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  1. Article: An optimized pipeline for live imaging whole Arabidopsis leaves at cellular resolution.

    Harline, Kate / Roeder, Adrienne H K

    Plant methods

    2023  Volume 19, Issue 1, Page(s) 10

    Abstract: Background: Live imaging is the gold standard for determining how cells give rise to organs. However, tracking many cells across whole organs over large developmental time windows is extremely challenging. In this work, we provide a comparably simple ... ...

    Abstract Background: Live imaging is the gold standard for determining how cells give rise to organs. However, tracking many cells across whole organs over large developmental time windows is extremely challenging. In this work, we provide a comparably simple method for confocal live imaging entire Arabidopsis thaliana first leaves across early development. Our imaging method works for both wild-type leaves and the complex curved leaves of the jaw-1D mutant.
    Results: We find that dissecting the cotyledons, affixing a coverslip above the samples and mounting samples with perfluorodecalin yields optimal imaging series for robust cellular and organ level analysis. We provide details of our complementary image processing steps in MorphoGraphX software for segmenting, tracking lineages, and measuring a suite of cellular properties. We also provide MorphoGraphX image processing scripts we developed to automate analysis of segmented images and data presentation.
    Conclusions: Our imaging techniques and processing steps combine into a robust imaging pipeline. With this pipeline we are able to examine important nuances in the cellular growth and differentiation of jaw-D versus WT leaves that have not been demonstrated before. Our pipeline is approachable and easy to use for leaf development live imaging.
    Language English
    Publishing date 2023-02-01
    Publishing country England
    Document type Journal Article
    ZDB-ID 2203723-8
    ISSN 1746-4811
    ISSN 1746-4811
    DOI 10.1186/s13007-023-00987-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: An optimized live imaging and growth analysis approach for Arabidopsis Sepals.

    Yadav, Avilash Singh / Roeder, Adrienne H K

    bioRxiv : the preprint server for biology

    2024  

    Abstract: Background: Arabidopsis thaliana: Results: For live imaging sepals across all tissue layers at early stages of development, we found that the use of a bright fluorescent membrane marker, coupled with increased laser intensity and an enhanced Z- ... ...

    Abstract Background: Arabidopsis thaliana
    Results: For live imaging sepals across all tissue layers at early stages of development, we found that the use of a bright fluorescent membrane marker, coupled with increased laser intensity and an enhanced Z- resolution produces high-quality images suitable for downstream image processing. Our optimized parameters allowed us to image the bottommost cell layer of the sepal (inner epidermal layer) without compromising viability. We used a 'voxel removal' technique to visualize the inner epidermal layer in MorphoGraphX [2, 3] image processing software. Finally, we describe the process of optimizing the parameters for creating a 2.5D mesh surface for the inner epidermis. This allowed segmentation and parent tracking of individual cells through multiple time points, despite the weak signal of the inner epidermal cells.
    Conclusion: We provide a robust pipeline for imaging and analyzing growth across inner and outer epidermal layers during early sepal development. Our approach can potentially be employed for analyzing growth of other internal cell layers of the sepals as well. For each of the steps, approaches, and parameters we used, we have provided in-depth explanations to help researchers understand the rationale and replicate our pipeline.
    Language English
    Publishing date 2024-01-24
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.01.22.576735
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  3. Article ; Online: Arabidopsis

    Roeder, Adrienne H K

    Quantitative plant biology

    2021  Volume 2

    Abstract: During development, ...

    Abstract During development,
    Language English
    Publishing date 2021-11-18
    Publishing country England
    Document type Journal Article
    ISSN 2632-8828
    ISSN (online) 2632-8828
    DOI 10.1017/qpb.2021.12
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  4. Article ; Online: Stepping on the molecular brake: Slowing down proliferation to allow differentiation.

    Burda, Isabella / Roeder, Adrienne H K

    Developmental cell

    2022  Volume 57, Issue 5, Page(s) 561–563

    Abstract: Cellular differentiation can entail changes to the cell cycle. In this issue of Developmental Cell, Han et al. show that the transcription factor MUTE directly activates expression of the cyclin-dependent kinase (CDK) inhibitor SIAMESE RELATED 4 (SMR4), ... ...

    Abstract Cellular differentiation can entail changes to the cell cycle. In this issue of Developmental Cell, Han et al. show that the transcription factor MUTE directly activates expression of the cyclin-dependent kinase (CDK) inhibitor SIAMESE RELATED 4 (SMR4), thereby slowing down G1 during the transition to stomatal differentiation.
    MeSH term(s) Cell Cycle ; Cell Cycle Proteins/metabolism ; Cell Differentiation ; Cell Division ; Cyclin-Dependent Kinase 2/metabolism ; Cyclin-Dependent Kinase Inhibitor p21/metabolism ; Cyclin-Dependent Kinases/genetics ; Cyclin-Dependent Kinases/metabolism ; Cyclins/metabolism ; Deceleration ; G1 Phase/physiology
    Chemical Substances Cell Cycle Proteins ; Cyclin-Dependent Kinase Inhibitor p21 ; Cyclins ; Cyclin-Dependent Kinase 2 (EC 2.7.11.22) ; Cyclin-Dependent Kinases (EC 2.7.11.22)
    Language English
    Publishing date 2022-03-15
    Publishing country United States
    Document type Journal Article ; Comment
    ZDB-ID 2054967-2
    ISSN 1878-1551 ; 1534-5807
    ISSN (online) 1878-1551
    ISSN 1534-5807
    DOI 10.1016/j.devcel.2022.02.014
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 5742: Show issues Location:
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    Jg. 1995 - 2021: Lesesall (2.OG)
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    Zs.MG 76: Show issues

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  5. Article ; Online: The ratio of auxin to cytokinin controls leaf development and meristem initiation in Physcomitrium patens.

