, J St. John, T Schwartz, A Sethuraman, PQ Spinks, KB Storey, N Thane, T Vinar, LM Zimmerman, WC Warren, ER Mardis & RK Wilson. 2013. The Western Painted Turtle genome: the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biology<\/em><\/strong>, 14<\/strong>: R28. https:\/\/doi.org\/10.1186\/gb-2013-14-3-r28<\/a><\/li>\n
  40. Smith, JVU,G<\/sup>, EL Braun<\/strong> & RT Kimball. 2013. Ratite non-monophyly: Independent evidence from 40 novel loci. Systematic Biology<\/em><\/strong>, 62<\/strong>: 35- https:\/\/doi.org\/10.1093\/sysbio\/sys067<\/a><\/li>\n
  41. Wang, NG<\/sup>, RT Kimball, EL Braun<\/strong>, B Liang & Z Zhang. 2013. Assessing phylogenetic relationships among Galliformes: A multigene phylogeny with expanded taxon sampling in Phasianidae. PLoS ONE<\/em><\/strong>, 8<\/strong>:e64312. https:\/\/doi.org\/10.1371\/journal.pone.0064312<\/a><\/li>\n
  42. Yuri, TP<\/sup>, RT Kimball, J Harshman, RCK Bowie, MJ Braun, JL ChojnowskiG<\/sup>, SJ Hackett, K-L HanG<\/sup>, SJ Hackett, CJ Huddleston, WS Moore, S Reddy, FH Sheldon, DW Steadman, CC Witt & EL Braun<\/strong>. 2013.<\/em> Parsimony and model-based analyses of indels in avian nuclear genes reveal congruent and incongruent phylogenetic signals. Biology<\/em><\/strong>, 2<\/strong>: 419-444. https:\/\/doi.org\/10.3390\/biology2010419<\/a><\/li>\n
  43. Chojnowski, JLG<\/sup> & EL Braun<\/strong>. 2012. An unbiased approach to identify genes involved in development in a turtle with temperature-dependent sex determination. BMC Genomics<\/em><\/strong>, 13<\/strong>: 308.<\/li>\n
  44. Ponciano, JM, JG Burleigh, EL Braun<\/strong> & ML Taper. 2012. Assessing parameter identifiability in phylogenetic models using Data Cloning. Systematic Biology<\/strong><\/em>, 61<\/strong>: 955-972. https:\/\/doi.org\/10.1093\/sysbio\/sys055<\/a><\/li>\n
  45. St John, JA, EL Braun<\/strong>, SR Isberg, LB Miles, AY Chong, J Gongora, P Dalzell, C Moran, B Bed’hom, A Abzhanov, SC Burgess, AM Cooksey, TA Castoe, NG Crawford, LD Densmore, JC Drew, SV Edwards, BC Faircloth, MK Fujita, MJ Greenwold, FG Hoffmann, JM Howard, T Iguchi, DE Janes, SY Khan, S Kohno, APJ de Koning, SL Lance, FM McCarthy, JE McCormack, ME Merchant, DG Peterson, DD Pollock, N Pourmand, BJ Raney, KA Roessler, JR Sanford, RH Sawyer, CJ Schmidt, EW Triplett, TD Tuberville, M Venegas-Anaya, JT Howard, ED Jarvis, LJ Guillette Jr, TC Glenn, RE Green & DA Ray. 2012. Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes. Genome Biology<\/em><\/strong>, 13<\/strong>: 415. https:\/\/doi.org\/10.1186\/gb-2012-13-1-415<\/a><\/li>\n
  46. Wang, NG<\/sup>, EL Braun<\/strong> & RT Kimball. 2012. Testing hypotheses about the sister group of the Passeriformes using an independent 30 locus dataset. Molecular Biology and Evolution<\/em><\/strong>, 29<\/strong>: 737-750. https:\/\/doi.org\/10.1093\/molbev\/msr230<\/a><\/li>\n
  47. Braun, EL,<\/strong> RT Kimball, K-L HanG<\/sup>, N Iuhasz-VelezU,<\/sup>G<\/sup>, AJ BonillaU<\/sup>, JL ChojnowskiG<\/sup>, JV SmithU,G<\/sup>, RCK Bowie, MJ Braun, SJ Hackett, J Harshman, CJ Huddleston, BD Marks, KJ Miglia, WS Moore, S Reddy, FH Sheldon, CC Witt & T YuriP<\/sup>. Homoplastic microinversions and the avian tree of life. BMC Evolutionary Biology<\/em><\/strong>, 11<\/strong>: 141. https:\/\/doi.org\/10.1186\/1471-2148-11-141<\/a><\/li>\n
