@unpublished{17352,
  abstract     = {We prove upper bounds on the $L^\infty$-Wasserstein distance from optimal
transport between strongly log-concave probability densities and log-Lipschitz
perturbations. In the simplest setting, such a bound amounts to a
transport-information inequality involving the $L^\infty$-Wasserstein metric
and the relative $L^\infty$-Fisher information. We show that this inequality
can be sharpened significantly in situations where the involved densities are
anisotropic. Our proof is based on probabilistic techniques using Langevin
dynamics. As an application of these results, we obtain sharp exponential rates
of convergence in Fisher's infinitesimal model from quantitative genetics,
generalising recent results by Calvez, Poyato, and Santambrogio in dimension 1
to arbitrary dimensions.},
  author       = {Khudiakova, Kseniia and Maas, Jan and Pedrotti, Francesco},
  booktitle    = {arXiv},
  title        = {{L∞-optimal transport of anisotropic log-concave measures and exponential convergence in Fisher's infinitesimal model}},
  doi          = {10.48550/arXiv.2402.04151},
  year         = {2024},
}

@book{18899,
  abstract     = {The flourishing theory of classical optimal transport concerns mass transportation at minimal cost. This book introduces the reader to optimal transport on quantum structures, i.e., optimal transportation between quantum states and related non-commutative concepts of mass transportation. It contains lecture notes on

classical optimal transport and Wasserstein gradient flows
dynamics and quantum optimal transport
quantum couplings and many-body problems
quantum channels and qubits

These notes are based on lectures given by the authors at the "Optimal Transport on Quantum Structures" School held at the Erdös Center in Budapest in the fall of 2022. The lecture notes are complemented by two survey chapters presenting the state of the art in different research areas of non-commutative optimal transport.},
  editor       = {Maas, Jan and Rademacher, Simone Anna Elvira and Titkos, Tamás and Virosztek, Daniel},
  isbn         = {9783031504655},
  issn         = {2947-9460},
  publisher    = {Springer Nature},
  title        = {{Optimal Transport on Quantum Structures}},
  doi          = {10.1007/978-3-031-50466-2},
  volume       = {29},
  year         = {2024},
}

@unpublished{17353,
  abstract     = {In this paper we derive estimates for the Hessian of the logarithm
(log-Hessian) for solutions to the heat equation. For initial data in the form
of log-Lipschitz perturbation of strongly log-concave measures, the log-Hessian
admits an explicit, uniform (in space) lower bound. This yields a new estimate
for the Lipschitz constant of a transport map pushing forward the standard
Gaussian to a measure in this class. Further connections are discussed with
score-based diffusion models and improved Gaussian logarithmic Sobolev
inequalities. Finally, we show that assuming only fast decay of the tails of
the initial datum does not suffice to guarantee uniform log-Hessian upper
bounds.},
  author       = {Brigati, Giovanni and Pedrotti, Francesco},
  booktitle    = {arXiv},
  title        = {{Heat flow, log-concavity, and Lipschitz transport maps}},
  doi          = {10.48550/arXiv.2404.15205},
  year         = {2024},
}

@article{14251,
  abstract     = {The phytohormone auxin and its directional transport through tissues play a fundamental role in development of higher plants. This polar auxin transport predominantly relies on PIN-FORMED (PIN) auxin exporters. Hence, PIN polarization is crucial for development, but its evolution during the rise of morphological complexity in land plants remains unclear. Here, we performed a cross-species investigation by observing the trafficking and localization of endogenous and exogenous PINs in two bryophytes, Physcomitrium patens and Marchantia polymorpha, and in the flowering plant Arabidopsis thaliana. We confirmed that the GFP fusion did not compromise the auxin export function of all examined PINs by using radioactive auxin export assay and by observing the phenotypic changes in transgenic bryophytes. Endogenous PINs polarize to filamentous apices, while exogenous Arabidopsis PINs distribute symmetrically on the membrane in both bryophytes. In Arabidopsis root epidermis, bryophytic PINs show no defined polarity. Pharmacological interference revealed a strong cytoskeleton dependence of bryophytic but not Arabidopsis PIN polarization. The divergence of PIN polarization and trafficking is also observed within the bryophyte clade and between tissues of individual species. These results collectively reveal a divergence of PIN trafficking and polarity mechanisms throughout land plant evolution and a co-evolution of PIN sequence-based and cell-based polarity mechanisms.},
  author       = {Tang, Han and Lu, KJ and Zhang, Y and Cheng, YL and Tu, SL and Friml, Jiří},
  issn         = {2590-3462},
  journal      = {Plant Communications},
  number       = {1},
  publisher    = {Elsevier},
  title        = {{Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution}},
  doi          = {10.1016/j.xplc.2023.100669},
  volume       = {5},
  year         = {2024},
}

