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Items: 1 to 50 of 259

1.

For common community phylogenetic analyses, go ahead and use synthesis phylogenies.

Li D, Trotta L, Marx HE, Allen JM, Sun M, Soltis DE, Soltis PS, Guralnick RP, Baiser B.

Ecology. 2019 Jun 21:e02788. doi: 10.1002/ecy.2788. [Epub ahead of print]

PMID:
31225900
2.

Rates of niche and phenotype evolution lag behind diversification in a temperate radiation.

Folk RA, Stubbs RL, Mort ME, Cellinese N, Allen JM, Soltis PS, Soltis DE, Guralnick RP.

Proc Natl Acad Sci U S A. 2019 May 28;116(22):10874-10882. doi: 10.1073/pnas.1817999116. Epub 2019 May 13.

3.

Origin of angiosperms and the puzzle of the Jurassic gap.

Li HT, Yi TS, Gao LM, Ma PF, Zhang T, Yang JB, Gitzendanner MA, Fritsch PW, Cai J, Luo Y, Wang H, van der Bank M, Zhang SD, Wang QF, Wang J, Zhang ZR, Fu CN, Yang J, Hollingsworth PM, Chase MW, Soltis DE, Soltis PS, Li DZ.

Nat Plants. 2019 May;5(5):461-470. doi: 10.1038/s41477-019-0421-0. Epub 2019 May 6.

PMID:
31061536
4.

Evolution of chloroplast retrograde signaling facilitates green plant adaptation to land.

Zhao C, Wang Y, Chan KX, Marchant DB, Franks PJ, Randall D, Tee EE, Chen G, Ramesh S, Phua SY, Zhang B, Hills A, Dai F, Xue D, Gilliham M, Tyerman S, Nevo E, Wu F, Zhang G, Wong GK, Leebens-Mack JH, Melkonian M, Blatt MR, Soltis PS, Soltis DE, Pogson BJ, Chen ZH.

Proc Natl Acad Sci U S A. 2019 Mar 12;116(11):5015-5020. doi: 10.1073/pnas.1812092116. Epub 2019 Feb 25.

5.

Phylogenomic conflict resulting from ancient introgression following species diversification in Stewartia s.l. (Theaceae).

Lin HY, Hao YJ, Li JH, Fu CX, Soltis PS, Soltis DE, Zhao YP.

Mol Phylogenet Evol. 2019 Jun;135:1-11. doi: 10.1016/j.ympev.2019.02.018. Epub 2019 Feb 23.

PMID:
30802596
6.

Divergent gene expression levels between diploid and autotetraploid Tolmiea relative to the total transcriptome, the cell, and biomass.

Visger CJ, Wong GK, Zhang Y, Soltis PS, Soltis DE.

Am J Bot. 2019 Feb;106(2):280-291. doi: 10.1002/ajb2.1239. Epub 2019 Feb 19.

PMID:
30779448
7.

Plastid phylogenomic insights into the evolution of Caryophyllales.

Yao G, Jin JJ, Li HT, Yang JB, Mandala VS, Croley M, Mostow R, Douglas NA, Chase MW, Christenhusz MJM, Soltis DE, Soltis PS, Smith SA, Brockington SF, Moore MJ, Yi TS, Li DZ.

Mol Phylogenet Evol. 2019 May;134:74-86. doi: 10.1016/j.ympev.2018.12.023. Epub 2019 Feb 5.

PMID:
30735725
8.

A chromosomal-scale genome assembly of Tectona grandis reveals the importance of tandem gene duplication and enables discovery of genes in natural product biosynthetic pathways.

Zhao D, Hamilton JP, Bhat WW, Johnson SR, Godden GT, Kinser TJ, Boachon B, Dudareva N, Soltis DE, Soltis PS, Hamberger B, Buell CR.

Gigascience. 2019 Mar 1;8(3). pii: giz005. doi: 10.1093/gigascience/giz005.

9.

Nuclear genomes of two magnoliids.

