Items where Community is "Timmermans lab"

Paper

Marco, C. F., Skopelitis, D. S., Timmermans, M. C. P. (January 2019) In Situ Localization of Small RNAs in Plants. Methods Mol Biol, 1932. pp. 159-173. ISSN 1064-3745

Li, L., Eichten, S. R., Shimizu, R., Petsch, K., Yeh, C. T., Wu, W., Chettoor, A. M., Givan, S. A., Cole, R. A., Fowler, J. E., Evans, M. M. S., Scanlon, M. J., Yu, J., Schnable, P. S., Timmermans, M. C. P., Springer, N. M., Muehlbauer, G. J. (August 2018) Correction to: Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biol, 19 (1). p. 122. ISSN 1474-7596

Skopelitis, D. S., Hill, K., Klesen, S., Marco, C. F., von Born, P., Chitwood, D. H., Timmermans, M. C. P. (August 2018) Gating of miRNA movement at defined cell-cell interfaces governs their impact as positional signals. Nat Commun, 9 (1). p. 3107. ISSN 2041-1723

Skopelitis, Damianos S., Benkovics, Anna H., Husbands, Aman Y., Timmermans, Marja C. P. (November 2017) Boundary Formation through a Direct Threshold-Based Readout of Mobile Small RNA Gradients. Developmental Cell, 43 (3). pp. 265-273. ISSN 1534-5807

Lira, B. S., Gramegna, G., Trench, B., Alves, F. R. R., Silva, E. M., Silva, G. F. F., Thirumalaikumar, V. P., Lupi, A. C. D., Demarco, D., Purgatto, E., Nogueira, F. T., Balazadeh, S., Freschi, L., Rossi, M. (July 2017) Manipulation of a senescence-associated gene improves fleshy fruit yield. Plant Physiol. ISSN 0032-0889

Husbands, A. Y., Aggarwal, V., Ha, T., Timmermans, M. C. (August 2016) In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes. Plant Cell, 28 (8). pp. 1783-94. ISSN 1532-298X (Electronic)1040-4651 (Linking)

Offermann, B., Knauer, S., Singh, A., Fernandez-Cachon, M. L., Klose, M., Kowar, S., Busch, H., Boerries, M. (April 2016) Boolean Modeling Reveals the Necessity of Transcriptional Regulation for Bistability in PC12 Cell Differentiation. Front Genet, 7. p. 44. ISSN 1664-8021 (Electronic)1664-8021 (Linking)

Plavskin, Yevgeniy, Nagashima, Akitomo, Perroud, Pierre-François, Hasebe, Mitsuyasu, Quatrano, Ralph S, Atwal, Gurinder S, Timmermans, Marja C P. (February 2016) Ancient trans-Acting siRNAs Confer Robustness and Sensitivity onto the Auxin Response. Developmental Cell, 36 (3). pp. 276-289. ISSN 1534-5807

Husbands, A. Y., Benkovics, A. H., Nogueira, F. T., Lodha, M., Timmermans, M. C. (December 2015) The ASYMMETRIC LEAVES Complex Employs Multiple Modes of Regulation to Affect Adaxial-Abaxial Patterning and Leaf Complexity. Plant Cell, 27 (12). pp. 3321-3335. ISSN 1532-298X (Electronic)1040-4651 (Linking)

Leiboff, S., Li, X., Hu, H. C., Todt, N., Yang, J., Li, X., Yu, X., Muehlbauer, G. J., Timmermans, M. C., Yu, J., Schnable, P. S., Scanlon, M. J. (November 2015) Genetic control of morphometric diversity in the maize shoot apical meristem. Nat Commun, 6. p. 8974. ISSN 2041-1723 (Electronic)2041-1723 (Linking)

Chandran, D., Scanlon, M. J., Ohtsu, K., Timmermans, M. C., Schnable, P. S., Wildermuth, M. C. (October 2015) Laser Microdissection-Mediated Isolation and In Vitro Transcriptional Amplification of Plant RNA. Curr Protoc Mol Biol, 112. 25A 3.1-25A 3.23. ISSN 1934-3647 (Electronic)1934-3647 (Linking)

Petsch, K., Manzotti, P. S., Tam, O. H., Meeley, R., Hammell, M., Consonni, G., Timmermans, M. C. (August 2015) Novel DICER-LIKE1 siRNAs Bypass the Requirement for DICER-LIKE4 in Maize Development. Plant Cell, 27 (8). pp. 2163-2177. ISSN 1532-298X (Electronic)1040-4651 (Linking)