@article{14447,
  abstract     = {Auxin belongs among major phytohormones and governs multiple aspects of plant growth and development. The establishment of auxin concentration gradients, determines, among other processes, plant organ positioning and growth responses to environmental stimuli.
Herein we report the synthesis of new NBD- or DNS-labelled IAA derivatives and the elucidation of their biological activity, fluorescence properties and subcellular accumulation patterns in planta. These novel compounds did not show auxin-like activity, but instead antagonized physiological auxin effects. The DNS-labelled derivatives FL5 and FL6 showed strong anti-auxin activity in roots and hypocotyls, which also occurred at the level of gene transcription as confirmed by quantitative PCR analysis. The auxin antagonism of our derivatives was further demonstrated in vitro using an SPR-based binding assay. The NBD-labelled compound FL4 with the best fluorescence properties proved to be unsuitable to study auxin accumulation patterns in planta. On the other hand, the strongest anti-auxin activity possessing compounds FL5 and FL6 could be useful to study binding mechanisms to auxin receptors and for manipulations of auxin-regulated processes.},
  author       = {Bieleszová, Kristýna and Hladík, Pavel and Kubala, Martin and Napier, Richard and Brunoni, Federica and Gelová, Zuzana and Fiedler, Lukas and Kulich, Ivan and Strnad, Miroslav and Doležal, Karel and Novák, Ondřej and Friml, Jiří and Žukauskaitė, Asta},
  issn         = {1573-5087},
  journal      = {Plant Growth Regulation},
  pages        = {589--602},
  publisher    = {Springer Nature},
  title        = {{New fluorescent auxin derivatives: Anti-auxin activity and accumulation patterns in Arabidopsis thaliana}},
  doi          = {10.1007/s10725-023-01083-0},
  volume       = {102},
  year         = {2024},
}

@article{17048,
  abstract     = {A key mechanism employed by plants to adapt to salinity stress involves maintaining ion homeostasis via the actions of ion transporters. While the function of cation transporters in maintaining ion homeostasis in plants has been extensively studied, little is known about the roles of their anion counterparts in this process. Here, we describe a mechanism of salt adaptation in plants. We characterized the chloride channel (CLC) gene AtCLCf, whose expression is regulated by WRKY transcription factor under salt stress in Arabidopsis thaliana. Loss-of-function atclcf seedlings show increased sensitivity to salt, whereas AtCLCf overexpression confers enhanced resistance to salt stress. Salt stress induces the translocation of GFP-AtCLCf fusion protein to the plasma membrane (PM). Blocking AtCLCf translocation using the exocytosis inhibitor brefeldin-A or mutating the small GTPase gene AtRABA1b/BEX5 (RAS GENES FROM RAT BRAINA1b homolog) increases salt sensitivity in plants. Electrophysiology and liposome-based assays confirm the Cl−/H+ antiport function of AtCLCf. Therefore, we have uncovered a mechanism of plant adaptation to salt stress involving the NaCl-induced translocation of AtCLCf to the PM, thus facilitating Cl− removal at the roots, and increasing the plant’s salinity tolerance.},
  author       = {Rajappa, Sivamathini and Krishnamurthy, Pannaga and Huang, Hua and Yu, Dejie and Friml, Jiří and Xu, Jian and Kumar, Prakash P.},
  issn         = {2041-1723},
  journal      = {Nature Communications},
  publisher    = {Springer Nature},
  title        = {{The translocation of a chloride channel from the Golgi to the plasma membrane helps plants adapt to salt stress}},
  doi          = {10.1038/s41467-024-48234-z},
  volume       = {15},
  year         = {2024},
}

@phdthesis{17336,
  abstract     = {This thesis deals with the study of stochastic processes and their ergodicity properties. The
variety of problems encountered calls for a set of different approaches, ranging from classical to
modern ones: a special place is held by probabilistic methods based on couplings, by functional
inequalities, and by the theory of gradient flows in the space of measures.