Soltis DE, Soltis PS.

Nat Plants. 2019 Jan;5(1):6-7. doi: 10.1038/s41477-018-0344-1. No abstract available.

PMID:
30626927
10.

Biodiversity synthesis across the green branches of the tree of life.

Allen JM, Folk RA, Soltis PS, Soltis DE, Guralnick RP.

Nat Plants. 2019 Jan;5(1):11-13. doi: 10.1038/s41477-018-0322-7. Epub 2018 Dec 31.

PMID:
30598535
11.

Spatial Phylogenetics of Florida Vascular Plants: The Effects of Calibration and Uncertainty on Diversity Estimates.

Allen JM, Germain-Aubrey CC, Barve N, Neubig KM, Majure LC, Laffan SW, Mishler BD, Owens HL, Smith SA, Whitten WM, Abbott JR, Soltis DE, Guralnick R, Soltis PS.

iScience. 2019 Jan 25;11:57-70. doi: 10.1016/j.isci.2018.12.002. Epub 2018 Dec 8.

12.

A Universal Probe Set for Targeted Sequencing of 353 Nuclear Genes from Any Flowering Plant Designed Using k-Medoids Clustering.

Johnson MG, Pokorny L, Dodsworth S, Botigué LR, Cowan RS, Devault A, Eiserhardt WL, Epitawalage N, Forest F, Kim JT, Leebens-Mack JH, Leitch IJ, Maurin O, Soltis DE, Soltis PS, Wong GK, Baker WJ, Wickett NJ.

Syst Biol. 2019 Jul 1;68(4):594-606. doi: 10.1093/sysbio/syy086.

13.

Phylogenetic imprint of woody plants on the soil mycobiome in natural mountain forests of eastern China.

Yang T, Tedersoo L, Soltis PS, Soltis DE, Gilbert JA, Sun M, Shi Y, Wang H, Li Y, Zhang J, Chen Z, Lin H, Zhao Y, Fu C, Chu H.

ISME J. 2019 Mar;13(3):686-697. doi: 10.1038/s41396-018-0303-x. Epub 2018 Oct 23.

PMID:
30353037
14.

Terrestrial species adapted to sea dispersal: Differences in propagule dispersal of two Caribbean mangroves.

Hodel RGJ, Knowles LL, McDaniel SF, Payton AC, Dunaway JF, Soltis PS, Soltis DE.

Mol Ecol. 2018 Nov;27(22):4612-4626. doi: 10.1111/mec.14894. Epub 2018 Nov 1.

PMID:
30308703
15.

Evolutionary insights from comparative transcriptome and transcriptome-wide coalescence analyses in Tetrastigma hemsleyanum.

Wang Y, Jiang W, Ye W, Fu C, Gitzendanner MA, Soltis PS, Soltis DE, Qiu Y.

BMC Plant Biol. 2018 Sep 24;18(1):208. doi: 10.1186/s12870-018-1429-8.

16.

Climatic niche comparison among ploidal levels in the classic autopolyploid system, Galax urceolata.

Gaynor ML, Marchant DB, Soltis DE, Soltis PS.

Am J Bot. 2018 Oct;105(10):1631-1642. doi: 10.1002/ajb2.1161. Epub 2018 Sep 21.

PMID:
30239980
17.

A Robust Methodology for Assessing Differential Homeolog Contributions to the Transcriptomes of Allopolyploids.

Boatwright JL, McIntyre LM, Morse AM, Chen S, Yoo MJ, Koh J, Soltis PS, Soltis DE, Barbazuk WB.

Genetics. 2018 Nov;210(3):883-894. doi: 10.1534/genetics.118.301564. Epub 2018 Sep 13.

PMID:
30213855
18.

Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy.

Shan S, Mavrodiev EV, Li R, Zhang Z, Hauser BA, Soltis PS, Soltis DE, Yang B.

Mol Ecol Resour. 2018 Nov;18(6):1427-1443. doi: 10.1111/1755-0998.12935. Epub 2018 Sep 11.

