{tab=Research}

Rishikesh Bhalerao standing in a growth room at one of UPSC's greenhouses with aspen trees in front and behind him Photo: Andreas PalménOverarching goal of my research group is to understand the mechanistic basis of growth adaptation in plants. We are using two experimental models to study growth adaptation. In the first project, we are using annual growth cycles in perennial plants as a model to understand how plants use environmental cues such as photoperiod and temperature to control the timing of seasonal growth transitions in hybrid aspen. In second project, we are using apical hook (a structure that forms by bending of hypocotyl as seedling emerges from soil) as a model to understand how mechanical cues regulate differential growth to facilitate tissue bending in Arabidopsis thaliana. We use genetical, cell biological and biophysical approaches combined with mathematical modelling in our work.

Project 1: Seasonal control of annual growth cycles

Perennial plants need to undergo growth cessation and establish dormancy prior to the onset of winter, in order to survive low temperatures. These plants anticipate the approach of winter by sensing the reduction in day length. Reduction in day length (short day signal) induces growth cessation that is apparent in the form of bud formation at the apex and eventually the establishment of dormancy. Once dormancy is established, prolonged exposure to chilling temperatures is essential for release from dormancy. Once release from dormancy has occurred, warm temperatures can re-initiate new growth. In this project our focus is on identifying the molecular basis of how short-day signal induces growth cessation and dormancy and how temperature cues induce dormancy release and activate growth in hybrid aspen. Our key findings so far can be found in recent publications (1-9).

Project 2: Mechano-chemical control of tissue bending

Unlike animal cells, plant cells do not contract or migrate. As a result, differential cell elongation is a key mechanism used for tissue bending in plant morphogenesis. We are interested in elucidating the mechanistic basis of how mechanical cues regulate differential growth and how this facilitates tissue bending in plants. To address this, we are using the apical hook development as a model. Apical hook is a structure formed by the bending of the hypocotyl during early seedling establishment as seedling emerges through the soil. We have discovered that hypocotyl bends in response to mechanical cues when seeds germinate inside the soil as hypocotyl pushes through the soil. In contrast with animals, plant cells are enclosed within a rigid cell wall and therefore remodeling of cell wall is expected to play a critical role in differential growth. We are using genetical, cell biological and biophysical approaches to investigate the control of differential cell elongation during apical hook development. These studies (10-13) have so far uncovered an interplay between plant hormones such auxin and ethylene, primary cell wall components (such pectin, xyloglucans and cellulose) and cytoskeleton in regulation of hypocotyl bending during apical hook development in Arabidopsis.

Key Publications

  1. Maurya J., Misckolzi P., Mishra S., Singh R and Bhalerao RP (2020) A genetic framework for regulation and seasonal adaptation of shoot architecture in hybrid aspen. PNAS 117(21): 11523-11530 https://doi.org/10.1073/pnas.2004705117
  2. Maurya JP., Singh R., Misckolczi P., Prasad AN., Jonsson K., Wu F and Bhalerao RP (2020) Branching regulator BRC1 mediates photoperiodic control of seasonal growth in hybrid aspen. Current Biology 30: 122-126 https://doi.org/10.1016/j.cub.2019.11.001
  3. Misckolczi P., Singh RK., Tylewicz S., Azeez A., Maurya JP., Tarkowska D., Novak O., Jonsson K and Bhalerao RP (2019) Long-range mobile signals mediate seasonal control of shoot growth. PNAS 116: 10852-10857 https://doi.org/10.1073/pnas.1902199116
  4. Singh R., Misckolczi P., Maurya JP and Bhalerao RP (2019) A tree ortholog SHORT VEGETATIVE PHASE floral repressor mediates photoperiodic control of bud dormancy. Current Biology 29: 128-133 https://doi.org/10.1016/j.cub.2018.11.006
  5. Singh R., Misckolczi P., Maurya JP., Azeez A., Tylewicz S., Busov V and Bhalerao RP (2018) A genetic network mediating the control of bud break in hybrid aspen. Nature Communications 9: 4173 https://doi.org/10.1038/s41467-018-06696-y
  6. Tylewicz S., Petterle A., Martilla S., Misckolzi P., Singh R., Immanen J., Mähler N., Hvidsten T., Eklund D., Bowman J., Helariutta Y and Bhalerao RP ( 2018) Photoperiodic control of seasonal growth is mediated by ABA acting on cell-cell communication. Science 360: 212-215 https://doi.org/10.1126/science.aan8576
  7. Singh R., Svystun T., AlDahmash B., Jönsson AM and Bhalerao R (2017) Photoperiodic and temperature mediated control of phenology in trees-a molecular perspective. New Phytologist 213:511-524 https://doi.org/10.1111/nph.14346
  8. Tylewicz S., Tsuji H., Miskolczi P., Petterle A., Azeez A., Jonsson K., Shimamoto K and Bhalerao RP (2015) Dual role of tree florigen activation complex component FD in photoperiodic growth control and adaptive response pathways. PNAS 112: 3140-3145 https://doi.org/10.1073/pnas.1423440112
  9. Azeez A., Miskcolzi P., Tylewicz S and Bhalerao RP (2014) A tree ortholog of APETALA1 mediates photoperiodic control of seasonal growth. Current Biology 24: 717-724 https://doi.org/10.1016/j.cub.2014.02.037
  10. Boutté Y., Jönsson K., McFarlane HE., Johnson E., Gendre D., Swarup R., Friml J., Samuels L., Robert S and Bhalerao RP (2013) ECHIDNA-mediated post-golgi Trafficking of Auxin Carriers for Differential Cell Elongation in Arabidopsis. PNAS 110:16259-16264. https://doi.org/10.1073/pnas.1309057110
  11. Jonsson K., Gendre D., Singh R., Boutte Y and Bhalerao R (2017) Ethylene regulation of differential growth is mediated by BIG ARF-GEF dependent post-Golgi secretory trafficking in Arabidopsis. Plant Cell 29: 1039-1052 https://doi.org/10.1105/tpc.16.00743
  12. Aryal B., Jonsson K., Baral A., Sancho-Andrés G., Routier-Kierzkowska., Kierzkowski D and Bhalerao RP (2020) Interplay between cell wall and auxin mediates the control of differential cell elongation during apical hook development. Current Biology 30(9):1733-1739.e3 https://doi.org/10.1016/j.cub.2020.02.055
  13. Baral A., Morris E., Aryal B., Jonsson.,Verger S., Xu T., Bennett M., Hamant O and Bhalerao RP (2020) External mechanical cues reveal core molecular pathway behind tissue bending in plants. bioRxiv 2020.03.05.978296 https://doi.org/10.1101/2020.03.05.978296

Our work is funded by generous support from:

Logo of the Swedish Research CouncilLogo of the Knut and Alice Wallenberg FoundationLogo of the Human Frontier Science Program (HFSP)Logo of Kempestiftelserna -  the Kempe FoundationsLogo of Marie Skłodowska-Curie ActionsLogo of Formas, a Swedish Research Council for Sustainable DevelopmentLogo of the Swedish Foundation for Strategic Research

{tab=Team}

  • Personnel Image
    Aryal, Bibek
    Research Engineer
    E-mail
    Room: B5-50-45
  • Personnel Image
    Bhalerao, Rishikesh
    Professor
    E-mail
    Room: B5-40-45
    Website
  • Personnel Image
    Nair, Aswin
    PostDoc
    E-mail
    Room: B5-48-45
  • Personnel Image
    Velay, Florent
    PostDoc
    E-mail
    Room: C4-29-40