The material is organized as follows. Chapter 1 contains the introduction to this thesis, starting
with a general presentation of some of the relevant topics. Section 1.1 is dedicated to the
theory of gradient flows in metric spaces, and introduces the first contribution of this thesis
[DSMP24], which is presented in detail in Chapter 2. Section 1.2 moves to the topic of
curvature of Markov chains, concluding with a brief description of our second contribution
[Ped23], which is included in Chapter 3. Section 1.3 discusses applications of stochastic
processes to the theory of sampling, in particular the recent framework of score-based diffusion
models, and our contribution [PMM24], which is contained in Chapter 4. Section 1.4 discusses
some related problems, concerning the regularization properties of the heat flow. It serves
as a motivation for the work [BP24], which we report in Chapter 5. Finally, Section 1.5
discusses the last contribution of this thesis, which can be found in Chapter 6. It deals with
the convergence to equilibrium of a particular stochastic model from quantitative genetics:
this is established via some functional inequalities, which we prove with probabilistic arguments
based on couplings.
},
  author       = {Pedrotti, Francesco},
  issn         = {2663-337X},
  pages        = {183},
  publisher    = {Institute of Science and Technology Austria},
  title        = {{Functional inequalities and convergence of stochastic processes}},
  doi          = {10.15479/at:ista:17336},
  year         = {2024},
}

@inproceedings{18897,
  abstract     = {Score-based generative models (SGMs) are powerful tools to sample from complex data distributions. Their underlying idea is to (i) run a forward process for time T1 by adding noise to the data, (ii) estimate its score function, and (iii) use such estimate to run a reverse process. As the reverse process is initialized with the stationary distribution of the forward one, the existing analysis paradigm requires T1→∞. This is however problematic: from a theoretical viewpoint, for a given precision of the score approximation, the convergence guarantee fails as T1 diverges; from a practical viewpoint, a large T1 increases computational costs and leads to error propagation. This paper addresses the issue by considering a version of the popular predictor-corrector scheme: after running the forward process, we first estimate the final distribution via an inexact Langevin dynamics and then revert the process. Our key technical contribution is to provide convergence guarantees which require to run the forward process only for a fixed finite time T1. Our bounds exhibit a mild logarithmic dependence on the input dimension and the subgaussian norm of the target distribution, have minimal assumptions on the data, and require only to control the L2 loss on the score approximation, which is the quantity minimized in practice.},
  author       = {Pedrotti, Francesco and Maas, Jan and Mondelli, Marco},
  booktitle    = {Transactions on Machine Learning Research},
  issn         = {2835-8856},
  title        = {{Improved convergence of score-based diffusion models via prediction-correction}},
  year         = {2024},
}

@unpublished{17350,
  abstract     = {Score-based generative models (SGMs) are powerful tools to sample from
complex data distributions. Their underlying idea is to (i) run a forward
process for time $T_1$ by adding noise to the data, (ii) estimate its score
function, and (iii) use such estimate to run a reverse process. As the reverse
process is initialized with the stationary distribution of the forward one, the
existing analysis paradigm requires $T_1\to\infty$. This is however
problematic: from a theoretical viewpoint, for a given precision of the score
approximation, the convergence guarantee fails as $T_1$ diverges; from a
practical viewpoint, a large $T_1$ increases computational costs and leads to
error propagation. This paper addresses the issue by considering a version of
the popular predictor-corrector scheme: after running the forward process, we
first estimate the final distribution via an inexact Langevin dynamics and then
revert the process. Our key technical contribution is to provide convergence
guarantees which require to run the forward process only for a fixed finite
time $T_1$. Our bounds exhibit a mild logarithmic dependence on the input
dimension and the subgaussian norm of the target distribution, have minimal
assumptions on the data, and require only to control the $L^2$ loss on the
score approximation, which is the quantity minimized in practice.},
  author       = {Pedrotti, Francesco and Maas, Jan and Mondelli, Marco},
  booktitle    = {arXiv},
  title        = {{Improved convergence of score-based diffusion models via prediction-correction}},
  doi          = {10.48550/arXiv.2305.14164},
  year         = {2024},
}

