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Items: 1 to 50 of 51

1.

The persistent homology mathematical framework provides enhanced genotype-to-phenotype associations for plant morphology.

Li M, Frank M, Coneva V, Mio W, Chitwood DH, Topp CN.

Plant Physiol. 2018 Jun 5. pii: pp.00104.2018. doi: 10.1104/pp.18.00104. [Epub ahead of print]

2.

Genetic and Developmental Basis for Increased Leaf Thickness in the Arabidopsis Cvi Ecotype.

Coneva V, Chitwood DH.

Front Plant Sci. 2018 Mar 14;9:322. doi: 10.3389/fpls.2018.00322. eCollection 2018.

3.

Morphometrics Reveals Complex and Heritable Apple Leaf Shapes.

Migicovsky Z, Li M, Chitwood DH, Myles S.

Front Plant Sci. 2018 Jan 4;8:2185. doi: 10.3389/fpls.2017.02185. eCollection 2017.

5.

Genetic Architecture and Molecular Networks Underlying Leaf Thickness in Desert-Adapted Tomato Solanum pennellii.

Coneva V, Frank MH, Balaguer MAL, Li M, Sozzani R, Chitwood DH.

Plant Physiol. 2017 Sep;175(1):376-391. doi: 10.1104/pp.17.00790. Epub 2017 Aug 9.

6.

Morphological Plant Modeling: Unleashing Geometric and Topological Potential within the Plant Sciences.

Bucksch A, Atta-Boateng A, Azihou AF, Battogtokh D, Baumgartner A, Binder BM, Braybrook SA, Chang C, Coneva V, DeWitt TJ, Fletcher AG, Gehan MA, Diaz-Martinez DH, Hong L, Iyer-Pascuzzi AS, Klein LL, Leiboff S, Li M, Lynch JP, Maizel A, Maloof JN, Markelz RJC, Martinez CC, Miller LA, Mio W, Palubicki W, Poorter H, Pradal C, Price CA, Puttonen E, Reese JB, Rellán-Álvarez R, Spalding EP, Sparks EE, Topp CN, Williams JH, Chitwood DH.

Front Plant Sci. 2017 Jun 9;8:900. doi: 10.3389/fpls.2017.00900. eCollection 2017. Review.

7.
8.

Digital Morphometrics of Two North American Grapevines (Vitis: Vitaceae) Quantifies Leaf Variation between Species, within Species, and among Individuals.

Klein LL, Caito M, Chapnick C, Kitchen C, O'Hanlon R, Chitwood DH, Miller AJ.

Front Plant Sci. 2017 Mar 17;8:373. doi: 10.3389/fpls.2017.00373. eCollection 2017.

9.

Persistent homology and the branching topologies of plants.

Li M, Duncan K, Topp CN, Chitwood DH.

Am J Bot. 2017 Mar;104(3):349-353. doi: 10.3732/ajb.1700046. Epub 2017 Mar 24. No abstract available.

10.

Gene expression atlas for the food security crop cassava.

Wilson MC, Mutka AM, Hummel AW, Berry J, Chauhan RD, Vijayaraghavan A, Taylor NJ, Voytas DF, Chitwood DH, Bart RS.

New Phytol. 2017 Mar;213(4):1632-1641. doi: 10.1111/nph.14443. Epub 2017 Jan 24.

11.

Modifications to a LATE MERISTEM IDENTITY1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.).

Andres RJ, Coneva V, Frank MH, Tuttle JR, Samayoa LF, Han SW, Kaur B, Zhu L, Fang H, Bowman DT, Rojas-Pierce M, Haigler CH, Jones DC, Holland JB, Chitwood DH, Kuraparthy V.

Proc Natl Acad Sci U S A. 2017 Jan 3;114(1):E57-E66. doi: 10.1073/pnas.1613593114. Epub 2016 Dec 20.

12.

Left-right leaf asymmetry in decussate and distichous phyllotactic systems.

Martinez CC, Chitwood DH, Smith RS, Sinha NR.

Philos Trans R Soc Lond B Biol Sci. 2016 Dec 19;371(1710). pii: 20150412.

13.

A renaissance in plant development.

Chitwood DH, Irish VF.

Dev Biol. 2016 Nov 1;419(1):4-6. doi: 10.1016/j.ydbio.2016.09.013. Epub 2016 Sep 13. No abstract available.

