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Items: 13

1.

Plastomes resolve generic limits within tribe Clusieae (Clusiaceae) and reveal the new genus Arawakia.

Marinho LC, Cai L, Duan X, Ruhfel BR, Fiaschi P, Amorim AM, van den Berg C, Davis CC.

Mol Phylogenet Evol. 2019 May;134:142-151. doi: 10.1016/j.ympev.2019.02.005. Epub 2019 Feb 8.

PMID:
30743062
2.

Plastid phylogenomic analysis of green plants: A billion years of evolutionary history.

Gitzendanner MA, Soltis PS, Wong GK, Ruhfel BR, Soltis DE.

Am J Bot. 2018 Mar;105(3):291-301. doi: 10.1002/ajb2.1048. Epub 2018 Mar 30.

3.

Dispersal largely explains the Gondwanan distribution of the ancient tropical clusioid plant clade.

Ruhfel BR, Bove CP, Philbrick CT, Davis CC.

Am J Bot. 2016 Jun;103(6):1117-28. doi: 10.3732/ajb.1500537. Epub 2016 Jun 22.

4.

Digitization workflows for flat sheets and packets of plants, algae, and fungi.

Nelson G, Sweeney P, Wallace LE, Rabeler RK, Allard D, Brown H, Carter JR, Denslow MW, Ellwood ER, Germain-Aubrey CC, Gilbert E, Gillespie E, Goertzen LR, Legler B, Marchant DB, Marsico TD, Morris AB, Murrell Z, Nazaire M, Neefus C, Oberreiter S, Paul D, Ruhfel BR, Sasek T, Shaw J, Soltis PS, Watson K, Weeks A, Mast AR.

Appl Plant Sci. 2015 Sep 10;3(9). pii: apps.1500065. doi: 10.3732/apps.1500065. eCollection 2015 Sep.

5.

Data access for the 1,000 Plants (1KP) project.

Matasci N, Hung LH, Yan Z, Carpenter EJ, Wickett NJ, Mirarab S, Nguyen N, Warnow T, Ayyampalayam S, Barker M, Burleigh JG, Gitzendanner MA, Wafula E, Der JP, dePamphilis CW, Roure B, Philippe H, Ruhfel BR, Miles NW, Graham SW, Mathews S, Surek B, Melkonian M, Soltis DE, Soltis PS, Rothfels C, Pokorny L, Shaw JA, DeGironimo L, Stevenson DW, Villarreal JC, Chen T, Kutchan TM, Rolf M, Baucom RS, Deyholos MK, Samudrala R, Tian Z, Wu X, Sun X, Zhang Y, Wang J, Leebens-Mack J, Wong GK.

Gigascience. 2014 Oct 27;3:17. doi: 10.1186/2047-217X-3-17. eCollection 2014. Review.

6.

Phylotranscriptomic analysis of the origin and early diversification of land plants.

Wickett NJ, Mirarab S, Nguyen N, Warnow T, Carpenter E, Matasci N, Ayyampalayam S, Barker MS, Burleigh JG, Gitzendanner MA, Ruhfel BR, Wafula E, Der JP, Graham SW, Mathews S, Melkonian M, Soltis DE, Soltis PS, Miles NW, Rothfels CJ, Pokorny L, Shaw AJ, DeGironimo L, Stevenson DW, Surek B, Villarreal JC, Roure B, Philippe H, dePamphilis CW, Chen T, Deyholos MK, Baucom RS, Kutchan TM, Augustin MM, Wang J, Zhang Y, Tian Z, Yan Z, Wu X, Sun X, Wong GK, Leebens-Mack J.

Proc Natl Acad Sci U S A. 2014 Nov 11;111(45):E4859-68. doi: 10.1073/pnas.1323926111. Epub 2014 Oct 29.

7.

From algae to angiosperms-inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes.

Ruhfel BR, Gitzendanner MA, Soltis PS, Soltis DE, Burleigh JG.

BMC Evol Biol. 2014 Feb 17;14:23. doi: 10.1186/1471-2148-14-23.

8.

Another look at the root of the angiosperms reveals a familiar tale.

Drew BT, Ruhfel BR, Smith SA, Moore MJ, Briggs BG, Gitzendanner MA, Soltis PS, Soltis DE.