{tab=CV R.P. Bhalerao}
  • 2005: Professor, Swedish University of Agricultural Sciences
  • 2001: Docent, Swedish University of Agricultural Sciences
  • 1998: Assistant professor, Swedish University of Agricultural Sciences
  • 1997: Postdoc, Swedish University of Agricultural Sciences, Umeå
  • 1994-1996: Postdoc, Max-Planck Institute for Plant Breeding, Köln, Germany
  • 1993: Ph. D, Umeå University
  • 1985: B. Sc Nagpur University, Nagpur, India
  • 1987: M. Sc, Nagpur University, Nagpur, India
{tab=Publications}
  2024 (6)
A regulatory module mediating temperature control of cell-cell communication facilitates tree bud dormancy release. Pandey, S. K, Maurya, J. P., Aryal, B., Drynda, K., Nair, A., Miskolczi, P., Singh, R. K., Wang, X., Ma, Y., de Souza Moraes, T., Bayer, E. M, Farcot, E., Bassel, G. W, Band, L. R, & Bhalerao, R. P The EMBO Journal,1–20. October 2024. Num Pages: 20 Publisher: John Wiley & Sons, Ltd
A regulatory module mediating temperature control of cell-cell communication facilitates tree bud dormancy release [link]Paper   doi   link   bibtex   abstract  
Genomic basis of the distinct biosynthesis of β-glucogallin, a biochemical marker for hydrolyzable tannin production, in three oak species. Yang, Q., Li, J., Wang, Y., Wang, Z., Pei, Z., Street, N. R., Bhalerao, R. P., Yu, Z., Gao, Y., Ni, J., Jiao, Y., Sun, M., Yang, X., Chen, Y., Liu, P., Wang, J., Liu, Y., & Li, G. New Phytologist, 242(6): 2702–2718. 2024. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/nph.19711
Genomic basis of the distinct biosynthesis of β-glucogallin, a biochemical marker for hydrolyzable tannin production, in three oak species [link]Paper   doi   link   bibtex   abstract  
Molecular advances in bud dormancy in trees. Ding, J., Wang, K., Pandey, S., Perales, M., Allona, I., Khan, M. R. I., Busov, V. B, & Bhalerao, R. P Journal of Experimental Botany, 75(19): 6063–6075. October 2024.
Molecular advances in bud dormancy in trees [link]Paper   doi   link   bibtex   abstract  
NKS1/ELMO4 is an integral protein of a pectin synthesis protein complex and maintains Golgi morphology and cell adhesion in Arabidopsis. Lathe, R. S., McFarlane, H. E., Kesten, C., Wang, L., Khan, G. A., Ebert, B., Ramírez-Rodríguez, E. A., Zheng, S., Noord, N., Frandsen, K., Bhalerao, R. P., & Persson, S. Proceedings of the National Academy of Sciences, 121(15): e2321759121. April 2024. Publisher: Proceedings of the National Academy of Sciences
NKS1/ELMO4 is an integral protein of a pectin synthesis protein complex and maintains Golgi morphology and cell adhesion in Arabidopsis [link]Paper   doi   link   bibtex   abstract  
TYPHON proteins are RAB-dependent mediators of the trans-Golgi network secretory pathway. Baral, A., Gendre, D., Aryal, B., Fougère, L., Di Fino, L. M., Ohori, C., Sztojka, B., Uemura, T., Ueda, T., Marhavý, P., Boutté, Y., & Bhalerao, R. P The Plant Cell,koae280. October 2024.
TYPHON proteins are RAB-dependent mediators of the trans-Golgi network secretory pathway [link]Paper   doi   link   bibtex   abstract  
Toward uncovering an operating system in plant organs. Davis, G. V., de Souza Moraes, T., Khanapurkar, S., Dromiack, H., Ahmad, Z., Bayer, E. M., Bhalerao, R. P., Walker, S. I., & Bassel, G. W. Trends in Plant Science, 29(7): 742–753. July 2024.
Toward uncovering an operating system in plant organs [link]Paper   doi   link   bibtex   abstract  
  2023 (4)
Ectopic callose deposition into woody biomass modulates the nano-architecture of macrofibrils. Bourdon, M., Lyczakowski, J. J., Cresswell, R., Amsbury, S., Vilaplana, F., Le Guen, M., Follain, N., Wightman, R., Su, C., Alatorre-Cobos, F., Ritter, M., Liszka, A., Terrett, O. M., Yadav, S. R., Vatén, A., Nieminen, K., Eswaran, G., Alonso-Serra, J., Müller, K. H., Iuga, D., Miskolczi, P. C., Kalmbach, L., Otero, S., Mähönen, A. P., Bhalerao, R., Bulone, V., Mansfield, S. D., Hill, S., Burgert, I., Beaugrand, J., Benitez-Alfonso, Y., Dupree, R., Dupree, P., & Helariutta, Y. Nature Plants, 9(9): 1530–1546. September 2023. Number: 9 Publisher: Nature Publishing Group
Ectopic callose deposition into woody biomass modulates the nano-architecture of macrofibrils [link]Paper   doi   link   bibtex   abstract  
Growth’s secret maestros: LBD11–ROS harmony drives vascular cambium activity in Arabidopsis. Topcu, M. K., & Bhalerao, R. P. Molecular Plant, 16(8): 1246–1248. August 2023. Publisher: Elsevier
Growth’s secret maestros: LBD11–ROS harmony drives vascular cambium activity in Arabidopsis [link]Paper   doi   link   bibtex   abstract  
Multiple mechanisms behind plant bending. Jonsson, K., Ma, Y., Routier-Kierzkowska, A., & Bhalerao, R. P. Nature Plants, 9(1): 13–21. January 2023.
Multiple mechanisms behind plant bending [link]Paper   doi   link   bibtex   abstract  
The plant trans-Golgi network component ECHIDNA regulates defense, cell death, and endoplasmic reticulum stress. Liu, L., Qin, L., Safdar, L. B., Zhao, C., Cheng, X., Xie, M., Zhang, Y., Gao, F., Bai, Z., Huang, J., Bhalerao, R. P, Liu, S., & Wei, Y. Plant Physiology, 191(1): 558–574. January 2023.
The plant trans-Golgi network component ECHIDNA regulates defense, cell death, and endoplasmic reticulum stress [link]Paper   doi   link   bibtex   abstract  
  2022 (8)
Endoreplication mediates cell size control via mechanochemical signaling from cell wall. Ma, Y., Jonsson, K., Aryal, B., De Veylder, L., Hamant, O., & Bhalerao, R. P. Science Advances, 8(49): eabq2047. December 2022.
Endoreplication mediates cell size control via mechanochemical signaling from cell wall [link]Paper   doi   link   bibtex   abstract  
Hydraulic flux–responsive hormone redistribution determines root branching. Mehra, P., Pandey, B. K., Melebari, D., Banda, J., Leftley, N., Couvreur, V., Rowe, J., Anfang, M., De Gernier, H., Morris, E., Sturrock, C. J., Mooney, S. J., Swarup, R., Faulkner, C., Beeckman, T., Bhalerao, R. P., Shani, E., Jones, A. M., Dodd, I. C., Sharp, R. E., Sadanandom, A., Draye, X., & Bennett, M. J. Science, 378(6621): 762–768. November 2022.
Hydraulic flux–responsive hormone redistribution determines root branching [link]Paper   doi   link   bibtex   abstract  
Katanin-Dependent Microtubule Ordering in Association with ABA Is Important for Root Hydrotropism. Miao, R., Siao, W., Zhang, N., Lei, Z., Lin, D., Bhalerao, R. P., Lu, C., & Xu, W. International Journal of Molecular Sciences, 23(7): 3846. January 2022.
Katanin-Dependent Microtubule Ordering in Association with ABA Is Important for Root Hydrotropism [link]Paper   doi   link   bibtex   abstract  
Molecular basis of differential adventitious rooting competence in poplar genotypes. Ranjan, A., Perrone, I., Alallaq, S., Singh, R., Rigal, A., Brunoni, F., Chitarra, W., Guinet, F., Kohler, A., Martin, F., Street, N. R, Bhalerao, R., Legué, V., & Bellini, C. Journal of Experimental Botany, 73(12): 4046–4064. June 2022.