@misc{22776,
  author       = {Du, Yunlong},
  publisher    = {Repository},
  title        = {{SeRrbJ609}},
  doi          = {10.6084/m9.figshare.25448191},
  year         = {2024},
}

@article{17103,
  abstract     = {Phytoalexin sakuranetin functions in resistance against rice blast. However, the mechanisms underlying the effects of sakuranetin remains elusive. Here, we report that rice lines expressing resistance (R) genes were found to contain high levels of sakuranetin, which correlates with attenuated endocytic trafficking of plasma membrane (PM) proteins. Exogenous and endogenous sakuranetin attenuates the endocytosis of various PM proteins and the fungal effector PWL2. Moreover, accumulation of the avirulence protein AvrCO39, resulting from uptake into rice cells by Magnaporthe oryzae, was reduced following treatment with sakuranetin. Pharmacological manipulation of clathrin-mediated endocytic (CME) suggests that this pathway is targeted by sakuranetin. Indeed, attenuation of CME by sakuranetin is sufficient to convey resistance against rice blast. Our data reveals a mechanism of rice against M. oryzae by increasing sakuranetin levels and repressing the CME of pathogen effectors, which is distinct from the action of many R genes that mainly function by modulating transcription.},
  author       = {Jiang, Lihui and Zhang, Xiaoyan and Zhao, Yiting and Zhu, Haiyan and Fu, Qijing and Lu, Xinqi and Huang, Wuying and Yang, Xinyue and Zhou, Xuan and Wu, Lixia and Yang, Ao and He, Xie and Dong, Man and Peng, Ziai and Yang, Jing and Guo, Liwei and Wen, Jiancheng and Huang, Huichuan and Xie, Yong and Zhu, Shusheng and Li, Chengyun and He, Xiahong and Zhu, Youyong and Friml, Jiří and Du, Yunlong},
  issn         = {2041-1723},
  journal      = {Nature Communications},
  publisher    = {Springer Nature},
  title        = {{Phytoalexin sakuranetin attenuates endocytosis and enhances resistance to rice blast}},
  doi          = {10.1038/s41467-024-47746-y},
  volume       = {15},
  year         = {2024},
}

@article{15033,
  abstract     = {The GNOM (GN) Guanine nucleotide Exchange Factor for ARF small GTPases (ARF-GEF) is among the best studied trafficking regulators in plants, playing crucial and unique developmental roles in patterning and polarity. The current models place GN at the Golgi apparatus (GA), where it mediates secretion/recycling, and at the plasma membrane (PM) presumably contributing to clathrin-mediated endocytosis (CME). The mechanistic basis of the developmental function of GN, distinct from the other ARF-GEFs including its closest homologue GNOM-LIKE1 (GNL1), remains elusive. Insights from this study largely extend the current notions of GN function. We show that GN, but not GNL1, localizes to the cell periphery at long-lived structures distinct from clathrin-coated pits, while CME and secretion proceed normally in <jats:italic>gn</jats:italic> knockouts. The functional GN mutant variant GN<jats:sup>fewerroots</jats:sup>, absent from the GA, suggests that the cell periphery is the major site of GN action responsible for its developmental function. Following inhibition by Brefeldin A, GN, but not GNL1, relocates to the PM likely on exocytic vesicles, suggesting selective molecular associations en route to the cell periphery. A study of GN-GNL1 chimeric ARF-GEFs indicates that all GN domains contribute to the specific GN function in a partially redundant manner. Together, this study offers significant steps toward the elucidation of the mechanism underlying unique cellular and development functions of GNOM.},
  author       = {Adamowski, Maciek and Matijevic, Ivana and Friml, Jiří},
  issn         = {2050-084X},
  journal      = {eLife},
  keywords     = {General Immunology and Microbiology, General Biochemistry, Genetics and Molecular Biology, General Medicine, General Neuroscience},
  publisher    = {eLife Sciences Publications},
  title        = {{Developmental patterning function of GNOM ARF-GEF mediated from the cell periphery}},
  doi          = {10.7554/elife.68993},
  volume       = {13},
  year         = {2024},
}