PMID:
30086204
19.

The future of cold-adapted plants in changing climates: Micranthes (Saxifragaceae) as a case study.

Stubbs RL, Soltis DE, Cellinese N.

Ecol Evol. 2018 Jun 25;8(14):7164-7177. doi: 10.1002/ece3.4242. eCollection 2018 Jul.

20.

Geographic Range Dynamics Drove Ancient Hybridization in a Lineage of Angiosperms.

Folk RA, Visger CJ, Soltis PS, Soltis DE, Guralnick RP.

Am Nat. 2018 Aug;192(2):171-187. doi: 10.1086/698120. Epub 2018 Jun 20.

PMID:
30016161
21.

Evolution of floral traits and impact of reproductive mode on diversification in the phlox family (Polemoniaceae).

Landis JB, Bell CD, Hernandez M, Zenil-Ferguson R, McCarthy EW, Soltis DE, Soltis PS.

Mol Phylogenet Evol. 2018 Oct;127:878-890. doi: 10.1016/j.ympev.2018.06.035. Epub 2018 Jun 27.

PMID:
29958983
22.

Phylogeny and staminal evolution of Salvia (Lamiaceae, Nepetoideae) in East Asia.

Hu GX, Takano A, Drew BT, Liu ED, Soltis DE, Soltis PS, Peng H, Xiang CL.

Ann Bot. 2018 Sep 24;122(4):649-668. doi: 10.1093/aob/mcy104.

PMID:
29945172
23.

Karyotypic variation and pollen stainability in resynthesized allopolyploids Tragopogon miscellus and T. mirus.

Spoelhof JP, Chester M, Rodriguez R, Geraci B, Heo K, Mavrodiev E, Soltis PS, Soltis DE.

Am J Bot. 2017 Oct;104(10):1484-1492. doi: 10.3732/ajb.1700180.

24.

Impact of whole-genome duplication events on diversification rates in angiosperms.

Landis JB, Soltis DE, Li Z, Marx HE, Barker MS, Tank DC, Soltis PS.

Am J Bot. 2018 Mar;105(3):348-363. doi: 10.1002/ajb2.1060. Epub 2018 May 2.

25.

Using and navigating the plant tree of life.

Soltis DE, Moore MJ, Sessa EB, Smith SA, Soltis PS.

Am J Bot. 2018 Mar;105(3):287-290. doi: 10.1002/ajb2.1071. Epub 2018 Apr 27. No abstract available.

26.

Linking genome signatures of selection and adaptation in non-model plants: exploring potential and limitations in the angiosperm Amborella.

Hodel RG, Chandler LM, Fahrenkrog AM, Kirst M, Gitzendanner MA, Soltis DE, Soltis PS.

Curr Opin Plant Biol. 2018 Apr;42:81-89. doi: 10.1016/j.pbi.2018.04.003. Epub 2018 Apr 27. Review.

PMID:
29694936
27.

New prospects in the detection and comparative analysis of hybridization in the tree of life.

Folk RA, Soltis PS, Soltis DE, Guralnick R.

Am J Bot. 2018 Mar;105(3):364-375. doi: 10.1002/ajb2.1018. Epub 2018 Feb 14.

28.

Challenges of comprehensive taxon sampling in comparative biology: Wrestling with rosids.

Folk RA, Sun M, Soltis PS, Smith SA, Soltis DE, Guralnick RP.

Am J Bot. 2018 Mar;105(3):433-445. doi: 10.1002/ajb2.1059. Epub 2018 Apr 17.

29.

Character evolution and missing (morphological) data across Asteridae.

Stull GW, Schori M, Soltis DE, Soltis PS.

Am J Bot. 2018 Mar;105(3):470-479. doi: 10.1002/ajb2.1050. Epub 2018 Apr 14.

30.

Chloroplast genome analyses and genomic resource development for epilithic sister genera Oresitrophe and Mukdenia (Saxifragaceae), using genome skimming data.