Molecular basis of differential adventitious rooting competence in poplar genotypes [link]Paper   doi   link   bibtex   abstract  
Plant cell walls as mechanical signaling hubs for morphogenesis. Jonsson, K., Hamant, O., & Bhalerao, R. P. Current Biology, 32(7): R334–R340. April 2022.
Plant cell walls as mechanical signaling hubs for morphogenesis [link]Paper   doi   link   bibtex   abstract  
The TGN/EE SNARE protein SYP61 and the ubiquitin ligase ATL31 cooperatively regulate plant responses to carbon/nitrogen conditions in Arabidopsis. Hasegawa, Y., Huarancca Reyes, T., Uemura, T., Baral, A., Fujimaki, A., Luo, Y., Morita, Y., Saeki, Y., Maekawa, S., Yasuda, S., Mukuta, K., Fukao, Y., Tanaka, K., Nakano, A., Takagi, J., Bhalerao, R. P, Yamaguchi, J., & Sato, T. The Plant Cell, 34(4): 1354–1374. April 2022.
The TGN/EE SNARE protein SYP61 and the ubiquitin ligase ATL31 cooperatively regulate plant responses to carbon/nitrogen conditions in Arabidopsis [link]Paper   doi   link   bibtex   abstract  
Towards understanding the biological foundations of perenniality. Li, Z., Lathe, R. S., Li, J., He, H., & Bhalerao, R. P. Trends in Plant Science, 27(1): 56–68. January 2022.
Towards understanding the biological foundations of perenniality [link]Paper   doi   link   bibtex   abstract  
When to branch: seasonal control of shoot architecture in trees. Singh, R. K., Bhalerao, R. P., & Maurya, J. P. The FEBS Journal, 289(24): 8062–8070. October 2022.
When to branch: seasonal control of shoot architecture in trees [link]Paper   doi   link   bibtex   abstract  
  2021 (6)
EARLY BUD-BREAK 1 and EARLY BUD-BREAK 3 control resumption of poplar growth after winter dormancy. Azeez, A., Zhao, Y. C., Singh, R. K., Yordanov, Y. S., Dash, M., Miskolczi, P., Stojkovič, K., Strauss, S. H., Bhalerao, R. P., & Busov, V. B. Nature Communications, 12(1): 1123. December 2021.
EARLY BUD-BREAK 1 and EARLY BUD-BREAK 3 control resumption of poplar growth after winter dormancy [link]Paper   doi   link   bibtex   abstract   17 downloads  
External Mechanical Cues Reveal a Katanin-Independent Mechanism behind Auxin-Mediated Tissue Bending in Plants. Baral, A., Aryal, B., Jonsson, K., Morris, E., Demes, E., Takatani, S., Verger, S., Xu, T., Bennett, M., Hamant, O., & Bhalerao, R. P. Developmental Cell, 56(1): 67–80.e3. January 2021.
External Mechanical Cues Reveal a Katanin-Independent Mechanism behind Auxin-Mediated Tissue Bending in Plants [link]Paper   doi   link   bibtex   17 downloads  
Growing in time: exploring the molecular mechanisms of tree growth. Singh, R. K., Bhalerao, R. P., & Eriksson, M. E. Tree Physiology, 41(4): 657–678. April 2021.
Growing in time: exploring the molecular mechanisms of tree growth [link]Paper   doi   link   bibtex   abstract   16 downloads  
Mechanochemical feedback mediates tissue bending required for seedling emergence. Jonsson, K., Lathe, R. S., Kierzkowski, D., Routier-Kierzkowska, A., Hamant, O., & Bhalerao, R. P. Current Biology, 31(6): 1154–1164.e3. March 2021.
Mechanochemical feedback mediates tissue bending required for seedling emergence [link]Paper   doi   link   bibtex   9 downloads  
Variation in non-target traits in genetically modified hybrid aspens does not exceed natural variation. Robinson, K. M., Möller, L., Bhalerao, R. P., Hertzberg, M., Nilsson, O., & Jansson, S. New Biotechnology, 64: 27–36. September 2021.
Variation in non-target traits in genetically modified hybrid aspens does not exceed natural variation [link]Paper   doi   link   bibtex   abstract   11 downloads  
Xyloglucan Remodeling Defines Auxin-Dependent Differential Tissue Expansion in Plants. Velasquez, S. M., Guo, X., Gallemi, M., Aryal, B., Venhuizen, P., Barbez, E., Dünser, K. A., Darino, M., Pĕnčík, A., Novák, O., Kalyna, M., Mouille, G., Benková, E., P Bhalerao, R., Mravec, J., & Kleine-Vehn, J. International Journal of Molecular Sciences, 22(17): 9222. August 2021.
doi   link   bibtex   abstract   1 download  
  2020 (5)
A genetic framework for regulation and seasonal adaptation of shoot architecture in hybrid aspen. Maurya, J. P., Miskolczi, P. C., Mishra, S., Singh, R. K., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 117(21): 11523–11530. May 2020.
A genetic framework for regulation and seasonal adaptation of shoot architecture in hybrid aspen [link]Paper   doi   link   bibtex   abstract   5 downloads  
Branching Regulator BRC1 Mediates Photoperiodic Control of Seasonal Growth in Hybrid Aspen. Maurya, J. P., Singh, R. K., Miskolczi, P. C., Prasad, A. N., Jonsson, K., Wu, F., & Bhalerao, R. P. Current Biology, 30(1): 122–126.e2. January 2020.
Branching Regulator BRC1 Mediates Photoperiodic Control of Seasonal Growth in Hybrid Aspen [link]Paper   doi   link   bibtex   1 download  
Interplay between Cell Wall and Auxin Mediates the Control of Differential Cell Elongation during Apical Hook Development. Aryal, B., Jonsson, K., Baral, A., Sancho-Andres, G., Routier- Kierzkowska, A., Kierzkowski, D., & Bhalerao, R. P. Current Biology, 30(9): 1733–1739.e3. May 2020.
Interplay between Cell Wall and Auxin Mediates the Control of Differential Cell Elongation during Apical Hook Development [link]Paper   doi   link   bibtex   6 downloads  
The RALF1-FERONIA interaction modulates endocytosis to mediate control of root growth in Arabidopsis. Yu, M., Li, R., Cui, Y., Chen, W., Li, B., Zhang, X., Bu, Y., Cao, Y., Xing, J., Jewaria, P. K., Li, X., Bhalerao, R. P., Yu, F., & Lin, J. Development,dev.189902. January 2020.
The RALF1-FERONIA interaction modulates endocytosis to mediate control of root growth in <i>Arabidopsis</i> [link]Paper   doi   link   bibtex   abstract  
The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels. Zhang, B., Sztojka, B., Seyfferth, C., Escamez, S., Miskolczi, P., Chantreau, M., Bakó, L., Delhomme, N., Gorzsás, A., Bhalerao, R. P., & Tuominen, H. Journal of Experimental Botany, 71(18): 5484–5494. September 2020.
The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels [link]Paper   doi   link   bibtex   abstract   5 downloads  
  2019 (6)
A Tree Ortholog of SHORT VEGETATIVE PHASE Floral Repressor Mediates Photoperiodic Control of Bud Dormancy. Singh, R. K., Miskolczi, P., Maurya, J. P., & Bhalerao, R. P. Current Biology, 29(1): 128–133.e2. January 2019.
A Tree Ortholog of SHORT VEGETATIVE PHASE Floral Repressor Mediates Photoperiodic Control of Bud Dormancy [link]Paper   doi   link   bibtex   4 downloads  
Abscisic acid signalling mediates biomass trade‐off and allocation in poplar. Yu, D., Wildhagen, H., Tylewicz, S., Miskolczi, P. C., Bhalerao, R. P., & Polle, A. New Phytologist, 223(3): 1192–1203. August 2019.
Abscisic acid signalling mediates biomass trade‐off and allocation in poplar [link]Paper   doi   link   bibtex   1 download  
Long-range mobile signals mediate seasonal control of shoot growth. Miskolczi, P., Singh, R. K., Tylewicz, S., Azeez, A., Maurya, J. P., Tarkowská, D., Novák, O., Jonsson, K., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 116(22): 10852–10857. May 2019.