@article{14826,
  abstract     = {The plant-signaling molecule auxin triggers fast and slow cellular responses across land plants and algae. The nuclear auxin pathway mediates gene expression and controls growth and development in land plants, but this pathway is absent from algal sister groups. Several components of rapid responses have been identified in Arabidopsis, but it is unknown if these are part of a conserved mechanism. We recently identified a fast, proteome-wide phosphorylation response to auxin. Here, we show that this response occurs across 5 land plant and algal species and converges on a core group of shared targets. We found conserved rapid physiological responses to auxin in the same species and identified rapidly accelerated fibrosarcoma (RAF)-like protein kinases as central mediators of auxin-triggered phosphorylation across species. Genetic analysis connects this kinase to both auxin-triggered protein phosphorylation and rapid cellular response, thus identifying an ancient mechanism for fast auxin responses in the green lineage.},
  author       = {Kuhn, Andre and Roosjen, Mark and Mutte, Sumanth and Dubey, Shiv Mani and Carrillo Carrasco, Vanessa Polet and Boeren, Sjef and Monzer, Aline and Koehorst, Jasper and Kohchi, Takayuki and Nishihama, Ryuichi and Fendrych, Matyas and Sprakel, Joris and Friml, Jiří and Weijers, Dolf},
  issn         = {1097-4172},
  journal      = {Cell},
  keywords     = {General Biochemistry, Genetics and Molecular Biology},
  number       = {1},
  pages        = {130--148.e17},
  publisher    = {Elsevier},
  title        = {{RAF-like protein kinases mediate a deeply conserved, rapid auxin response}},
  doi          = {10.1016/j.cell.2023.11.021},
  volume       = {187},
  year         = {2024},
}

@article{15319,
  abstract     = {Exocyst component of 70-kDa (EXO70) proteins are constituents of the exocyst complex implicated in vesicle tethering during exocytosis. MILDEW RESISTANCE LOCUS O (MLO) proteins are plant-specific calcium channels and some MLO isoforms enable fungal powdery mildew pathogenesis. We here detected an unexpected phenotypic overlap of Arabidopsis thaliana exo70H4 and mlo2 mlo6 mlo12 triple mutant plants regarding the biogenesis of leaf trichome secondary cell walls. Biochemical and Fourier transform infrared spectroscopic analyses corroborated deficiencies in the composition of trichome cell walls in these mutants. Transgenic lines expressing fluorophore-tagged EXO70H4 and MLO exhibited extensive colocalization of these proteins. Furthermore, mCherry-EXO70H4 mislocalized in trichomes of the mlo triple mutant and, vice versa, MLO6-GFP mislocalized in trichomes of the exo70H4 mutant. Expression of GFP-marked PMR4 callose synthase, a known cargo of EXO70H4-dependent exocytosis, revealed reduced cell wall delivery of GFP-PMR4 in trichomes of mlo triple mutant plants. In vivo protein–protein interaction assays in plant and yeast cells uncovered isoform-preferential interactions between EXO70.2 subfamily members and MLO proteins. Finally, exo70H4 and mlo6 mutants, when combined, showed synergistically enhanced resistance to powdery mildew attack. Taken together, our data point to an isoform-specific interplay of EXO70 and MLO proteins in the modulation of trichome cell wall biogenesis and powdery mildew susceptibility.},
  author       = {Huebbers, Jan W. and Caldarescu, George A. and Kubátová, Zdeňka and Sabol, Peter and Levecque, Sophie C.J. and Kuhn, Hannah and Kulich, Ivan and Reinstädler, Anja and Büttgen, Kim and Manga-Robles, Alba and Mélida, Hugo and Pauly, Markus and Panstruga, Ralph and Žárský, Viktor},
  issn         = {1532-298X},
  journal      = {Plant Cell},
  number       = {4},
  pages        = {1007--1035},
  publisher    = {Oxford University Press},
  title        = {{Interplay of EXO70 and MLO proteins modulates trichome cell wall composition and susceptibility to powdery mildew}},
  doi          = {10.1093/plcell/koad319},
  volume       = {36},
  year         = {2024},
}