14.

A sister of PIN1 gene in tomato (Solanum lycopersicum) defines leaf and flower organ initiation patterns by maintaining epidermal auxin flux.

Martinez CC, Koenig D, Chitwood DH, Sinha NR.

Dev Biol. 2016 Nov 1;419(1):85-98. doi: 10.1016/j.ydbio.2016.08.011. Epub 2016 Aug 20.

15.

A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification.

Fulop D, Ranjan A, Ofner I, Covington MF, Chitwood DH, West D, Ichihashi Y, Headland L, Zamir D, Maloof JN, Sinha NR.

G3 (Bethesda). 2016 Oct 13;6(10):3169-3184. doi: 10.1534/g3.116.030536.

16.

eQTL Regulating Transcript Levels Associated with Diverse Biological Processes in Tomato.

Ranjan A, Budke JM, Rowland SD, Chitwood DH, Kumar R, Carriedo L, Ichihashi Y, Zumstein K, Maloof JN, Sinha NR.

Plant Physiol. 2016 Sep;172(1):328-40. doi: 10.1104/pp.16.00289. Epub 2016 Jul 14.

17.

Plant chimeras: The good, the bad, and the 'Bizzaria'.

Frank MH, Chitwood DH.

Dev Biol. 2016 Nov 1;419(1):41-53. doi: 10.1016/j.ydbio.2016.07.003. Epub 2016 Jul 2. Review.

18.

Evolutionary and Environmental Forces Sculpting Leaf Development.

Chitwood DH, Sinha NR.

Curr Biol. 2016 Apr 4;26(7):R297-306. doi: 10.1016/j.cub.2016.02.033. Review.

19.

Plant scientists: GM technology is safe.

Fahlgren N, Bart R, Herrera-Estrella L, Rellán-Álvarez R, Chitwood DH, Dinneny JR.

Science. 2016 Feb 19;351(6275):824. doi: 10.1126/science.351.6275.824-a. Epub 2016 Feb 18. No abstract available.

PMID:
26912883
20.

Climate and Developmental Plasticity: Interannual Variability in Grapevine Leaf Morphology.

Chitwood DH, Rundell SM, Li DY, Woodford QL, Yu TT, Lopez JR, Greenblatt D, Kang J, Londo JP.

Plant Physiol. 2016 Mar;170(3):1480-91. doi: 10.1104/pp.15.01825. Epub 2016 Jan 29.

21.

Rootstocks: Diversity, Domestication, and Impacts on Shoot Phenotypes.

Warschefsky EJ, Klein LL, Frank MH, Chitwood DH, Londo JP, von Wettberg EJB, Miller AJ.

Trends Plant Sci. 2016 May;21(5):418-437. doi: 10.1016/j.tplants.2015.11.008. Epub 2015 Dec 11. Review.

PMID:
26698413
22.

Transcriptomic analysis suggests a key role for SQUAMOSA PROMOTER BINDING PROTEIN LIKE, NAC and YUCCA genes in the heteroblastic development of the temperate rainforest tree Gevuina avellana (Proteaceae).

Ostria-Gallardo E, Ranjan A, Chitwood DH, Kumar R, Townsley BT, Ichihashi Y, Corcuera LJ, Sinha NR.

New Phytol. 2016 Apr;210(2):694-708. doi: 10.1111/nph.13776. Epub 2015 Dec 18.

23.

Latent developmental and evolutionary shapes embedded within the grapevine leaf.

Chitwood DH, Klein LL, O'Hanlon R, Chacko S, Greg M, Kitchen C, Miller AJ, Londo JP.

New Phytol. 2016 Apr;210(1):343-55. doi: 10.1111/nph.13754. Epub 2015 Nov 18.

24.

Light-Induced Indeterminacy Alters Shade-Avoiding Tomato Leaf Morphology.

Chitwood DH, Kumar R, Ranjan A, Pelletier JM, Townsley BT, Ichihashi Y, Martinez CC, Zumstein K, Harada JJ, Maloof JN, Sinha NR.

Plant Physiol. 2015 Nov;169(3):2030-47. doi: 10.1104/pp.15.01229. Epub 2015 Sep 17.

25.

Plant architecture without multicellularity: quandaries over patterning and the soma-germline divide in siphonous algae.