  48. Feller, A, K Machemer, EL Braun<\/strong> & E Grotewold. 2011. Evolutionary and comparative analysis of MYB and bHLH plant transcription factors. The Plant Journal<\/em><\/strong>, 66<\/strong>: 94-116. https:\/\/doi.org\/10.1111\/j.1365-313X.2010.04459.x<\/a><\/li>\n
  49. Han,K-LG<\/sup>, EL Braun<\/strong>, RT Kimball, S Reddy, RCK Bowie, MJ Braun, JL Chojnowski\u2020<\/sup>, SJ Hackett, J Harshman, CJ Huddleston, BD Marks, KJ Miglia, WS Moore, FH Sheldon, DW Steadman, CC Witt & T YuriP<\/sup>. 2011. Are transposable element insertions homoplasy free? An examination using the avian tree of life. Systematic Biology<\/strong><\/em>, 60<\/strong>: 375-386. https:\/\/doi.org\/10.1093\/sysbio\/syq100<\/a><\/li>\n
  50. Kimball, RT, CM St Mary & EL Braun<\/strong>. 2011. A macroevolutionary perspective on multiple sexual traits in the Phasianidae (Galliformes). International Journal of Evolutionary Biology<\/em><\/strong>, Article ID 423938. https:\/\/doi.org\/10.4061\/2011\/423938<\/li>\n
  51. Lim, CH, T Hamazaki, EL Braun<\/strong>, J Wade & N Terada. Evolutionary genomics indicates a specific function of Slc25a31 <\/em>in mammalian and anole lizard germ cells. PLoS ONE<\/em><\/strong>, 6<\/strong>: e23122. https:\/\/doi.org\/10.1371\/journal.pone.0023122<\/a><\/li>\n
  52. Bonilla, AJU<\/sup>, EL Braun<\/strong> & RT Kimball. 2010. <\/em>Comparative molecular evolution and phylogenetic utility of 3\u2019-UTRs and introns in Galliformes. Molecular Phylogenetics and Evolution<\/em><\/strong>, 56<\/strong>: 536-542. https:\/\/doi.org\/10.1016\/j.ympev.2010.04.006<\/a><\/li>\n
  53. Zhu, JG<\/sup>, EL Braun<\/strong>, S Kohno, M Antenos, EY Xu, RW Cook, SJ Lin, BC Moore, LJ Guillette Jr, TS Jardetzky & TK Woodruff. 2010. Phylogenomic analyses reveal the evolutionary origin of the inhibin \u03b1-subunit, a unique TGF\u03b2 superfamily antagonist. PLoS ONE<\/em><\/strong>, 5<\/strong>: e9457. https:\/\/doi.org\/10.1371\/journal.pone.0009457<\/a><\/li>\n
  54. Katsu, YP<\/sup>, EL Braun<\/strong>, LJ Guillette Jr & T Iguchi. 2009.<\/em> From reptilian phylogenomics to reptilian genomes: Analyses of c-Jun<\/em> and DJ-1<\/em> proto-oncogenes. Cytogenetic and Genome Research<\/em><\/strong>, 127<\/strong>: 79-93. https:\/\/doi.org\/10.1159\/000297715<\/a><\/li>\n
  55. Kimball, RT, EL Braun<\/strong>, FK Barker, RCK Bowie, MJ Braun, JL ChojnowskiG<\/sup>, SJ Hackett, K-L HanG<\/sup>, J Harshman, V Heimer-TorresU<\/sup>, W Holznagel, CJ Huddleston, BD Marks, KJ Miglia, WS Moore, S Reddy, FH Sheldon, JV SmithU,G<\/sup>, CC Witt & T YuriP<\/sup>. 2009. A well-tested set of primers to amplify regions spread across the avian genome. Molecular Phylogenetics and Evolution<\/em><\/strong>, 50<\/strong>: 654-660. https:\/\/doi.org\/10.1016\/j.ympev.2008.11.018<\/a><\/li>\n
  56. Braun, EL<\/strong> & N Phillips. 2008. Phylogenomics and secondary plastids: A look back and a look ahead. Journal of Phycology<\/em><\/strong>, 44<\/strong>: 2-6. https:\/\/doi.org\/10.1111\/j.1529-8817.2007.00432.x<\/a><\/li>\n