Long-range mobile signals mediate seasonal control of shoot growth [link]Paper   doi   link   bibtex   abstract   5 downloads  
Rho-of-plant-activated root hair formation requires Arabidopsis YIP4a/b gene function. Gendre, D., Baral, A., Dang, X., Esnay, N., Boutté, Y., Stanislas, T., Vain, T., Claverol, S., Gustavsson, A., Lin, D., Grebe, M., & Bhalerao, R. P. Development,dev.168559. January 2019.
Rho-of-plant-activated root hair formation requires <i>Arabidopsis YIP4a/b</i> gene function [link]Paper   doi   link   bibtex   abstract   1 download  
Sustainable bioenergy for climate mitigation: developing drought-tolerant trees and grasses. Taylor, G, Donnison, I S, Murphy-Bokern, D, Morgante, M, Bogeat-Triboulot, M., Bhalerao, R. P., Hertzberg, M, Polle, A, Harfouche, A, Alasia, F, Petoussi, V, Trebbi, D, Schwarz, K, Keurentjes, J J B, Centritto, M, Genty, B, Flexas, J, Grill, E, Salvi, S, & Davies, W J Annals of Botany, 124(4): 513–520. October 2019.
Sustainable bioenergy for climate mitigation: developing drought-tolerant trees and grasses [link]Paper   doi   link   bibtex   abstract   1 download  
The Dynamics of Cambial Stem Cell Activity. Fischer, U., Kucukoglu, M., Helariutta, Y., & Bhalerao, R. P. Annual Review of Plant Biology, 70(1): 293–319. April 2019.
The Dynamics of Cambial Stem Cell Activity [link]Paper   doi   link   bibtex   abstract  
  2018 (6)
A genetic network mediating the control of bud break in hybrid aspen. Singh, R. K., Maurya, J. P., Azeez, A., Miskolczi, P., Tylewicz, S., Stojkovič, K., Delhomme, N., Busov, V., & Bhalerao, R. P. Nature Communications, 9(1): 4173. December 2018.
A genetic network mediating the control of bud break in hybrid aspen [link]Paper   doi   link   bibtex   4 downloads  
An Evolutionarily Conserved Abscisic Acid Signaling Pathway Regulates Dormancy in the Liverwort Marchantia polymorpha. Eklund, D. M., Kanei, M., Flores-Sandoval, E., Ishizaki, K., Nishihama, R., Kohchi, T., Lagercrantz, U., Bhalerao, R. P., Sakata, Y., & Bowman, J. L. Current Biology, 28(22): 3691–3699.e3. November 2018.
An Evolutionarily Conserved Abscisic Acid Signaling Pathway Regulates Dormancy in the Liverwort Marchantia polymorpha [link]Paper   doi   link   bibtex   1 download  
Environmentally Sensitive Molecular Switches Drive Poplar Phenology. Maurya, J. P., Triozzi, P. M., Bhalerao, R. P., & Perales, M. Frontiers in Plant Science, 9: 1873. December 2018.
Environmentally Sensitive Molecular Switches Drive Poplar Phenology [link]Paper   doi   link   bibtex   2 downloads  
Independent yet overlapping pathways ensure the robustness and responsiveness of trans-Golgi network functions in Arabidopsis. Ravikumar, R., Kalbfuß, N., Gendre, D., Steiner, A., Altmann, M., Altmann, S., Rybak, K., Edelmann, H., Stephan, F., Lampe, M., Facher, E., Wanner, G., Falter-Braun, P., Bhalerao, R. P., & Assaad, F. F. Development, 145(21): dev169201. November 2018.
Independent yet overlapping pathways ensure the robustness and responsiveness of trans-Golgi network functions in <i>Arabidopsis</i> [link]Paper   doi   link   bibtex   abstract  
Photoperiodic control of seasonal growth is mediated by ABA acting on cell-cell communication. Tylewicz, S., Petterle, A., Marttila, S., Miskolczi, P., Azeez, A., Singh, R. K., Immanen, J., Mähler, N., Hvidsten, T. R., Eklund, D. M., Bowman, J. L., Helariutta, Y., & Bhalerao, R. P. Science, 360(6385): 212–215. April 2018.
Photoperiodic control of seasonal growth is mediated by ABA acting on cell-cell communication [link]Paper   doi   link   bibtex   9 downloads  
Storage lipid accumulation is controlled by photoperiodic signal acting via regulators of growth cessation and dormancy in hybrid aspen. Grimberg, Å., Lager, I., Street, N. R., Robinson, K. M., Marttila, S., Mähler, N., Ingvarsson, P. K., & Bhalerao, R. P. New Phytologist, 219(2): 619–630. July 2018.
Storage lipid accumulation is controlled by photoperiodic signal acting via regulators of growth cessation and dormancy in hybrid aspen [link]Paper   doi   link   bibtex   2 downloads  
  2017 (3)
Environmental and hormonal control of cambial stem cell dynamics. Bhalerao, R. P., & Fischer, U. Journal of Experimental Botany, 68(1): 79–87. January 2017.
Environmental and hormonal control of cambial stem cell dynamics [link]Paper   doi   link   bibtex  
Ethylene Regulates Differential Growth via BIG ARF-GEF-Dependent Post-Golgi Secretory Trafficking in Arabidopsis. Jonsson, K., Boutté, Y., Singh, R. K., Gendre, D., & Bhalerao, R. P. The Plant Cell, 29(5): 1039–1052. May 2017.
Ethylene Regulates Differential Growth via BIG ARF-GEF-Dependent Post-Golgi Secretory Trafficking in Arabidopsis [link]Paper   doi   link   bibtex   1 download  
Photoperiod- and temperature-mediated control of growth cessation and dormancy in trees: a molecular perspective. Maurya, J. P., & Bhalerao, R. P. Annals of Botany, 120(3): 351–360. September 2017.
doi   link   bibtex   abstract  
  2016 (3)
Cytokinin and Auxin Display Distinct but Interconnected Distribution and Signaling Profiles to Stimulate Cambial Activity. Immanen, J., Nieminen, K., Smolander, O., Kojima, M., Alonso Serra, J., Koskinen, P., Zhang, J., Elo, A., Mähönen, A., Street, N., Bhalerao, R., Paulin, L., Auvinen, P., Sakakibara, H., & Helariutta, Y. Current Biology, 26(15): 1990–1997. August 2016.
Cytokinin and Auxin Display Distinct but Interconnected Distribution and Signaling Profiles to Stimulate Cambial Activity [link]Paper   doi   link   bibtex  
Enrichment of hydroxylated C24- and C26-acyl-chain sphingolipids mediates PIN2 apical sorting at trans-Golgi network subdomains. Wattelet-Boyer, V., Brocard, L., Jonsson, K., Esnay, N., Joubès, J., Domergue, F., Mongrand, S., Raikhel, N., Bhalerao, R. P., Moreau, P., & Boutté, Y. Nature Communications, 7(1): 12788. November 2016.
Enrichment of hydroxylated C24- and C26-acyl-chain sphingolipids mediates PIN2 apical sorting at trans-Golgi network subdomains [link]Paper   doi   link   bibtex  
Exploring exocytosis using chemical genomics. Baral, A., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 113(1): 14–16. January 2016.
Exploring exocytosis using chemical genomics [link]Paper   doi   link   bibtex  
  2015 (6)
AINTEGUMENTA and the D-type cyclin CYCD3;1 regulate root secondary growth and respond to cytokinins. Randall, R. S., Miyashima, S., Blomster, T., Zhang, J., Elo, A., Karlberg, A., Immanen, J., Nieminen, K., Lee, J. Y., Kakimoto, T., Blajecka, K., Melnyk, C. W., Alcasabas, A., Forzani, C., Matsumoto-Kitano, M., Mahonen, A. P., Bhalerao, R. P., Dewitte, W., Helariutta, Y., & Murray, J. A. Biol Open, 4(10): 1229–36. September 2015. Edition: 2015/09/06
AINTEGUMENTA and the D-type cyclin CYCD3;1 regulate root secondary growth and respond to cytokinins [link]Paper   doi   link   bibtex   abstract   1 download  