Thompson, A. M., Yu, J., Timmermans, M. C., Schnable, P., Crants, J. C., Scanlon, M. J., Muehlbauer, G. J. (May 2015) Diversity of maize shoot apical meristem architecture and its relationship to plant morphology. G3 (Bethesda), 5 (5). pp. 819-27. ISSN 2160-1836 (Electronic)2160-1836 (Linking)

Dotto, M. C., Petsch, K. A., Aukerman, M. J., Beatty, M., Hammell, M., Timmermans, M. C. (December 2014) Genome-Wide Analysis of leafbladeless1-Regulated and Phased Small RNAs Underscores the Importance of the TAS3 ta-siRNA Pathway to Maize Development. PLoS Genetics, 10 (12). e1004826. ISSN 1553-7390

Benkovics, A. H., Timmermans, M. C. (June 2014) Developmental patterning by gradients of mobile small RNAs. Current Opinion in Genetics & Development, 27C. pp. 83-91. ISSN 0959-437X

Thompson, A. M., Crants, J., Schnable, P. S., Yu, J., Timmermans, M. C. P., Springer, N. M., Scanlon, M. J., Muehlbauer, G. J. (May 2014) Genetic control of maize shoot apical meristem architecture. G3: Genes, Genomes, Genetics, 4 (7). pp. 1327-1337. ISSN 21601836

Li, L., Eichten, S. R., Shimizu, R., Petsch, K., Yeh, C. T., Wu, W., Chettoor, A. M., Givan, S. A., Cole, R. A., Fowler, J. E., Evans, M. M., Scanlon, M. J., Yu, J., Schnable, P. S., Timmermans, M. C., Springer, N. M., Muehlbauer, G. J. (February 2014) Genome-wide discovery and characterization of maize long non-coding RNAs. Genome Biology, 15 (2). R40. ISSN 1465-6906

Zhai, J. X., Zhao, Y. Y., Simon, S. A., Huang, S., Petsch, K., Arikit, S., Pillay, M., Ji, L. J., Xie, M., Cao, X. F., Yu, B., Timmermans, M., Yang, B., Chen, X. M., Meyers, B. C. (July 2013) Plant MicroRNAs Display Differential 3 ' Truncation and Tailing Modifications That Are ARGONAUTE1 Dependent and Conserved Across Species. Plant Cell, 25 (7). pp. 2417-2428. ISSN 1040-4651

Lodha, M., Marco, C. F., Timmermans, M. C. (March 2013) The ASYMMETRIC LEAVES complex maintains repression of KNOX homeobox genes via direct recruitment of Polycomb-repressive complex2. Genes & Development, 27 (6). pp. 596-601. ISSN 0890-9369

Scanlon, M. J., Timmermans, M. (February 2013) Growth and development: from genes to networks and a mechanistic understanding of plant development. Current Opinion in Plant Biology, 16 (1). pp. 1-4. ISSN 1369-5266

Plavskin, Y., Timmermans, M. C. (January 2013) Small RNA-Regulated Networks and the Evolution of Novel Structures in Plants. Cold Spring Harbor Symposia on Quantitative Biology, 77. ISSN 00917451 (ISSN)

Li, L., Petsch, K., Shimizu, R., Liu, S., Xu, W. W., Ying, K., Yu, J., Scanlon, M. J., Schnable, P. S., Timmermans, M. C. P., Springer, N. M., Muehlbauer, G. J. (January 2013) Mendelian and Non-Mendelian Regulation of Gene Expression in Maize. PLoS Genetics, 9 (1). Article number e1003202. ISSN 15537390 (ISSN)

Knauer, S., Holt, A.L., Rubio-Somoza, I., Tucker, E. J., Hinze, A., Pisch, M., Javelle, M., Timmermans, M. C. P., Tucker, M. R., Laux, T. (January 2013) A Protodermal miR394 Signal Defines a Region of Stem Cell Competence in the Arabidopsis Shoot Meristem. Developmental Cell. ISSN 15345807

Bell, E. M., Lin, W. C., Husbands, A. Y., Yu, L., Jaganatha, V., Jablonska, B., Mangeon, A., Neff, M. M., Girke, T., Springer, P. S. (December 2012) Arabidopsis lateral organ boundaries negatively regulates brassinosteroid accumulation to limit growth in organ boundaries. Proceedings of the National Academy of Sciences of the United States of America, 109 (51). pp. 21146-21151. ISSN 00278424

Li, X. R., Zhu, C. S., Yeh, C. T., Wu, W., Takacs, E. M., Petsch, K. A., Tian, F., Bai, G. H., Buckler, E. S., Muehlbauer, G. J., Timmermans, M. C. P., Scanlon, M. J., Schnable, P. S., Yu, J. M. (December 2012) Genic and nongenic contributions to natural variation of quantitative traits in maize. Genome Research, 22 (12). pp. 2436-2444. ISSN 1088-9051

Takacs, E. M., Li, J., Du, C., Ponnala, L., Janick-Buckner, D., Yu, J., Muehlbauer, G. J., Schnable, P. S., Timmermans, M. C. P., Sun, Q., Nettleton, D., Scanlon, M. J. (August 2012) Ontogeny of the maize shoot apical meristem. Plant Cell, 24 (8). pp. 3219-3234.