  57. Chojnowski, JLG<\/sup> & EL Braun<\/strong>. 2008. Turtle isochore structure is intermediate between amphibians and other amniotes. Integrative and Comparative Biology<\/em><\/strong>, 48<\/strong>:454-462. https:\/\/doi.org\/10.1093\/icb\/icn062<\/a><\/li>\n
  58. Chojnowski, JLG<\/sup>, RT Kimball & EL Braun<\/strong>. 2008. Introns outperform exons in analyses of basal avian phylogeny using clathrin heavy chain genes. Gene<\/em><\/strong>, 410<\/strong>: 89-96. https:\/\/doi.org\/10.1016\/j.gene.2007.11.016<\/a><\/li>\n
  59. Georgelis, NG<\/sup>, EL Braun<\/strong> & LC Hannah. 2008. Duplication and functional divergence of ADP-glucose pyrophosphorylase genes in plants. BMC Evolutionary Biology<\/em><\/strong>, 8<\/strong>: 232. https:\/\/doi.org\/10.1186\/1471-2148-8-232<\/a><\/li>\n
  60. Hackett, SJ, RT Kimball, S Reddy, RCK Bowie, EL Braun<\/strong>, MJ Braun, JL ChojnowskiG<\/sup>, WA CoxU<\/sup>, K-L HanG<\/sup>, J Harshman, CJ Huddleston, BD Marks, KJ Miglia, WS Moore, FH Sheldon, DW Steadman, CC Witt & T YuriP<\/sup>. A phylogenomic study of birds reveals their evolutionary history. Science<\/em><\/strong> 320<\/strong>: 1763-1768. https:\/\/doi.org\/10.1126\/science.1157704<\/a><\/li>\n
  61. Harshman, JP<\/sup>, EL Braun<\/strong>, MJ Braun, CJ Huddleston, RCK Bowie, JL ChojnowskiG<\/sup>, SJ Hackett, K-L HanG<\/sup>, RT Kimball, BD Marks, KJ Miglia, WS Moore, S Reddy, FH Sheldon, DW Steadman, SJ Steppan, CC Witt & T YuriP<\/sup>. 2008. Phylogenomic evidence for multiple losses of flight in ratite birds. Proceedings of the National Academy of Sciences USA<\/em><\/strong>, 105<\/strong>: 13462-13467. https:\/\/doi.org\/10.1073\/pnas.0803242105<\/a>\u00a0(EL Braun corresponding author)<\/li>\n
  62. Kimball, RT & EL Braun<\/strong>. 2008. A multigene phylogeny of Galliformes supports a single origin of erectile ability in non-feathered facial traits. Journal of Avian Biology<\/em><\/strong>, 39<\/strong>: 438-445. https:\/\/doi.org\/10.1111\/j.0908-8857.2008.04270.x<\/a><\/li>\n
  63. Phillips, N, S Calhoun, A Moustafa, D Bhattacharya & EL Braun<\/strong>. Genomic insights into evolutionary relationships among heterokont lineages emphasizing the Phaeophyceae. Journal of Phycology<\/em><\/strong>, 44<\/strong>: 15-18. https:\/\/doi.org\/10.1111\/j.1529-8817.2007.00435.x<\/a><\/li>\n
  64. Yuri, TP<\/sup>, RT Kimball, EL Braun<\/strong> & MJ Braun.<\/strong> Duplication and accelerated evolution of growth hormone gene in passerine birds. Molecular Biology and Evolution<\/em><\/strong>, 25<\/strong>: 352-361. https:\/\/doi.org\/10.1093\/molbev\/msm260<\/a>\u00a0(the title was originally published as “Duplication of accelerated evolution and growth hormone gene in passerine birds,” this was corrected (https:\/\/doi.org\/10.1093\/molbev\/msn048<\/a>)<\/li>\n
  65. Chojnowski, JLG<\/sup>, J FranklinU<\/sup>, Y Katsu, T Iguchi, LJ Guillette Jr, RT Kimball & EL Braun.<\/strong> Patterns of vertebrate isochore evolution revealed by comparison of expressed mammalian, avian and crocodilian genes. Journal of Molecular Evolution<\/em><\/strong>, 65<\/strong>: 259-266. https:\/\/doi.org\/10.1007\/s00239-007-9003-2<\/a><\/li>\n