@article{17436,
  abstract     = {The auxin signaling molecule controls a variety of growth and developmental processes in land plants. Auxin regulates gene expression through a nuclear auxin signaling pathway (NAP) consisting of the ubiquitin ligase auxin receptor TIR1/AFB, its Aux/IAA degradation substrate, and DNA-binding ARF transcription factors. Although extensive qualitative understanding of the pathway and its interactions has been obtained, mostly by studying the flowering plant Arabidopsis thaliana, it remains unknown how these translate to quantitative system behavior in vivo, a problem that is confounded by the large NAP gene families in most species. Here, we used the minimal NAP of the liverwort Marchantia polymorpha to quantitatively map NAP protein accumulation and dynamics in vivo through the use of knockin fluorescent fusion proteins. Beyond revealing the dynamic native accumulation profile of the entire NAP protein network, we discovered that the two central ARFs, MpARF1 and MpARF2, are proteasomally degraded. This auxin-independent degradation tunes ARF protein stoichiometry to favor gene activation, thereby reprogramming auxin response during the developmental progression. Thus, quantitative analysis of the entire NAP has enabled us to identify ARF degradation and the stoichiometries of activator and repressor ARFs as a potential mechanism for controlling gemma germination.},
  author       = {Das, Shubhajit and De Roij, Martijn and Bellows, Simon and Alvarez, Melissa Dipp and Mutte, Sumanth and Kohlen, Wouter and Farcot, Etienne and Weijers, Dolf and Borst, Jan Willem},
  issn         = {2590-3462},
  journal      = {Plant Communications},
  number       = {11},
  publisher    = {Elsevier},
  title        = {{Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination}},
  doi          = {10.1016/j.xplc.2024.101039},
  volume       = {5},
  year         = {2024},
}

@article{18465,
  abstract     = {The phytohormone auxin is polarly transported in plants by PIN-FORMED (PIN) transporters and controls virtually all growth and developmental processes. Canonical PINs possess a long, largely disordered cytosolic loop. Auxin transport by canonical PINs is activated by loop phosphorylation by certain kinases. The structure of the PIN transmembrane domains was recently determined, their transport properties remained poorly characterized, and the role of the loop in the transport process was unclear. Here, we determined the quantitative kinetic parameters of auxin transport mediated by Arabidopsis PINs to mathematically model auxin distribution in roots and to test these predictions in vivo. Using chimeras between transmembrane and loop domains of different PINs, we demonstrate a strong correlation between transport parameters and physiological output, indicating that the loop domain is not only required to activate PIN-mediated auxin transport, but it has an additional role in the transport process by a currently unknown mechanism.},
  author       = {Janacek, DP and Kolb, M and Schulz, L and Mergner, J and Kuster, B and Glanc, Matous and Friml, Jiří and Ten Tusscher, K and Schwechheimer, C and Hammes, UZ},
  issn         = {1878-1551},
  journal      = {Developmental Cell},
  number       = {14},
  pages        = {S1534--5807(24)00569--0},
  publisher    = {Elsevier},
  title        = {{Transport properties of canonical PIN-FORMED proteins from Arabidopsis and the role of the loop domain in auxin transport}},
  doi          = {10.1016/j.devcel.2024.09.020},
  volume       = {59},
  year         = {2024},
}