Liu L, Wang Y, He P, Li P, Lee J, Soltis DE, Fu C.

BMC Genomics. 2018 Apr 4;19(1):235. doi: 10.1186/s12864-018-4633-x.

31.

10KP: A phylodiverse genome sequencing plan.

Cheng S, Melkonian M, Smith SA, Brockington S, Archibald JM, Delaux PM, Li FW, Melkonian B, Mavrodiev EV, Sun W, Fu Y, Yang H, Soltis DE, Graham SW, Soltis PS, Liu X, Xu X, Wong GK.

Gigascience. 2018 Mar 1;7(3):1-9. doi: 10.1093/gigascience/giy013.

32.

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.

33.

Pseudo-parallel patterns of disjunctions in an Arctic-alpine plant lineage.

Stubbs RL, Folk RA, Xiang CL, Soltis DE, Cellinese N.

Mol Phylogenet Evol. 2018 Jun;123:88-100. doi: 10.1016/j.ympev.2018.02.016. Epub 2018 Feb 26.

PMID:
29496541
34.

Evolutionary history of the angiosperm flora of China.

Lu LM, Mao LF, Yang T, Ye JF, Liu B, Li HL, Sun M, Miller JT, Mathews S, Hu HH, Niu YT, Peng DX, Chen YH, Smith SA, Chen M, Xiang KL, Le CT, Dang VC, Lu AM, Soltis PS, Soltis DE, Li JH, Chen ZD.

Nature. 2018 Feb 8;554(7691):234-238. doi: 10.1038/nature25485. Epub 2018 Jan 31.

PMID:
29420476
35.

Adding loci improves phylogeographic resolution in red mangroves despite increased missing data: comparing microsatellites and RAD-Seq and investigating loci filtering.

Hodel RGJ, Chen S, Payton AC, McDaniel SF, Soltis P, Soltis DE.

Sci Rep. 2017 Dec 14;7(1):17598. doi: 10.1038/s41598-017-16810-7.

36.

Cytogeography of Callisia section Cuthbertia (Commelinaceae).

Molgo IE, Soltis DE, Soltis PS.

Comp Cytogenet. 2017 Sep 1;11(4):553-577. doi: 10.3897/CompCytogen.v11i4.11984. eCollection 2017.

37.

Factors promoting polyploid persistence and diversification and limiting diploid speciation during the K-Pg interlude.

Levin DA, Soltis DE.

Curr Opin Plant Biol. 2018 Apr;42:1-7. doi: 10.1016/j.pbi.2017.09.010. Epub 2017 Oct 27. Review.

PMID:
29107221
38.

Insights into the historical assembly of East Asian subtropical evergreen broadleaved forests revealed by the temporal history of the tea family.

Yu XQ, Gao LM, Soltis DE, Soltis PS, Yang JB, Fang L, Yang SX, Li DZ.

New Phytol. 2017 Aug;215(3):1235-1248. doi: 10.1111/nph.14683.

39.

Comparative transcriptomic analysis of the evolution and development of flower size in Saltugilia (Polemoniaceae).

Landis JB, Soltis DE, Soltis PS.

BMC Genomics. 2017 Jun 23;18(1):475. doi: 10.1186/s12864-017-3868-2.

40.

Insights into the Evolution of Hydroxyproline-Rich Glycoproteins from 1000 Plant Transcriptomes.

Johnson KL, Cassin AM, Lonsdale A, Wong GK, Soltis DE, Miles NW, Melkonian M, Melkonian B, Deyholos MK, Leebens-Mack J, Rothfels CJ, Stevenson DW, Graham SW, Wang X, Wu S, Pires JC, Edger PP, Carpenter EJ, Bacic A, Doblin MS, Schultz CJ.

Plant Physiol. 2017 Jun;174(2):904-921. doi: 10.1104/pp.17.00295. Epub 2017 Apr 26.

41.