Zhang, X., Douglas, R. N., Strable, J., Lee, M., Buckner, B., Janick-Buckner, D., Schnable, P. S., Timmermans, M. C. P., Scanlon, M. J. (August 2012) Punctate vascular expression1 is a novel maize gene required for leaf pattern formation that functions downstream of the trans-acting small interfering RNA pathway. Plant Physiology, 159 (4). pp. 1453-1462. ISSN 0032-0889

Javelle, M., Timmermans, M. C. (February 2012) In situ localization of small RNAs in plants by using LNA probes. Nat Protoc, 7 (3). pp. 533-41. ISSN 1750-2799 (Electronic)1750-2799 (Linking)

Skopelitis, D. S., Husbands, A. Y., Timmermans, M. C. (2012) Plant small RNAs as morphogens. Current Opinion in Cell Biology, 24 (2). pp. 217-224.

Javelle, M., Klein-Cosson, C., Vernoud, V., Boltz, V., Maher, C., Timmermans, M. C. P., Depege-Fargeix, N., Rogowsky, P. M. (October 2011) Genome-Wide Characterization of the HD-ZIP IV Transcription Factor Family in Maize: Preferential Expression in the Epidermis. Plant Physiology, 157 (2). pp. 790-803. ISSN 0032-0889

Depge-Fargeix, N., Javelle, M., Chambrier, P., Frangne, N., Gerentes, D., Perez, P., Rogowsky, P. M., Vernoud, V. (2011) Functional characterization of the HD-ZIP IV transcription factor OCL1 from maize. Journal of Experimental Botany, 62 (1). pp. 293-305.

Javelle, M., Marco, C. F., Timmermans, M. (2011) In Situ Hybridization for the Precise Localization of Transcripts in Plants. Journal of Visualized Experiments (57). ISSN 1940-087X (Electronic)1940-087X (Linking)

Petsch, K. A., Chonglie, M., Scanlon, M. J., Jorgensen, R. A. (December 2010) Targeted forward mutagenesis by transitive RNAi. The Plant Journal, 61 (5). pp. 873-882.

Chitwood, D. H., Timmermans, M. C. P. (September 2010) Small RNAs are on the move. Nature, 467 (7314). pp. 415-419. ISSN 0028-0836

Douglas, R. N., Wiley, D., Sarkar, A., Springer, N., Timmermans, M. C. P., Scanlon, M. J. (May 2010) Ragged seedling2 Encodes an ARGONAUTE7-Like Protein Required for Mediolateral Expansion, but Not Dorsiventrality, of Maize Leaves. Plant Cell, 22 (5). pp. 1441-1451. ISSN 1040-4651

Javelle, M., Vernoud, V., Depège-Fargeix, N., Arnould, C., Oursel, D., Domergue, F., Sarda, X., Rogowsky, P. M. (2010) Overexpression of the epidermis-specific homeodomain-leucine zipper IV transcription factor OUTER CELL LAYER1 in maize identifies target genes involved in lipid metabolism and cuticle biosynthesis. Plant Physiology, 154 (1). pp. 273-286.

Kidner, C. A., Timmermans, M. C. P. (2010) Signaling sides adaxial-abaxial patterning in leaves. Current Topics in Developmental Biology, 91. pp. 141-168.

Husbands, A. Y., Chitwood, D. H., Plavskin, Y., Timmermans, M. C. P. (September 2009) Signals and prepatterns: new insights into organ polarity in plants. Genes and Development, 23 (17). pp. 1986-97. ISSN 08909369 (ISSN)

Scanlon, M. J., Ohtsu, K., Timmermans, M. C. P., Schnable, P. S. (July 2009) Laser microdissection-mediated isolation and in vitro transcriptional amplification of plant RNA. Current Protocols in Molecular Biology (SUPPL.). 25A.3.1-25A.3.15.

Brooks, L., Strable, J., Zhang, X., Ohtsu, K., Zhou, R., Sarkar, A., Hargreaves, S., Elshire, R. J., Eudy, D., Pawlowska, T., Ware, D. H., Janick-Buckner, D., Buckner, B., Timmermans, M. C. P., Schnable, P. S., Nettleton, D., Scanlon, M. J. (May 2009) Microdissection of shoot meristem functional domains. PLoS Genet, 5 (5). e1000476.