  66. Cox, WAU<\/sup>, RT Kimball & EL Braun<\/strong>. 2007. Phylogenetic position of the New World Quail (Odontophoridae): Eight nuclear loci and three mitochondrial regions contradict morphology and the Sibley-Ahlquist Tapestry. The Auk<\/em><\/strong>, 124<\/strong>: 74-84. https:\/\/doi.org\/10.1093\/auk\/124.1.71<\/a><\/li>\n
  67. Georgelis, NG<\/sup>, EL Braun<\/strong>, JR Shaw & LC Hannah. 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<\/em>,<\/strong> 19<\/strong>: 1458-1472. https:\/\/doi.org\/10.1105\/tpc.106.049676<\/a><\/li>\n
  68. Gibb, GC, O Kardailsky, RT Kimball, EL Braun<\/strong> & D Penny. 2007. Mitochondrial genomes and avian phylogeny: Complex characters and resolvability without explosive radiations. Molecular Biology and Evolution<\/em><\/strong>, 24<\/strong>: 269-280. https:\/\/doi.org\/10.1093\/molbev\/msl158<\/a><\/li>\n
  69. Sassi, SOG<\/sup>, EL Braun<\/strong> & SA Benner.<\/strong> The evolution of seminal ribonuclease: Pseudogene reactivation or multiple gene inactivation events? Molecular Biology and Evolution<\/em><\/strong>, 24<\/strong>: 1012-1024. https:\/\/doi.org\/10.1093\/molbev\/msm020<\/a><\/li>\n
  70. Crowe, TM, P Bloomer, E Randi, V Lucchini, RT Kimball, E Braun<\/strong> & JG Groth. 2006. Supra-generic cladistics of landfowl (Order Galliformes). Acta Zoologica Sinica<\/em><\/strong>, 52<\/strong>(Supplement): 358-361.<\/li>\n
  71. Kimball, RT, EL Braun<\/strong>, JD Ligon, E Randi & V Lucchini. 2006. Using molecular phylogenetics to interpret evolutionary changes in morphology and behavior in the Phasianidae. Acta Zoologica Sinica<\/em><\/strong>, 52<\/strong>(Supplement): 362-365.<\/li>\n
  72. Braun, EL<\/strong>, DO Natvig, M Werner-Washburne & MA Nelson. 2004. Genomics in Neurospora crassa<\/em>: From one-gene-one-enzyme to 10,000 genes. Applied Mycology and Biotechnology<\/em>, Volume 4. Fungal Genomics (DK Arora & GG Khachatourians, editors), pages 295-313. https:\/\/people.clas.ufl.edu\/ebraun\/files\/ApplMycol-2004-Braun-295-313.pdf<\/a><\/li>\n
  73. Katsu, Y, DS Bermudez, EL Braun<\/strong>, C Helbing, S Miyagawa, MP Gunderson, S Kohno, TA Bryan, LJ Guillette Jr & T Iguchi. 2004. Molecular cloning of the estrogen and progesterone receptors of the American Alligator. General and Comparative Endocrinology<\/strong><\/em>, 136<\/strong>: 122-133. https:\/\/doi.org\/10.1016\/j.ygcen.2003.11.008<\/a><\/li>\n
  74. Braun, EL<\/strong>. 2003. Innovation from reduction: The roles of gene loss, domain loss, and sequence divergence in the evolution of eukaryotic genomes. Applied Bioinformatics<\/em><\/strong>, <\/em>2<\/strong>: 13-34. https:\/\/people.clas.ufl.edu\/ebraun\/files\/ApplBioinf-2003-Braun-13-34.pdf<\/a><\/li>\n
  75. Dias, APG<\/sup>, EL Braun<\/strong>, MD McMullen & E Grotewold. 2003. Recently duplicated maize R2R3 Myb<\/em> genes provide evidence for distinct mechanisms of evolutionary divergence after duplication. Plant Physiology<\/em><\/strong>, 131<\/strong>: 610-620. https:\/\/doi.org\/10.1104\/pp.012047<\/a>\u00a0(AP Dias and EL Braun contributed equally)<\/li>\n