Deep reticulation and incomplete lineage sorting obscure the diploid phylogeny of rain-lilies and allies (Amaryllidaceae tribe Hippeastreae).

García N, Folk RA, Meerow AW, Chamala S, Gitzendanner MA, Oliveira RS, Soltis DE, Soltis PS.

Mol Phylogenet Evol. 2017 Jun;111:231-247. doi: 10.1016/j.ympev.2017.04.003. Epub 2017 Apr 6.

PMID:
28390909
42.

Detecting alternatively spliced transcript isoforms from single-molecule long-read sequences without a reference genome.

Liu X, Mei W, Soltis PS, Soltis DE, Barbazuk WB.

Mol Ecol Resour. 2017 Nov;17(6):1243-1256. doi: 10.1111/1755-0998.12670. Epub 2017 Jun 5.

PMID:
28316149
43.

Evolutionary and domestication history of Cucurbita (pumpkin and squash) species inferred from 44 nuclear loci.

Kates HR, Soltis PS, Soltis DE.

Mol Phylogenet Evol. 2017 Jun;111:98-109. doi: 10.1016/j.ympev.2017.03.002. Epub 2017 Mar 10.

PMID:
28288944
44.

Evolutionary Conservation of ABA Signaling for Stomatal Closure.

Cai S, Chen G, Wang Y, Huang Y, Marchant DB, Wang Y, Yang Q, Dai F, Hills A, Franks PJ, Nevo E, Soltis DE, Soltis PS, Sessa E, Wolf PG, Xue D, Zhang G, Pogson BJ, Blatt MR, Chen ZH.

Plant Physiol. 2017 Jun;174(2):732-747. doi: 10.1104/pp.16.01848. Epub 2017 Feb 23.

45.

Whole-genome duplication and molecular evolution in Cornus L. (Cornaceae) - Insights from transcriptome sequences.

Yu Y, Xiang Q, Manos PS, Soltis DE, Soltis PS, Song BH, Cheng S, Liu X, Wong G.

PLoS One. 2017 Feb 22;12(2):e0171361. doi: 10.1371/journal.pone.0171361. eCollection 2017.

46.

Diversification of Rosaceae since the Late Cretaceous based on plastid phylogenomics.

Zhang SD, Jin JJ, Chen SY, Chase MW, Soltis DE, Li HT, Yang JB, Li DZ, Yi TS.

New Phytol. 2017 May;214(3):1355-1367. doi: 10.1111/nph.14461. Epub 2017 Feb 10.

47.

Mobilizing and integrating big data in studies of spatial and phylogenetic patterns of biodiversity.

Soltis DE, Soltis PS.

Plant Divers. 2016 Dec 24;38(6):264-270. doi: 10.1016/j.pld.2016.12.001. eCollection 2016 Dec.

48.

Evolution of floral diversity: genomics, genes and gamma.

Chanderbali AS, Berger BA, Howarth DG, Soltis DE, Soltis PS.

Philos Trans R Soc Lond B Biol Sci. 2017 Feb 5;372(1713). pii: 20150509. Review.

49.

The Evolution of HD2 Proteins in Green Plants.

Bourque S, Jeandroz S, Grandperret V, Lehotai N, Aimé S, Soltis DE, Miles NW, Melkonian M, Deyholos MK, Leebens-Mack JH, Chase MW, Rothfels CJ, Stevenson DW, Graham SW, Wang X, Wu S, Pires JC, Edger PP, Yan Z, Xie Y, Carpenter EJ, Wong GKS, Wendehenne D, Nicolas-Francès V.

Trends Plant Sci. 2016 Dec;21(12):1008-1016. doi: 10.1016/j.tplants.2016.10.001. Epub 2016 Oct 24. Review.

PMID:
27789157
50.

The influence of habitat on the evolution of plants: a case study across Saxifragales.

de Casas RR, Mort ME, Soltis DE.

Ann Bot. 2016 Dec;118(7):1317-1328. Epub 2016 Aug 22.

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