Coneva V, Chitwood DH.

Front Plant Sci. 2015 Apr 24;6:287. doi: 10.3389/fpls.2015.00287. eCollection 2015.

26.

Revealing plant cryptotypes: defining meaningful phenotypes among infinite traits.

Chitwood DH, Topp CN.

Curr Opin Plant Biol. 2015 Apr;24:54-60. doi: 10.1016/j.pbi.2015.01.009. Epub 2015 Feb 3. Review.

PMID:
25658908
27.

An intracellular transcriptomic atlas of the giant coenocyte Caulerpa taxifolia.

Ranjan A, Townsley BT, Ichihashi Y, Sinha NR, Chitwood DH.

PLoS Genet. 2015 Jan 8;11(1):e1004900. doi: 10.1371/journal.pgen.1004900. eCollection 2015 Jan.

28.

Plant development: small RNAs and the metamorphosis of leaves.

Chitwood DH, Sinha NR.

Curr Biol. 2014 Nov 17;24(22):R1087-9. doi: 10.1016/j.cub.2014.10.013. Epub 2014 Nov 17.

29.

Imitation, genetic lineages, and time influenced the morphological evolution of the violin.

Chitwood DH.

PLoS One. 2014 Oct 8;9(10):e109229. doi: 10.1371/journal.pone.0109229. eCollection 2014.

30.

Resolving distinct genetic regulators of tomato leaf shape within a heteroblastic and ontogenetic context.

Chitwood DH, Ranjan A, Kumar R, Ichihashi Y, Zumstein K, Headland LR, Ostria-Gallardo E, Aguilar-Martínez JA, Bush S, Carriedo L, Fulop D, Martinez CC, Peng J, Maloof JN, Sinha NR.

Plant Cell. 2014 Sep;26(9):3616-29. doi: 10.1105/tpc.114.130112. Epub 2014 Sep 30.

31.

Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape.

Ichihashi Y, Aguilar-Martínez JA, Farhi M, Chitwood DH, Kumar R, Millon LV, Peng J, Maloof JN, Sinha NR.

Proc Natl Acad Sci U S A. 2014 Jun 24;111(25):E2616-21. doi: 10.1073/pnas.1402835111. Epub 2014 Jun 9.

32.

A modern ampelography: a genetic basis for leaf shape and venation patterning in grape.

Chitwood DH, Ranjan A, Martinez CC, Headland LR, Thiem T, Kumar R, Covington MF, Hatcher T, Naylor DT, Zimmerman S, Downs N, Raymundo N, Buckler ES, Maloof JN, Aradhya M, Prins B, Li L, Myles S, Sinha NR.

Plant Physiol. 2014 Jan;164(1):259-72. doi: 10.1104/pp.113.229708. Epub 2013 Nov 27.

33.

A quantitative genetic basis for leaf morphology in a set of precisely defined tomato introgression lines.

Chitwood DH, Kumar R, Headland LR, Ranjan A, Covington MF, Ichihashi Y, Fulop D, Jiménez-Gómez JM, Peng J, Maloof JN, Sinha NR.

Plant Cell. 2013 Jul;25(7):2465-81. doi: 10.1105/tpc.113.112391. Epub 2013 Jul 19.

34.

Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato.

Koenig D, Jiménez-Gómez JM, Kimura S, Fulop D, Chitwood DH, Headland LR, Kumar R, Covington MF, Devisetty UK, Tat AV, Tohge T, Bolger A, Schneeberger K, Ossowski S, Lanz C, Xiong G, Taylor-Teeples M, Brady SM, Pauly M, Weigel D, Usadel B, Fernie AR, Peng J, Sinha NR, Maloof JN.

Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):E2655-62. doi: 10.1073/pnas.1309606110. Epub 2013 Jun 26.

35.

Dynamic transcriptomic profiles between tomato and a wild relative reflect distinct developmental architectures.

Chitwood DH, Maloof JN, Sinha NR.

Plant Physiol. 2013 Jun;162(2):537-52. doi: 10.1104/pp.112.213546. Epub 2013 Apr 12.

36.

A census of cells in time: quantitative genetics meets developmental biology.

Chitwood DH, Sinha NR.

Curr Opin Plant Biol. 2013 Feb;16(1):92-9. doi: 10.1016/j.pbi.2012.11.003. Epub 2012 Dec 3. Review.