  76. Galagan, JE, SE Calvo, KA Borkovich, EU Selker, ND Read, D Jaffe, W FitzHugh, L-J Ma, S Smirnov, S Purcell, B Rehman, T Elkins, R Engels, S Wang, CB Nielsen, J Butler, M Endrizzi, D Qui, P Ianakiev, D Bell-Pedersen, MA Nelson, M Werner-Washburne, CP Selitrennikoff, JA Kinsey, EL Braun<\/strong>, A Zelter, U Schulte, GO Kothe, G Jedd, W Mewes, C Staben, E Marcotte, D Greenberg, A Roy, K Foley, J Naylor, N Stange-Thomann, R Barrett, S Gnerre, M Kamal, M Kamvysselis, E Mauceli, C Bielke, S Rudd, D Frishman, S Krystofova, C Rasmussen, RL Metzenberg, DD Perkins, S Kroken, C Cogoni, G Macino, D Catcheside, W Li, RJ Pratt, SA Osmani, CP DeSouza, L Glass, MJ Orbach, JA Berglund, R Voelker, O Yarden, M Plamann, S Seiler, J Dunlap, A Radford, R Aramayo, DO Natvig, LA Alex, G Mannhaupt, DJ Ebbole, M Freitag, I Paulsen, MS Sachs, ES Lander, C Nusbaum & B Birren. 2003. The genome sequence of the filamentous fungus Neurospora crassa<\/em>. Nature<\/em><\/strong>, 422<\/strong>: 859-868. https:\/\/doi.org\/10.1038\/nature01554<\/a><\/li>\n
  77. Braun, EL<\/strong> & RT Kimball. 2002. Examining basal avian divergences using mitochondrial sequences: Model complexity, taxon sampling and sequence length. Systematic Biology<\/em><\/strong>, 51<\/strong>: 614-625. https:\/\/doi.org\/10.1080\/10635150290102294<\/a><\/li>\n
  78. Armstrong, MHU<\/sup>, EL Braun<\/strong> & RT Kimball. 2001.<\/em> Phylogenetic utility of avian ovomucoid intron G: A comparison of nuclear and mitochondrial phylogenies in the Galliformes. The Auk<\/strong><\/em>, 118<\/strong>: 799-804. https:\/\/doi.org\/10.1093\/auk\/118.3.799<\/a><\/li>\n
  79. Bean, LEU<\/sup>, WH Dvorachek JrG<\/sup>, EL Braun<\/strong>, A ErrettU<\/sup>, GS Saenz, M GilesU<\/sup>, M Werner-Washburne, MA Nelson & DO Natvig. 2001. Analysis of the pdx-1<\/em> (snz-1\/sno-1<\/em>) region of the Neurospora crassa<\/em> genome: Correlation of pyridoxine-requiring phenotypes with mutations in two structural genes. Genetics<\/em><\/strong>, 157<\/strong>: 1067-1075. https:\/\/www.genetics.org\/content\/157\/3\/1067<\/a><\/li>\n
  80. Braun, EL<\/strong>, AP DiasG<\/sup>, TJ MatulnikG<\/sup> & E Grotewold. 2001. Transcription factors and metabolic engineering: Novel applications for ancient tools. Recent Advances in Phytochemistry<\/em><\/strong>, 35<\/strong>: 79-109. https:\/\/people.clas.ufl.edu\/ebraun\/files\/RecentAdvPhytochem-2001-Braun-79-109.pdf<\/a><\/li>\n
  81. Braun, EL<\/strong> & E Grotewold. 2001. Fungal Zuotin proteins evolved from MIDA1-like factors by lineage-specific loss of MYB domains. Molecular Biology and Evolution<\/em><\/strong>, 18<\/strong>: 1401-1412. https:\/\/doi.org\/10.1093\/oxfordjournals.molbev.a003924<\/a><\/li>\n
  82. Braun, EL<\/strong> & RT Kimball. 2001.<\/em> Polytomies, the power of phylogenetic inferences, and the stochastic nature of molecular evolution: A comment on Walsh et al. (1999). Evolution<\/em><\/strong>, 55<\/strong>: 1261-1263. https:\/\/doi.org\/10.1111\/j.0014-3820.2001.tb00647.x<\/a><\/li>\n
  83. Dong, XG<\/sup>, EL Braun<\/strong> & E Grotewold. 2001. Functional conservation of plant secondary metabolic enzymes revealed by complementation of Arabidopsis<\/em> flavonoid mutants with maize genes. Plant Physiology<\/em><\/strong>, 127<\/strong>: 46-57. https:\/\/doi.org\/10.1104\/pp.127.1.46<\/a><\/li>\n