Chitwood, D. H., Nogueira, F. T. S., Howell, M. D., Montgomery, T. A., Carrington, J. C., Timmermans, M. C. P. (March 2009) Pattern formation via small RNA mobility. Genes Dev, 23 (5). pp. 549-554. ISSN 0890-9369

Gray, J., Bevan, M., Brutnell, T., Buell, C. R., Cone, K., Hake, S., Jackson, D. P., Kellogg, E., Lawrence, C., McCouch, S., Mockler, T., Moose, S., Paterson, A., Peterson, T., Rokshar, D., Souza, G. M., Springer, N., Stein, N., Timmermans, M. C. P., Wang, G.-L., Grotewold, E. (January 2009) A Recommendation for Naming Transcription Factor Proteins in the Grasses. Plant Physiol., 149 (1). pp. 4-6.

Nogueira, F. T. S., Chitwood, D. H., Madi, S., Ohtsu, K., Schnable, P. S., Scanlon, M. J., Timmermans, M. C. P. (January 2009) Regulation of Small RNA Accumulation in the Maize Shoot Apex. Plos Genetics, 5 (1). e1000320. ISSN 1553-7390

Timmermans, M. C. P., Chitwood, D., Nogueira, F., Madi, S. (July 2008) Pattern formation by small RNA signals. Developmental Biology, 319 (2). pp. 463-464. ISSN 0012-1606

Timmermans, M. C., Chitwood, D., Nogueira, F., Madi, S. (April 2008) Small RNAs as Mobile Signals in Development. Faseb Journal, 22. p. 1. ISSN 0892-6638

Guo, M., Thomas, J., Collins, G. A., Timmermans, M. C. P. (January 2008) Direct Repression of KNOX Loci by the ASYMMETRIC LEAVES1 Complex of Arabidopsis. Plant Cell, 20 (1). pp. 48-58.

Lodha, M., Marco, C. F., Timmermans, M. C. P. (2008) Genetic and epigenetic regulation of stem cell homeostasis in plants. Cold Spring Harbor Symposia on Quantitative Biology, 73. pp. 243-51. ISSN 00917451 (ISSN)

Chitwood, D. H., Nogueira, F. T., Howell, M. D., Montogmery, T. A., Carrington, J. C., Timmermans, M. C. (2008) Pattern formation in leaves via small RNA mobility. Developmental Biology, 319 (2). pp. 587-588. ISSN 0012-1606

Ohtsu, K., Smith, M. B., Emrich, S. J., Borsuk, L. A., Zhou, R. L., Chen, T. L., Zhang, X. L., Timmermans, M. C. P., Beck, J., Buckner, B., Janick-Buckner, D., Nettleton, D., Scanlon, M. J., Schnable, P. S. (November 2007) Global gene expression analysis of the shoot apical meristem of maize (Zea mays L.). Plant Journal, 52 (3). pp. 391-404. ISSN 0960-7412

Nogueira, F. T. S., Timmermans, M. C. (November 2007) An Interplay Between Small Regulatory RNAs Patterns Leaves. Plant Signaling & Behavior, 2 (6). pp. 519-21. ISSN 1559-2316 (Print)

Chitwood, D. H., Timmermans, M. C. P. (August 2007) Target mimics modulate miRNAs. Nat Genet, 39 (8). pp. 935-6. ISSN 1061-4036 (Print)

Zhang, X., Madi, S., Borsuk, L., Nettleton, D., Elshire, R. J., Buckner, B., Janick-Buckner, D., Beck, J., Timmermans, M. C. P., Schnable, P. S., Scanlon, M. J. (June 2007) Laser microdissection of narrow sheath mutant maize uncovers novel gene expression in the shoot apical meristem. Plos Genetics, 3 (6). pp. 1040-1052. ISSN 1553-7390

Sarkar, A. K., Luijten, M., Miyashima, S., Lenhard, M., Hashimoto, T., Nakajima, K., Scheres, B., Heidstra, R., Laux, T. (April 2007) Conserved factors regulate signalling in Arabidopsis thaliana shoot and root stem cell organizers. Nature, 446 (7137). pp. 811-4. ISSN 1476-4687 (Electronic)

Nogueira, F. T., Madi, S., Chitwood, D. H., Juarez, M. T., Timmermans, M. C. P. (April 2007) Two small regulatory RNAs establish opposing fates of a developmental axis. Genes Dev, 21 (7). pp. 750-5. ISSN 0890-9369 (Print)