Auxin Produced by the Indole-3-Pyruvic Acid Pathway Regulates Development and Gemmae Dormancy in the Liverwort Marchantia polymorpha. Eklund, D. M., Ishizaki, K., Flores-Sandoval, E., Kikuchi, S., Takebayashi, Y., Tsukamoto, S., Hirakawa, Y., Nonomura, M., Kato, H., Kouno, M., Bhalerao, R. P., Lagercrantz, U., Kasahara, H., Kohchi, T., & Bowman, J. L. Plant Cell, 27(6): 1650–69. June 2015. Edition: 2015/06/04
Auxin Produced by the Indole-3-Pyruvic Acid Pathway Regulates Development and Gemmae Dormancy in the Liverwort Marchantia polymorpha [link]Paper   doi   link   bibtex   abstract  
Dual role of tree florigen activation complex component FD in photoperiodic growth control and adaptive response pathways. Tylewicz, S., Tsuji, H., Miskolczi, P., Petterle, A., Azeez, A., Jonsson, K., Shimamoto, K., & Bhalerao, R. P. Proc Natl Acad Sci U S A, 112(10): 3140–5. March 2015. Edition: 2015/02/26
Dual role of tree florigen activation complex component FD in photoperiodic growth control and adaptive response pathways [link]Paper   doi   link   bibtex   abstract  
Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. Marin-de la Rosa, N., Pfeiffer, A., Hill, K., Locascio, A., Bhalerao, R. P., Miskolczi, P., Gronlund, A. L., Wanchoo-Kohli, A., Thomas, S. G., Bennett, M. J., Lohmann, J. U., Blazquez, M. A., & Alabadi, D. PLoS Genet, 11(7): e1005337. July 2015. Edition: 2015/07/03
Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins [link]Paper   doi   link   bibtex   abstract  
Journey to the cell surface—the central role of the trans-Golgi network in plants. Gendre, D., Jonsson, K., Boutté, Y., & Bhalerao, R. P. Protoplasma, 252(2): 385–398. March 2015.
Journey to the cell surface—the central role of the trans-Golgi network in plants [link]Paper   doi   link   bibtex  
Transcriptional transitions in Nicotiana benthamiana leaves upon induction of oil synthesis by WRINKLED1 homologs from diverse species and tissues. Grimberg, A., Carlsson, A. S., Marttila, S., Bhalerao, R. P., & Hofvander, P. BMC Plant Biol, 15(1): 192. August 2015. Edition: 2015/08/09
Transcriptional transitions in Nicotiana benthamiana leaves upon induction of oil synthesis by WRINKLED1 homologs from diverse species and tissues [link]Paper   doi   link   bibtex   abstract  
  2014 (4)
A Tree Ortholog of APETALA1 Mediates Photoperiodic Control of Seasonal Growth. Azeez, A., Miskolczi, P., Tylewicz, S., & Bhalerao, R. Current Biology, 24(7): 717–724. March 2014.
A Tree Ortholog of APETALA1 Mediates Photoperiodic Control of Seasonal Growth [link]Paper   doi   link   bibtex   1 download  
Adventitious root formation in tree species: involvement of transcription factors. Legué, V., Rigal, A., & Bhalerao, R. P. Physiologia Plantarum, 151(2): 192–198. June 2014.
Adventitious root formation in tree species: involvement of transcription factors [link]Paper   doi   link   bibtex  
Auxin gradients across wood - instructive or incidental?. Bhalerao, R. P., & Fischer, U. Physiologia Plantarum, 151(1): 43–51. May 2014.
Auxin gradients across wood - instructive or incidental? [link]Paper   doi   link   bibtex  
Large-Scale Identification of Gibberellin-Related Transcription Factors Defines Group VII ETHYLENE RESPONSE FACTORS as Functional DELLA Partners. la Rosa, N. M., Sotillo, B., Miskolczi, P., Gibbs, D. J., Vicente, J., Carbonero, P., Onate-Sanchez, L., Holdsworth, M. J., Bhalerao, R. P., Alabadi, D., & Blazquez, M. A. PLANT PHYSIOLOGY, 166(2): 1022–1032. October 2014.
Large-Scale Identification of Gibberellin-Related Transcription Factors Defines Group VII ETHYLENE RESPONSE FACTORS as Functional DELLA Partners [link]Paper   doi   link   bibtex  
  2013 (6)
Cell Wall Polysaccharides are Mislocalized to the Vacuole in echidna Mutants. McFarlane, H. E., Watanabe, Y., Gendre, D., Carruthers, K., Levesque-Tremblay, G., Haughn, G. W., Bhalerao, R. P., & Samuels, L. Plant and Cell Physiology, 54(11): 1867–1880. November 2013.
Cell Wall Polysaccharides are Mislocalized to the Vacuole in echidna Mutants [link]Paper   doi   link   bibtex  
Daylength mediated control of seasonal growth patterns in perennial trees. Petterle, A., Karlberg, A., & Bhalerao, R. P. Current Opinion in Plant Biology, 16(3): 301–306. June 2013.
Daylength mediated control of seasonal growth patterns in perennial trees [link]Paper   doi   link   bibtex   1 download  
ECHIDNA-mediated post-Golgi trafficking of auxin carriers for differential cell elongation. Boutte, Y., Jonsson, K., McFarlane, H. E., Johnson, E., Gendre, D., Swarup, R., Friml, J., Samuels, L., Robert, S., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 110(40): 16259–16264. October 2013.
ECHIDNA-mediated post-Golgi trafficking of auxin carriers for differential cell elongation [link]Paper   doi   link   bibtex  
Endodermal ABA Signaling Promotes Lateral Root Quiescence during Salt Stress in Arabidopsis Seedlings. Duan, L., Dietrich, D., Ng, C. H., Chan, P. M. Y., Bhalerao, R. P., Bennett, M. J., & Dinneny, J. R. The Plant Cell, 25(1): 324–341. February 2013.
Endodermal ABA Signaling Promotes Lateral Root Quiescence during Salt Stress in <i>Arabidopsis</i> Seedlings [link]Paper   doi   link   bibtex   abstract  
The Norway spruce genome sequence and conifer genome evolution. Nystedt, B., Street, N. R., Wetterbom, A., Zuccolo, A., Lin, Y., Scofield, D. G., Vezzi, F., Delhomme, N., Giacomello, S., Alexeyenko, A., Vicedomini, R., Sahlin, K., Sherwood, E., Elfstrand, M., Gramzow, L., Holmberg, K., Hällman, J., Keech, O., Klasson, L., Koriabine, M., Kucukoglu, M., Käller, M., Luthman, J., Lysholm, F., Niittylä, T., Olson, Å., Rilakovic, N., Ritland, C., Rosselló, J. A., Sena, J., Svensson, T., Talavera-López, C., Theißen, G., Tuominen, H., Vanneste, K., Wu, Z., Zhang, B., Zerbe, P., Arvestad, L., Bhalerao, R. P., Bohlmann, J., Bousquet, J., Garcia Gil, R., Hvidsten, T. R., de Jong, P., MacKay, J., Morgante, M., Ritland, K., Sundberg, B., Lee Thompson, S., Van de Peer, Y., Andersson, B., Nilsson, O., Ingvarsson, P. K., Lundeberg, J., & Jansson, S. Nature, 497(7451): 579–584. May 2013.
The Norway spruce genome sequence and conifer genome evolution [link]Paper   doi   link   bibtex   1 download  
Trans-Golgi Network Localized ECHIDNA/Ypt Interacting Protein Complex Is Required for the Secretion of Cell Wall Polysaccharides in Arabidopsis. Gendre, D., McFarlane, H. E., Johnson, E., Mouille, G., Sjödin, A., Oh, J., Levesque-Tremblay, G., Watanabe, Y., Samuels, L., & Bhalerao, R. P. The Plant Cell, 25(7): 2633–2646. July 2013.
Trans-Golgi Network Localized ECHIDNA/Ypt Interacting Protein Complex Is Required for the Secretion of Cell Wall Polysaccharides in Arabidopsis [link]Paper   doi   link   bibtex   abstract  
  2012 (2)
Group III-A XTH Genes of Arabidopsis Encode Predominant Xyloglucan Endohydrolases That Are Dispensable for Normal Growth. Kaewthai, N., Gendre, D., Eklöf, J. M., Ibatullin, F. M., Ezcurra, I., Bhalerao, R. P., & Brumer, H. Plant Physiology, 161(1): 440–454. December 2012.