@article{18582,
  abstract     = {Identification of PIN exporters for auxin, the major coordinative signal in plants, some 25 years ago, signifies a landmark in our understanding of plant-specific mechanisms underlying development and adaptation. Auxin is directionally transported throughout the plant body; a unique feature already envisioned by Darwin and solidified by PINs’ discovery and characterization. The PIN-based auxin distribution network with its complex regulations of PIN expression, localization and activity turned out to underlie a remarkable multitude of developmental processes and represents means to integrate endogenous and environmental signals. Given the recent anniversary, we here summarize past and current developments in this exciting field.},
  author       = {Luschnig, Christian and Friml, Jiří},
  issn         = {2041-1723},
  journal      = {Nature Communications},
  publisher    = {Springer Nature},
  title        = {{Over 25 years of decrypting PIN-mediated plant development}},
  doi          = {10.1038/s41467-024-54240-y},
  volume       = {15},
  year         = {2024},
}

@article{15251,
  abstract     = {Brassinosteroids are steroidal phytohormones that regulate plant development and physiology, including adaptation to environmental stresses. Brassinosteroids are synthesized in the cell interior but bind receptors at the cell surface, necessitating a yet to be identified export mechanism. Here, we show that a member of the ATP-binding cassette (ABC) transporter superfamily, ABCB19, functions as a brassinosteroid exporter. We present its structure in both the substrate-unbound and the brassinosteroid-bound states. Bioactive brassinosteroids are potent activators of ABCB19 ATP hydrolysis activity, and transport assays showed that ABCB19 transports brassinosteroids. In Arabidopsis thaliana, ABCB19 and its close homolog, ABCB1, positively regulate brassinosteroid responses. Our results uncover an elusive export mechanism for bioactive brassinosteroids that is tightly coordinated with brassinosteroid signaling.},
  author       = {Ying, Wei and Wang, Yaowei and Wei, Hong and Luo, Yongming and Ma, Qian and Zhu, Heyuan and Janssens, Hilde and Vukašinović, Nemanja and Kvasnica, Miroslav and Winne, Johan M. and Gao, Yongxiang and Tan, Shutang and Friml, Jiří and Liu, Xin and Russinova, Eugenia and Sun, Linfeng},
  issn         = {1095-9203},
  journal      = {Science},
  number       = {6689},
  pages        = {eadj4591},
  publisher    = {American Association for the Advancement of Science},
  title        = {{Structure and function of the Arabidopsis ABC transporter ABCB19 in brassinosteroid export}},
  doi          = {10.1126/science.adj4591},
  volume       = {383},
  year         = {2024},
}

@article{17377,
  abstract     = {Lateral root (LR) formation, that is vital for plant development, is one of many auxin-modulated processes, but the underlying regulatory mechanism is not yet fully known. Recently, 
González-García et al. discovered the BiAux compound and showed that it is involved in LR development via regulating specific auxin coreceptors.},
  author       = {Wójcikowska, Barbara and Friml, Jiří and Mazur, Ewa},
  issn         = {1360-1385},
  journal      = {Trends in Plant Science},
  number       = {12},
  pages        = {1279--1281},
  publisher    = {Elsevier},
  title        = {{BiAux, a newly discovered compound triggering auxin signaling}},
  doi          = {10.1016/j.tplants.2024.07.008},
  volume       = {29},
  year         = {2024},
}

@inbook{15361,
  abstract     = {Bimolecular fluorescence complementation (BiFC) is a powerful tool for studying protein-protein interactions in living cells. By fusing interacting proteins to fluorescent protein fragments, BiFC allows visualization of spatial localization patterns of protein complexes. This method has been adapted to a variety of expression systems in different organisms and is widely used to study protein interactions in plant cells. The Agrobacterium-mediated transient expression protocol for BiFC assays in Nicotiana benthamiana (N. benthamiana) leaf cells is widely used, but in this chapter, a method for BiFC assay using Arabidopsis thaliana protoplasts is presented.},
  author       = {Jayasree, Aswathy and Salava, Hymavathi and Nodzynski, Tomasz and Sravankumar, Thula},
  booktitle    = {Plant Functional Genomics},
  editor       = {Maghuly, Fatemeh},
  isbn         = {9781071637777},
  issn         = {1940-6029},
  pages        = {305--313},
  publisher    = {Springer Nature},
  title        = {{Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf}},
  doi          = {10.1007/978-1-0716-3778-4_21},
  volume       = {2787},
  year         = {2024},
}