Chitwood, D. H., Guo, M., Nogueira, F. T. S., Timmermans, M. C. P. (March 2007) Establishing leaf polarity: the role of small RNAs and positional signals in the shoot apex. Development, 134 (5). pp. 813-23. ISSN 0950-1991 (Print)

Kidner, C. A., Timmermans, M. C. (February 2007) Mixing and matching pathways in leaf polarity. Current Opinion in Plant Biology, 10 (1). pp. 13-20. ISSN 1369-5266 (Print)1369-5266

Nogueira, F. T., Sarkar, A. K., Chitwood, D. H., Timmermans, M. C. (2006) Organ Polarity in Plants Is Specified through the Opposing Activity of Two Distinct Small Regulatory RNAs. Cold Spring Harbor Symposia on Quantitative Biology, 71. pp. 157-64. ISSN 00917451 (ISSN)

Phelps-Durr, T. L., Thomas, J., Vahab, Phil, Timmermans, M.C.P. (November 2005) Maize rough sheath2 and its Arabidopsis orthologue ASYMMETRIC LEAVES1 interact with HIRA, a predicted histone chaperone, to maintain knox gene silencing and determinacy during organogenesis. Plant Cell, 17 (11). pp. 2886-98. ISSN 1040-4651 (Print)

Timmermans, M. C., Brutnell, T. P., Becraft, P. W. (September 2004) The 46th Annual Maize Genetics Conference. Unlocking the secrets of the maize genome. Plant Physiol, 136 (1). pp. 2633-40. ISSN 0032-0889 (Print)

Juarez, M. T., Twigg, R. W., Timmermans, M. C. P. (September 2004) Specification of adaxial cell fate during maize leaf development. Development, 131 (18). pp. 4533-44. ISSN 0950-1991 (Print)

Juarez, M., Timmermans, M. (July 2004) MiRNAs specify dorsoventral polarity during leaf development. Developmental Biology, 271 (2). pp. 551-552. ISSN 0012-1606

Juarez, M. T., Kui, J. S., Thomas, J., Heller, B. A., Timmermans, M. C. (March 2004) microRNA-mediated repression of rolled leaf1 specifies maize leaf polarity. Nature, 428 (6978). pp. 84-8. ISSN 1476-4687 (Electronic)

Timmermans, M. C., Juarez, M. T., Phelps-Durr, T. L. (2004) A conserved microRNA signal specifies leaf polarity. Cold Spring Harb Symp Quant Biol, 69. pp. 409-17. ISSN 0091-7451 (Print)

Kim, M., McCormick, S., Timmermans, M., Sinha, N. (July 2003) The expression domain of PHANTASTICA determines leaflet placement in compound leaves. Nature, 424 (6947). pp. 438-443. ISSN 0028-0836

Kidner, C. A., Timmermans, M. C. P., Byrne, M. E., Martienssen, R. A. (2002) Developmental genetics of the angiosperm leaf. Advances in Botanical Research, 38. pp. 191-234. ISSN 0065-2296

Byrne, M., Timmermans, M., Kidner, C., Martienssen, R. (February 2001) Development of leaf shape. Current Opinion in Plant Biology, 4 (1). pp. 38-43. ISSN 1369-5266

Vielle-Calzada, J. P., Thomas, J., Spillane, C., Coluccio, A., Hoeppner, M. A., Grossniklaus, U. (November 1999) Maintenance of genomic imprinting at the Arabidopsis medea locus requires zygotic DDM1 activity. Genes and Development , 13 (22). pp. 2971-82. ISSN 0890-9369 (Print)

Timmermans, M. C. P., Hudson, A., Becraft, P. W., Nelson, T. (April 1999) ROUGH SHEATH2: A Myb protein that represses knox homeobox genes in maize lateral organ primordia. Science, 284 (5411). pp. 151-153. ISSN 0036-8075

Book Section

Foster, Toshi M, Timmermans, Marja C. P. (2009) Axial Patterning of the Maize Leaf. In: Handbook of Maize: Its Biology. Springer New York, pp. 161-178. ISBN 978-0-387-79417-4

Book

Timmermans, M. C. P., ed. (2010) Plant Development. Current Topics in Developmental Biology, 91 . Elsevier Academic Press Inc, San Diego. ISBN 978-0-12-380910-0

Thesis

Plavskin, Yevgeniy (August 2013) Regulation of the auxin response by an ancient small RNA pathway. PhD thesis, Cold Spring Harbor Laboratory.

Chitwood, D. H. (2009) Patterning in Leaves via a Cascade of Small RNAs. PhD thesis, Cold Spring Harbor Laboratory.