Group III-A <i>XTH</i> Genes of Arabidopsis Encode Predominant Xyloglucan Endohydrolases That Are Dispensable for Normal Growth [link]Paper   doi   link   bibtex   abstract  
The AINTEGUMENTA LIKE1 homeotic transcription factor PtAIL1 controls the formation of adventitious root primordia in poplar. Rigal, A., Yordanov, Y. S., Perrone, I., Karlberg, A., Tisserant, E., Bellini, C., Busov, V. B., Martin, F., Kohler, A., Bhalerao, R. P., & Legué, V. Plant Physiology, 160(4): 1996–2006. December 2012.
doi   link   bibtex   abstract  
  2011 (3)
Activity-dormancy transition in the cambial meristem involves stage-specific modulation of auxin response in hybrid aspen. Baba, K., Karlberg, A., Schmidt, J., Schrader, J., Hvidsten, T. R., Bakó, L., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 108(8): 3418–3423. February 2011.
Activity-dormancy transition in the cambial meristem involves stage-specific modulation of auxin response in hybrid aspen [link]Paper   doi   link   bibtex  
Conserved Arabidopsis ECHIDNA protein mediates trans-Golgi-network trafficking and cell elongation. Gendre, D., Oh, J., Boutte, Y., Best, J. G., Samuels, L., Nilsson, R., Uemura, T., Marchant, A., Bennett, M. J., Grebe, M., & Bhalerao, R. P. Proceedings of the National Academy of Sciences, 108(19): 8048–8053. May 2011.
Conserved Arabidopsis ECHIDNA protein mediates trans-Golgi-network trafficking and cell elongation [link]Paper   doi   link   bibtex  
Short Day–Mediated Cessation of Growth Requires the Downregulation of AINTEGUMENTALIKE1 Transcription Factor in Hybrid Aspen. Karlberg, A., Bakó, L., & Bhalerao, R. P. PLoS Genetics, 7(11): e1002361. November 2011.
Short Day–Mediated Cessation of Growth Requires the Downregulation of AINTEGUMENTALIKE1 Transcription Factor in Hybrid Aspen [link]Paper   doi   link   bibtex  
  2010 (2)
Analysis of global changes in gene expression during activity-dormancy cycle in hybrid aspen apex. Karlberg, A., Englund, M., Petterle, A., Molnar, G., Sjödin, A., Bakó, L., & Bhalerao, R. P. Plant Biotechnology, 27(1): 1–16. 2010.
doi   link   bibtex   abstract   2 downloads  
Components Acting Downstream of Short Day Perception Regulate Differential Cessation of Cambial Activity and Associated Responses in Early and Late Clones of Hybrid Poplar. Resman, L., Howe, G., Jonsen, D., Englund, M., Druart, N., Schrader, J., Antti, H., Skinner, J., Sjödin, A., Chen, T., & Bhalerao, R. P. Plant Physiology, 154(3): 1294–1303. November 2010.
Components Acting Downstream of Short Day Perception Regulate Differential Cessation of Cambial Activity and Associated Responses in Early and Late Clones of Hybrid Poplar [link]Paper   doi   link   bibtex   abstract  
  2009 (3)
Gibberellin Signaling in the Endodermis Controls Arabidopsis Root Meristem Size. Ubeda-Tomás, S., Federici, F., Casimiro, I., Beemster, G. T., Bhalerao, R. P., Swarup, R., Doerner, P., Haseloff, J., & Bennett, M. J. Current Biology, 19(14): 1194–1199. July 2009.
Gibberellin Signaling in the Endodermis Controls Arabidopsis Root Meristem Size [link]Paper   doi   link   bibtex  
Modular gene expression in Poplar: a multilayer network approach. Grönlund, A., Bhalerao, R. P., & Karlsson, J. New Phytologist, 181(2): 315–322. January 2009.
Modular gene expression in Poplar: a multilayer network approach [link]Paper   doi   link   bibtex  
The Ectomycorrhizal Fungus Laccaria bicolor Stimulates Lateral Root Formation in Poplar and Arabidopsis through Auxin Transport and Signaling. Felten, J., Kohler, A., Morin, E., Bhalerao, R. P., Palme, K., Martin, F., Ditengou, F. A., & Legué, V. Plant Physiology, 151(4): 1991–2005. December 2009.
The Ectomycorrhizal Fungus <i>Laccaria bicolor</i> Stimulates Lateral Root Formation in Poplar and Arabidopsis through Auxin Transport and Signaling [link]Paper   doi   link   bibtex   abstract  
  2008 (3)
Cytokinin signaling regulates cambial development in poplar. Nieminen, K., Immanen, J., Laxell, M., Kauppinen, L., Tarkowski, P., Dolezal, K., Tahtiharju, S., Elo, A., Decourteix, M., Ljung, K., Bhalerao, R. P., Keinonen, K., Albert, V. A., & Helariutta, Y. Proceedings of the National Academy of Sciences, 105(50): 20032–20037. December 2008.
Cytokinin signaling regulates cambial development in poplar [link]Paper   doi   link   bibtex  
Dissecting the Molecular Basis of the Regulation of Wood Formation by Auxin in Hybrid Aspen. Nilsson, J., Karlberg, A., Antti, H., Lopez-Vernaza, M., Mellerowicz, E., Perrot-Rechenmann, C., Sandberg, G., & Bhalerao, R. P. The Plant Cell, 20(4): 843–855. May 2008.
Dissecting the Molecular Basis of the Regulation of Wood Formation by Auxin in Hybrid Aspen [link]Paper   doi   link   bibtex   abstract  
Root growth in Arabidopsis requires gibberellin/DELLA signalling in the endodermis. Ubeda-Tomás, S., Swarup, R., Coates, J., Swarup, K., Laplaze, L., Beemster, G. T., Hedden, P., Bhalerao, R. P., & Bennett, M. J. Nature Cell Biology, 10(5): 625–628. May 2008.
Root growth in Arabidopsis requires gibberellin/DELLA signalling in the endodermis [link]Paper   doi   link   bibtex  
  2007 (3)
A Molecular Timetable for Apical Bud Formation and Dormancy Induction in Poplar. Ruttink, T., Arend, M., Morreel, K., Storme, V., Rombauts, S., Fromm, J., Bhalerao, R. P., Boerjan, W., & Rohde, A. The Plant Cell, 19(8): 2370–2390. October 2007.
A Molecular Timetable for Apical Bud Formation and Dormancy Induction in Poplar [link]Paper   doi   link   bibtex   abstract  
Environmental and hormonal regulation of the activity-dormancy cycle in the cambial meristem involves stage-specific modulation of transcriptional and metabolic networks: Molecular analysis of cambial activity-dormancy cycle. Druart, N., Johansson, A., Baba, K., Schrader, J., Sjödin, A., Bhalerao, R. R., Resman, L., Trygg, J., Moritz, T., & Bhalerao, R. P. The Plant Journal, 50(4): 557–573. April 2007.
Environmental and hormonal regulation of the activity-dormancy cycle in the cambial meristem involves stage-specific modulation of transcriptional and metabolic networks: Molecular analysis of cambial activity-dormancy cycle [link]Paper   doi   link   bibtex  
Ethylene Upregulates Auxin Biosynthesis in Arabidopsis Seedlings to Enhance Inhibition of Root Cell Elongation. Swarup, R., Perry, P., Hagenbeek, D., Van Der Straeten, D., Beemster, G. T., Sandberg, G., Bhalerao, R. P., Ljung, K., & Bennett, M. J. The Plant Cell, 19(7): 2186–2196. August 2007.
Ethylene Upregulates Auxin Biosynthesis in <i>Arabidopsis</i> Seedlings to Enhance Inhibition of Root Cell Elongation [link]Paper   doi   link   bibtex   abstract  
  2006 (3)
Molecular targets of elevated [CO2] in leaves and stems of Populus deltoides: implications for future tree growth and carbon sequestration. Druart, N., Rodriguez-Buey, M., Barron-Gafford, G., Sjodin, A., Bhalerao, R. P., & Hurry, V. Functional Plant Biology, 33(2): 121–131. 2006. Place: Clayton Publisher: Csiro Publishing WOS:000235065100002