  84. Kimball, RT, EL Braun<\/strong>, JD Ligon, V Lucchini & E Randi. 2001. A molecular phylogeny of the peacock-pheasants (Galliformes: Polyplectron<\/em>) indicates loss and reduction of ornamental traits and display behaviours. Biological Journal of the Linnean Society<\/em><\/strong>, 73<\/strong>: 187-198. https:\/\/doi.org\/10.1111\/j.1095-8312.2001.tb01356.x<\/a><\/li>\n
  85. Randi, E, V Lucchini, A Hennache, RT Kimball, EL Braun<\/strong> & JD Ligon. 2001. Evolution of the mitochondrial DNA control region and cytochrome b<\/em> genes, and the inference of phylogenetic relationships in the avian genus Lophura<\/em> (Galliformes). Molecular Phylogenetics and Evolution<\/em><\/strong>, 19: 187-201. https:\/\/doi.org\/10.1006\/mpev.2001.0922<\/a><\/li>\n
  86. Braun, EL<\/strong>, AL Halpern, MA Nelson & DO Natvig. Large scale comparison of fungal sequence information reveals innovation in the filamentous fungus Neurospora crassa<\/em> and gene loss in the budding yeast Saccharomyces cerevisiae<\/em>. Genome Research<\/em><\/strong>, 10: 416-430. https:\/\/doi.org\/10.1101\/gr.10.4.416<\/a><\/li>\n
  87. Randi, E, V Lucchini, T Armijo-PrewittU<\/sup>, RT Kimball, EL Braun<\/strong> & JD Ligon. 2000. Mitochondrial DNA phylogeny and speciation of the Tragopans. The<\/em> Auk<\/em><\/strong>, 117<\/strong>: 1003-1015. https:\/\/doi.org\/10.1093\/auk\/117.4.1003<\/a><\/li>\n
  88. Bieszke, JA, EL Braun<\/strong>, LE BeanU<\/sup>, S Kang, DO Natvig & KA Borkovich. 1999. The nop-1<\/em> gene of Neurospora crassa<\/em> encodes a seven transmembrane helix, retinal-binding protein homologous to archaeal rhodopsins. Proceedings of the National Academy of Sciences USA<\/em><\/strong>, 96<\/strong>: 8034-8039. https:\/\/doi.org\/10.1073\/pnas.96.14.8034<\/a><\/li>\n
  89. Braun, EL<\/strong> & E Grotewold. 1999. Newly discovered plant c-myb<\/em>-like genes rewrite the evolution of the plant myb<\/em> gene family. Plant Physiology<\/em><\/strong>,<\/em> 121<\/strong>: 21-24. https:\/\/doi.org\/10.1104\/pp.121.1.21<\/a><\/li>\n
  90. Kimball, RT, EL Braun<\/strong>, PW Zwartjes, TM Crowe & JD Ligon. 1999. A molecular phylogeny of the pheasants and partridges suggests that these lineages are not monophyletic. Molecular Phylogenetics and Evolution<\/em><\/strong>, 11<\/strong>: 38-54. https:\/\/doi.org\/10.1006\/mpev.1998.0562<\/a><\/li>\n
  91. Rabinowicz, PD, EL Braun<\/strong>, AD Wolfe, B Bowen & E Grotewold. 1999. Maize R2R3 Myb<\/em> genes: Sequence analysis reveals amplification in the higher plants. Genetics<\/em><\/strong>,<\/em> 153<\/strong>: 427-444. https:\/\/www.genetics.org\/content\/153\/1\/427<\/a><\/li>\n
  92. Braun, EL<\/strong>, S Kang, MA Nelson & DO Natvig. 1998. Identification of the first fungal annexin: Analysis of annexin gene duplications and implications for eukaryotic evolution. Journal of Molecular Evolution<\/em><\/strong>, 47<\/strong>: 531-543. https:\/\/doi.org\/10.1007\/PL00006409<\/a><\/li>\n
  93. Kimball, RT, EL Braun<\/strong> & JD Ligon. 1997. Resolution of the phylogenetic position of the Congo Peafowl, Afropavo congensis<\/em>: A biogeographic and evolutionary enigma. Proceedings of the Royal Society of London, series<\/em><\/strong> B<\/strong>,<\/em> 264<\/strong>: 1517-1523. https:\/\/doi.org\/10.1098\/rspb.1997.0210<\/a><\/li>\n