PMID:
23218243
37.

A High-Throughput Method for Illumina RNA-Seq Library Preparation.

Kumar R, Ichihashi Y, Kimura S, Chitwood DH, Headland LR, Peng J, Maloof JN, Sinha NR.

Front Plant Sci. 2012 Aug 28;3:202. doi: 10.3389/fpls.2012.00202. eCollection 2012.

38.

Conflict between Intrinsic Leaf Asymmetry and Phyllotaxis in the Resupinate Leaves of Alstroemeria psittacina.

Chitwood DH, Naylor DT, Thammapichai P, Weeger AC, Headland LR, Sinha NR.

Front Plant Sci. 2012 Aug 10;3:182. doi: 10.3389/fpls.2012.00182. eCollection 2012.

39.

Leaf asymmetry as a developmental constraint imposed by auxin-dependent phyllotactic patterning.

Chitwood DH, Headland LR, Ranjan A, Martinez CC, Braybrook SA, Koenig DP, Kuhlemeier C, Smith RS, Sinha NR.

Plant Cell. 2012 Jun;24(6):2318-27. doi: 10.1105/tpc.112.098798. Epub 2012 Jun 21.

40.

Native environment modulates leaf size and response to simulated foliar shade across wild tomato species.

Chitwood DH, Headland LR, Filiault DL, Kumar R, Jiménez-Gómez JM, Schrager AV, Park DS, Peng J, Sinha NR, Maloof JN.

PLoS One. 2012;7(1):e29570. doi: 10.1371/journal.pone.0029570. Epub 2012 Jan 12.

41.

The developmental trajectory of leaflet morphology in wild tomato species.

Chitwood DH, Headland LR, Kumar R, Peng J, Maloof JN, Sinha NR.

Plant Physiol. 2012 Mar;158(3):1230-40. doi: 10.1104/pp.111.192518. Epub 2012 Jan 12.

42.

Small RNAs are on the move.

Chitwood DH, Timmermans MC.

Nature. 2010 Sep 23;467(7314):415-9. doi: 10.1038/nature09351. Review.

PMID:
20864994
43.

Signals and prepatterns: new insights into organ polarity in plants.

Husbands AY, Chitwood DH, Plavskin Y, Timmermans MC.

Genes Dev. 2009 Sep 1;23(17):1986-97. doi: 10.1101/gad.1819909. Review.

44.

Pattern formation via small RNA mobility.

Chitwood DH, Nogueira FT, Howell MD, Montgomery TA, Carrington JC, Timmermans MC.

Genes Dev. 2009 Mar 1;23(5):549-54. doi: 10.1101/gad.1770009.

45.

Regulation of small RNA accumulation in the maize shoot apex.

Nogueira FT, Chitwood DH, Madi S, Ohtsu K, Schnable PS, Scanlon MJ, Timmermans MC.

PLoS Genet. 2009 Jan;5(1):e1000320. doi: 10.1371/journal.pgen.1000320. Epub 2009 Jan 2.

46.

Target mimics modulate miRNAs.

Chitwood DH, Timmermans MC.

Nat Genet. 2007 Aug;39(8):935-6. No abstract available.

PMID:
17660806
47.

Two small regulatory RNAs establish opposing fates of a developmental axis.

Nogueira FT, Madi S, Chitwood DH, Juarez MT, Timmermans MC.

Genes Dev. 2007 Apr 1;21(7):750-5.

48.

Organ polarity in plants is specified through the opposing activity of two distinct small regulatory RNAs.

Nogueira FT, Sarkar AK, Chitwood DH, Timmermans MC.

Cold Spring Harb Symp Quant Biol. 2006;71:157-64. Review.

PMID:
17381292
49.

Establishing leaf polarity: the role of small RNAs and positional signals in the shoot apex.

Chitwood DH, Guo M, Nogueira FT, Timmermans MC.

Development. 2007 Mar;134(5):813-23. Epub 2007 Jan 24. Review.

50.

Argonaute slicing is required for heterochromatic silencing and spreading.

Irvine DV, Zaratiegui M, Tolia NH, Goto DB, Chitwood DH, Vaughn MW, Joshua-Tor L, Martienssen RA.

Science. 2006 Aug 25;313(5790):1134-7.

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