doi   link   bibtex   abstract  
The CBF1-dependent low temperature signalling pathway, regulon and increase in freeze tolerance are conserved in Populus spp. Benedict, C., Skinner, J. S., Meng, R., Chang, Y., Bhalerao, R. P., Huner, N. P. A., Finn, C. E., Chen, T. H. H., & Hurry, V. Plant Cell and Environment, 29(7): 1259–1272. July 2006. Place: Hoboken Publisher: Wiley WOS:000238064400006
doi   link   bibtex   abstract   1 download  
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Tuskan, G. A., DiFazio, S., Jansson, S., Bohlmann, J., Grigoriev, I., Hellsten, U., Putnam, N., Ralph, S., Rombauts, S., Salamov, A., Schein, J., Sterck, L., Aerts, A., Bhalerao, R. P., Bhalerao, R. P., Blaudez, D., Boerjan, W., Brun, A., Brunner, A., Busov, V., Campbell, M., Carlson, J., Chalot, M., Chapman, J., Chen, G., Cooper, D., Coutinho, P. M., Couturier, J., Covert, S., Cronk, Q., Cunningham, R., Davis, J., Degroeve, S., Dejardin, A., dePamphilis , C., Detter, J., Dirks, B., Dubchak, I., Duplessis, S., Ehlting, J., Ellis, B., Gendler, K., Goodstein, D., Gribskov, M., Grimwood, J., Groover, A., Gunter, L., Hamberger, B., Heinze, B., Helariutta, Y., Henrissat, B., Holligan, D., Holt, R., Huang, W., Islam-Faridi, N., Jones, S., Jones-Rhoades, M., Jorgensen, R., Joshi, C., Kangasjarvi, J., Karlsson, J., Kelleher, C., Kirkpatrick, R., Kirst, M., Kohler, A., Kalluri, U., Larimer, F., Leebens-Mack, J., Leple, J., Locascio, P., Lou, Y., Lucas, S., Martin, F., Montanini, B., Napoli, C., Nelson, D. R., Nelson, C., Nieminen, K., Nilsson, O., Pereda, V., Peter, G., Philippe, R., Pilate, G., Poliakov, A., Razumovskaya, J., Richardson, P., Rinaldi, C., Ritland, K., Rouze, P., Ryaboy, D., Schmutz, J., Schrader, J., Segerman, B., Shin, H., Siddiqui, A., Sterky, F., Terry, A., Tsai, C., Uberbacher, E., Unneberg, P., Vahala, J., Wall, K., Wessler, S., Yang, G., Yin, T., Douglas, C., Marra, M., Sandberg, G., Van de Peer, Y., & Rokhsar, D. Science, 313(5793): 1596–1604. September 2006. Place: Washington Publisher: Amer Assoc Advancement Science WOS:000240498900035
doi   link   bibtex   abstract  
  2005 (2)
Assembly of a gene sequence tag microarray by reversible biotin-streptavidin capture for transcript analysis of Arabidopsis thaliana. Wirta, V., Holmberg, A., Lukacs, M., Nilsson, P., Hilson, P., Uhlén, M., Bhalerao, R. P., & Lundeberg, J. BMC Biotechnology, 5(1): 5. February 2005.
Assembly of a gene sequence tag microarray by reversible biotin-streptavidin capture for transcript analysis of Arabidopsis thaliana [link]Paper   doi   link   bibtex   abstract  
Root gravitropism requires lateral root cap and epidermal cells for transport and response to a mobile auxin signal. Swarup, R., Kramer, E. M., Perry, P., Knox, K., Leyser, H. M. O., Haseloff, J., Beemster, G. T. S., Bhalerao, R. P., & Bennett, M. J. Nature Cell Biology, 7(11): 1057–1065. November 2005. Number: 11 Publisher: Nature Publishing Group
Root gravitropism requires lateral root cap and epidermal cells for transport and response to a mobile auxin signal [link]Paper   doi   link   bibtex   abstract  
  2004 (7)
A Populus EST resource for plant functional genomics. Sterky, F., Bhalerao, R. R., Unneberg, P., Segerman, B., Nilsson, P., Brunner, A. M., Charbonnel-Campaa, L., Lindvall, J. J., Tandre, K., Strauss, S. H., Sundberg, B., Gustafsson, P., Uhlén, M., Bhalerao, R. P., Nilsson, O., Sandberg, G., Karlsson, J., Lundeberg, J., & Jansson, S. Proceedings of the National Academy of Sciences, 101(38): 13951–13956. September 2004. Publisher: National Academy of Sciences Section: Biological Sciences
A Populus EST resource for plant functional genomics [link]Paper   doi   link   bibtex   abstract  
A transcriptional timetable of autumn senescence. Andersson, A., Keskitalo, J., Sjodin, A., Bhalerao, R. P., Sterky, F., Wissel, K., Tandre, K., Aspeborg, H., Moyle, R., Ohmiya, Y., Bhalerao, R., Brunner, A., Gustafsson, P., Karlsson, J., Lundeberg, J., Nilsson, O., Sandberg, G., Strauss, S., Sundberg, B., Uhlen, M., Jansson, S., & Nilsson, P. Genome Biology, 5(4): R24. 2004. Place: London Publisher: Bmc WOS:000220584700010
doi   link   bibtex   abstract  
Cambial meristem dormancy in trees involves extensive remodelling of the transcriptome. Schrader, J., Moyle, R., Bhalerao, R., Hertzberg, M., Lundeberg, J., Nilsson, P., & Bhalerao, R. P. The Plant Journal, 40(2): 173–187. 2004. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-313X.2004.02199.x
Cambial meristem dormancy in trees involves extensive remodelling of the transcriptome [link]Paper   doi   link   bibtex   abstract  
Differential stage-specific regulation of cyclin-dependent kinases during cambial dormancy in hybrid aspen. Espinosa-Ruiz, A., Saxena, S., Schmidt, J., Mellerowicz, E., Miskolczi, P., Bakó, L., & Bhalerao, R. P. The Plant Journal, 38(4): 603–615. 2004. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-313X.2004.02070.x
Differential stage-specific regulation of cyclin-dependent kinases during cambial dormancy in hybrid aspen [link]Paper   doi   link   bibtex   abstract  
MYB transcription factors are differentially expressed and regulated during secondary vascular tissue development in hybrid aspen. Karpinska, B., Karlsson, M., Srivastava, M., Stenberg, A., Schrader, J., Sterky, F., Bhalerao, R. P., & Wingsle, G. Plant Molecular Biology, 56(2): 255–270. September 2004.
MYB transcription factors are differentially expressed and regulated during secondary vascular tissue development in hybrid aspen [link]Paper   doi   link   bibtex   abstract  
Organellar gene transcription and early seedling development are affected in the rpoT;2 mutant of Arabidopsis. Baba, K., Schmidt, J., Espinosa-Ruiz, A., Villarejo, A., Shiina, T., Gardeström, P., Sane, A. P., & Bhalerao, R. P. The Plant Journal, 38(1): 38–48. 2004. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-313X.2004.02022.x
Organellar gene transcription and early seedling development are affected in the rpoT;2 mutant of Arabidopsis [link]Paper   doi   link   bibtex   abstract  
Versatile Gene-Specific Sequence Tags for Arabidopsis Functional Genomics: Transcript Profiling and Reverse Genetics Applications. Hilson, P., Allemeersch, J., Altmann, T., Aubourg, S., Avon, A., Beynon, J., Bhalerao, R. P., Bitton, F., Caboche, M., Cannoot, B., Chardakov, V., Cognet-Holliger, C., Colot, V., Crowe, M., Darimont, C., Durinck, S., Eickhoff, H., Longevialle, A. F. d., Farmer, E. E., Grant, M., Kuiper, M. T. R., Lehrach, H., Léon, C., Leyva, A., Lundeberg, J., Lurin, C., Moreau, Y., Nietfeld, W., Paz-Ares, J., Reymond, P., Rouzé, P., Sandberg, G., Segura, M. D., Serizet, C., Tabrett, A., Taconnat, L., Thareau, V., Hummelen, P. V., Vercruysse, S., Vuylsteke, M., Weingartner, M., Weisbeek, P. J., Wirta, V., Wittink, F. R. A., Zabeau, M., & Small, I. Genome Research, 14(10b): 2176–2189. October 2004. Company: Cold Spring Harbor Laboratory Press Distributor: Cold Spring Harbor Laboratory Press Institution: Cold Spring Harbor Laboratory Press Label: Cold Spring Harbor Laboratory Press Publisher: Cold Spring Harbor Lab