Syst Biol. 2014 May;63(3):368-82. doi: 10.1093/sysbio/syt108. Epub 2014 Jan 3.

PMID:
24391149
9.

Phylogenomics and a posteriori data partitioning resolve the Cretaceous angiosperm radiation Malpighiales.

Xi Z, Ruhfel BR, Schaefer H, Amorim AM, Sugumaran M, Wurdack KJ, Endress PK, Matthews ML, Stevens PF, Mathews S, Davis CC.

Proc Natl Acad Sci U S A. 2012 Oct 23;109(43):17519-24. doi: 10.1073/pnas.1205818109. Epub 2012 Oct 8.

10.

Phylogeny of the clusioid clade (Malpighiales): evidence from the plastid and mitochondrial genomes.

Ruhfel BR, Bittrich V, Bove CP, Gustafsson MH, Philbrick CT, Rutishauser R, Xi Z, Davis CC.

Am J Bot. 2011 Feb;98(2):306-25. doi: 10.3732/ajb.1000354. Epub 2011 Jan 26.

11.

Favorable climate change response explains non-native species' success in Thoreau's woods.

Willis CG, Ruhfel BR, Primack RB, Miller-Rushing AJ, Losos JB, Davis CC.

PLoS One. 2010 Jan 26;5(1):e8878. doi: 10.1371/journal.pone.0008878.

12.

Phylogenetic patterns of species loss in Thoreau's woods are driven by climate change.

Willis CG, Ruhfel B, Primack RB, Miller-Rushing AJ, Davis CC.

Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):17029-33. doi: 10.1073/pnas.0806446105. Epub 2008 Oct 27.

13.

The sequence of the human genome.

Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, An H, Awe A, Baldwin D, Baden H, Barnstead M, Barrow I, Beeson K, Busam D, Carver A, Center A, Cheng ML, Curry L, Danaher S, Davenport L, Desilets R, Dietz S, Dodson K, Doup L, Ferriera S, Garg N, Gluecksmann A, Hart B, Haynes J, Haynes C, Heiner C, Hladun S, Hostin D, Houck J, Howland T, Ibegwam C, Johnson J, Kalush F, Kline L, Koduru S, Love A, Mann F, May D, McCawley S, McIntosh T, McMullen I, Moy M, Moy L, Murphy B, Nelson K, Pfannkoch C, Pratts E, Puri V, Qureshi H, Reardon M, Rodriguez R, Rogers YH, Romblad D, Ruhfel B, Scott R, Sitter C, Smallwood M, Stewart E, Strong R, Suh E, Thomas R, Tint NN, Tse S, Vech C, Wang G, Wetter J, Williams S, Williams M, Windsor S, Winn-Deen E, Wolfe K, Zaveri J, Zaveri K, Abril JF, Guigó R, Campbell MJ, Sjolander KV, Karlak B, Kejariwal A, Mi H, Lazareva B, Hatton T, Narechania A, Diemer K, Muruganujan A, Guo N, Sato S, Bafna V, Istrail S, Lippert R, Schwartz R, Walenz B, Yooseph S, Allen D, Basu A, Baxendale J, Blick L, Caminha M, Carnes-Stine J, Caulk P, Chiang YH, Coyne M, Dahlke C, Mays A, Dombroski M, Donnelly M, Ely D, Esparham S, Fosler C, Gire H, Glanowski S, Glasser K, Glodek A, Gorokhov M, Graham K, Gropman B, Harris M, Heil J, Henderson S, Hoover J, Jennings D, Jordan C, Jordan J, Kasha J, Kagan L, Kraft C, Levitsky A, Lewis M, Liu X, Lopez J, Ma D, Majoros W, McDaniel J, Murphy S, Newman M, Nguyen T, Nguyen N, Nodell M, Pan S, Peck J, Peterson M, Rowe W, Sanders R, Scott J, Simpson M, Smith T, Sprague A, Stockwell T, Turner R, Venter E, Wang M, Wen M, Wu D, Wu M, Xia A, Zandieh A, Zhu X.

Science. 2001 Feb 16;291(5507):1304-51. Erratum in: Science 2001 Jun 5;292(5523):1838.

PMID:
11181995

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