  94. Nelson, MA, S Kang, EL Braun<\/strong>, ME Crawford, PL Dolan, PM Leonard, J MitchellU<\/sup>, AM ArmijoU<\/sup>, L BeanU<\/sup>, E BlueyesU<\/sup>, T CushingU<\/sup>, A ErrettU<\/sup>, M FlehartyU<\/sup>, M GormanU<\/sup>, K JudsonU<\/sup>, R Miller, J OrtegaU<\/sup>, I PavlovaU<\/sup>, J PereaU<\/sup>, S TodiscoU<\/sup>, R TrujilloU<\/sup>, J ValentineU<\/sup>, A WellsU<\/sup>, M Werner-Washburne, S YazzieU<\/sup> & DO Natvig. 1997. Expressed sequences from conidial, mycelial and sexual stages of Neurospora crassa<\/em>. Fungal Genetics and Biology<\/em><\/strong>,<\/em> 21<\/strong>: 348-363. https:\/\/doi.org\/10.1006\/fgbi.1997.0986<\/a><\/li>\n
  95. Braun, EL<\/strong>, EK Fuge, PA Padilla & M Werner-Washburne. 1996. A stationary-phase gene in Saccharomyces cerevisiae<\/em> is a member of a novel, highly conserved gene family. Journal of Bacteriology<\/em><\/strong>,<\/em> 178<\/strong>: 6865-6872. https:\/\/doi.org\/10.1128\/jb.178.23.6865-6872.1996<\/a><\/li>\n
  96. Werner-Washburne, M, EL Braun<\/strong>, ME Crawford & VM Peck. 1996. Stationary phase in Saccharomyces cerevisiae<\/em>. Molecular Microbiology<\/em><\/strong>,<\/em> 19<\/strong>: 1159-1166.<\/li>\n
  97. Fuge, EK, EL Braun<\/strong> & M Werner-Washburne. 1994. Protein synthesis in long-term stationary phase cultures of Saccharomyces cerevisiae<\/em>. Journal of Bacteriology<\/em><\/strong>,<\/em> 176<\/strong>: 5802-5813. https:\/\/doi.org\/10.1111\/j.1365-2958.1996.tb02461.x<\/a>\u00a0(EK Fuge and EL Braun contributed equally)<\/li>\n
  98. Werner-Washburne, M, E Braun<\/strong>, GC Johnston & RA Singer. 1993. Stationary phase in the yeast Saccharomyces cerevisiae<\/em>. Microbiological Reviews<\/em><\/strong>,<\/em> 57<\/strong>: 383-401. https:\/\/mmbr.asm.org\/content\/57\/2\/383<\/a><\/li>\n
  99. Werner-Washburne, M, D Brown & E Braun<\/strong>. 1991. Bcy1, the regulatory subunit of cAMP-dependent protein kinase in yeast, is differentially modified in response to the physiological status of the cell. <\/span>Journal of Biological Chemistry<\/em><\/strong>,<\/em> 266<\/strong>: 19704-19709. <\/span>https:\/\/www.jbc.org\/content\/266\/29\/19704<\/a><\/li><\/ol>\n\n\n\r\n\t\t\t<\/div>\r\n\t\t<\/div>\r\n\t<\/div>\r\n<\/section>\r\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":544,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"featured_post":"","footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-19","page","type-page","status-publish","hentry"],"acf":[],"_links":{"self":[{"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/pages\/19","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/users\/544"}],"replies":[{"embeddable":true,"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/comments?post=19"}],"version-history":[{"count":12,"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/pages\/19\/revisions"}],"predecessor-version":[{"id":497,"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/pages\/19\/revisions\/497"}],"wp:attachment":[{"href":"https:\/\/people.clas.ufl.edu\/ebraun\/wp-json\/wp\/v2\/media?parent=19"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}