Versatile Gene-Specific Sequence Tags for Arabidopsis Functional Genomics: Transcript Profiling and Reverse Genetics Applications [link]Paper   doi   link   bibtex   abstract  
  2003 (2)
Gene Expression in Autumn Leaves. Bhalerao, R., Keskitalo, J., Sterky, F., Erlandsson, R., Björkbacka, H., Birve, S. J., Karlsson, J., Gardeström, P., Gustafsson, P., Lundeberg, J., & Jansson, S. Plant Physiology, 131(2): 430–442. February 2003.
Gene Expression in Autumn Leaves [link]Paper   doi   link   bibtex   abstract  
Out of the woods: forest biotechnology enters the genomic era. Bhalerao, R., Nilsson, O., & Sandberg, G. Current Opinion in Biotechnology, 14(2): 206–213. April 2003.
Out of the woods: forest biotechnology enters the genomic era [link]Paper   doi   link   bibtex   abstract  
  2002 (3)
AUX1 Promotes Lateral Root Formation by Facilitating Indole-3-Acetic Acid Distribution between Sink and Source Tissues in the Arabidopsis Seedling. Marchant, A., Bhalerao, R., Casimiro, I., Eklöf, J., Casero, P. J., Bennett, M., & Sandberg, G. The Plant Cell, 14(3): 589–597. March 2002.
AUX1 Promotes Lateral Root Formation by Facilitating Indole-3-Acetic Acid Distribution between Sink and Source Tissues in the Arabidopsis Seedling [link]Paper   doi   link   bibtex   abstract  
Environmental and auxin regulation of wood formation involves members of the Aux/IAA gene family in hybrid aspen. Moyle, R., Schrader, J., Stenberg, A., Olsson, O., Saxena, S., Sandberg, G., & Bhalerao, R. P The Plant Journal, 31(6): 675–685. 2002. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1046/j.1365-313X.2002.01386.x
Environmental and auxin regulation of wood formation involves members of the Aux/IAA gene family in hybrid aspen [link]Paper   doi   link   bibtex   abstract   1 download  
Shoot-derived auxin is essential for early lateral root emergence in Arabidopsis seedlings. Bhalerao, R. P., Eklöf, J., Ljung, K., Marchant, A., Bennett, M., & Sandberg, G. The Plant Journal, 29(3): 325–332. 2002. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1046/j.0960-7412.2001.01217.x
Shoot-derived auxin is essential for early lateral root emergence in Arabidopsis seedlings [link]Paper   doi   link   bibtex   abstract   1 download  
  2001 (3)
A transcriptional roadmap to wood formation. Hertzberg, M., Aspeborg, H., Schrader, J., Andersson, A., Erlandsson, R., Blomqvist, K., Bhalerao, R., Uhlén, M., Teeri, T. T., Lundeberg, J., Sundberg, B., Nilsson, P., & Sandberg, G. Proceedings of the National Academy of Sciences, 98(25): 14732–14737. December 2001. Publisher: National Academy of Sciences Section: Biological Sciences
A transcriptional roadmap to wood formation [link]Paper   doi   link   bibtex   abstract  
Auxin Transport Promotes Arabidopsis Lateral Root Initiation. Casimiro, I., Marchant, A., Bhalerao, R. P., Beeckman, T., Dhooge, S., Swarup, R., Graham, N., Inzé, D., Sandberg, G., Casero, P. J., & Bennett, M. The Plant Cell, 13(4): 843–852. April 2001.
Auxin Transport Promotes Arabidopsis Lateral Root Initiation [link]Paper   doi   link   bibtex   abstract  
Sites and homeostatic control of auxin biosynthesis in Arabidopsis during vegetative growth. Ljung, K., Bhalerao, R. P., & Sandberg, G. The Plant Journal, 28(4): 465–474. 2001. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1046/j.1365-313X.2001.01173.x
Sites and homeostatic control of auxin biosynthesis in Arabidopsis during vegetative growth [link]Paper   doi   link   bibtex   abstract  
  2000 (3)
Activation of CDK-activating kinase is dependent on interaction with H-type cyclins in plants. Yamaguchi, M., Fabian, T., Sauter, M., Bhalerao, R. P., Schrader, J., Sandberg, G., Umeda, M., & Uchimiya, H. The Plant Journal, 24(1): 11–20. 2000. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1046/j.1365-313x.2000.00846.x
Activation of CDK-activating kinase is dependent on interaction with H-type cyclins in plants [link]Paper   doi   link   bibtex   abstract  
Functional identification of an Arabidopsis Snf4 ortholog by screening for heterologous multicopy suppressors of snf4 deficiency in yeast. Kleinow, T., Bhalerao, R., Breuer, F., Umeda, M., Salchert, K., & Koncz, C. The Plant Journal, 23(1): 115–122. 2000. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1046/j.1365-313x.2000.00809.x
Functional identification of an Arabidopsis Snf4 ortholog by screening for heterologous multicopy suppressors of snf4 deficiency in yeast [link]Paper   doi   link   bibtex   abstract  
The SUR2 gene of Arabidopsis thaliana encodes the cytochrome P450 CYP83B1, a modulator of auxin homeostasis. Barlier, I., Kowalczyk, M., Marchant, A., Ljung, K., Bhalerao, R., Bennett, M., Sandberg, G., & Bellini, C. Proceedings of the National Academy of Sciences, 97(26): 14819–14824. December 2000. Publisher: National Academy of Sciences Section: Biological Sciences
The SUR2 gene of Arabidopsis thaliana encodes the cytochrome P450 CYP83B1, a modulator of auxin homeostasis [link]Paper   doi   link   bibtex   abstract  
  1999 (1)
Regulatory interaction of PRL1 WD protein with Arabidopsis SNF1-like protein kinases. Bhalerao, R. P., Salchert, K., Bakó, L., Ökrész, L., Szabados, L., Muranaka, T., Machida, Y., Schell, J., & Koncz, C. Proceedings of the National Academy of Sciences of the United States of America, 96(9): 5322. April 1999. Publisher: National Academy of Sciences
Regulatory interaction of PRL1 WD protein with Arabidopsis SNF1-like protein kinases [link]Paper   doi   link   bibtex   abstract   2 downloads  
{tab=Svenska}Rishikesh Bhalerao som håller två burkar med små poppelväxter i UPSC:s asp transformationsanläggning

Fleråriga växter, till exempel träd, måste anpassa sig till en föränderlig miljö för att överleva de stora omställningar som växlingen mellan årstiderna innebär. Dessa växter har utvecklat sofistikerade mekanismer som känner av växlingar i den omgivande miljön och kan anpassa tillväxt och utveckling beroende på olika externa faktorer.

I min forskargrupp fokuseras ett av projekten på att förstå hur fleråriga växter på en molekylär nivå synkroniserar tillväxt med gynnsamma externa förhållanden. För detta projekt använder vi hybridasp som är en modellväxt inom trädforskning.

Ett annat projekt vi arbetar med är att förstå hur förlängning/utsträckning regleras i växter. Elongationsprocessen är mer problematisk för växtceller jämfört med andra celltyper eftersom växtcellen omges av en rigid cellvägg som måste omstruktureras om cellen ska kunna elongera. Pågående forskning i min grupp har som mål att identifiera nyckelkomponenter i de processer som leder till modifiering av cellväggen och elongation i modellväxten Arabidopsis.