    Cammarata, Joseph / Roeder, Adrienne H K / Scanlon, Michael J

    Journal of experimental botany

    2023  Volume 74, Issue 21, Page(s) 6541–6550

    Abstract: Crosstalk between auxin and cytokinin contributes to widespread developmental processes, including root and shoot meristem maintenance, phyllotaxy, and vascular patterning. However, our understanding of crosstalk between these hormones is limited ... ...

    Abstract Crosstalk between auxin and cytokinin contributes to widespread developmental processes, including root and shoot meristem maintenance, phyllotaxy, and vascular patterning. However, our understanding of crosstalk between these hormones is limited primarily to angiosperms. The moss Physcomitrium patens (formerly Physcomitrella patens) is a powerful system for studying plant hormone function. Auxin and cytokinin play similar roles in regulating moss gametophore (shoot) architecture, to those in flowering plant shoots. However, auxin-cytokinin crosstalk is poorly understood in moss. Here we find that the ratio of auxin to cytokinin is an important determinant of development in P. patens, especially during leaf development and branch stem cell initiation. Addition of high levels of auxin to P. patens gametophores blocks leaf outgrowth. However, simultaneous addition of high levels of both auxin and cytokinin partially restores leaf outgrowth, suggesting that the ratio of these hormones is the predominant factor. Likewise, during branch initiation and outgrowth, chemical inhibition of auxin synthesis phenocopies cytokinin application. Finally, cytokinin-insensitive mutants resemble plants with altered auxin signaling and are hypersensitive to auxin. In summary, our results suggest that the ratio between auxin and cytokinin signaling is the basis for developmental decisions in the moss gametophore.
    MeSH term(s) Cytokinins/pharmacology ; Indoleacetic Acids/pharmacology ; Bryopsida/genetics ; Meristem ; Bryophyta ; Plant Leaves ; Hormones
    Chemical Substances Cytokinins ; Indoleacetic Acids ; Hormones
    Language English
    Publishing date 2023-07-28
    Publishing country England
    Document type Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 2976-2
    ISSN 1460-2431 ; 0022-0957
    ISSN (online) 1460-2431
    ISSN 0022-0957
    DOI 10.1093/jxb/erad299
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    In stock of ZB MED Bonn / Germany

    Z 55/29: Show issues

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  6. Article: Growth couples temporal and spatial fluctuations of tissue properties during morphogenesis.

    Fruleux, Antoine / Hong, Lilan / Roeder, Adrienne H K / Li, Chun-Biu / Boudaoud, Arezki

    bioRxiv : the preprint server for biology

    2024  

    Abstract: Living tissues display fluctuations - random spatial and temporal variations of tissue properties around their reference values - at multiple scales. It is believed that such fluctuations may enable tissues to sense their state or their size. Recent ... ...

    Abstract Living tissues display fluctuations - random spatial and temporal variations of tissue properties around their reference values - at multiple scales. It is believed that such fluctuations may enable tissues to sense their state or their size. Recent theoretical studies developed specific models of fluctuations in growing tissues and predicted that fluctuations of growth show long-range correlations. Here we elaborated upon these predictions and we tested them using experimental data. We first introduced a minimal model for the fluctuations of any quantity that has some level of temporal persistence or memory, such as concentration of a molecule, local growth rate, or mechanical property. We found that long-range correlations are generic, applying to any such quantity, and that growth couples temporal and spatial fluctuations, through a mechanism that we call 'fluctuation stretching' - growth enlarges the lengthscale of variation of this quantity. We then analysed growth data from sepals of the model plant Arabidopsis and we quantified spatial and temporal fluctuations of cell growth using the previously developed Cellular Fourier Transform. Growth appears to have long-range correlations. We compared different genotypes and growth conditions: mutants with lower or higher response to mechanical stress have lower temporal correlations and longer-range spatial correlations than wild-type plants. Finally, we used theoretical predictions to merge experimental data from all conditions and developmental stages into an unifying curve, validating the notion that temporal and spatial fluctuations are coupled by growth. Altogether, our work reveals kinematic constraints on spatiotemporal fluctuations that have an impact on the robustness of morphogenesis.
    Language English
    Publishing date 2024-04-17
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.10.23.563640
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  7. Article ; Online: What Is a Plant Cell Type in the Age of Single-Cell Biology? It's Complicated.

    Rusnak, Byron / Clark, Frances K / Vadde, Batthula Vijaya Lakshmi / Roeder, Adrienne H K

    Annual review of cell and developmental biology

    2024  

    Abstract: One of the fundamental questions in developmental biology is how a cell is specified to differentiate as a specialized cell type. Traditionally, plant cell types were defined based on their function, location, morphology, and lineage. Currently, in the ... ...

    Abstract One of the fundamental questions in developmental biology is how a cell is specified to differentiate as a specialized cell type. Traditionally, plant cell types were defined based on their function, location, morphology, and lineage. Currently, in the age of single-cell biology, researchers typically attempt to assign plant cells to cell types by clustering them based on their transcriptomes. However, because cells are dynamic entities that progress through the cell cycle and respond to signals, the transcriptome also reflects the state of the cell at a particular moment in time, raising questions about how to define a cell type. We suggest that these complexities and dynamics of cell states are of interest and further consider the roles signaling, stochasticity, cell cycle, and mechanical forces play in plant cell fate specification. Once established, cell identity must also be maintained. With the wealth of single-cell data coming out, the field is poised to elucidate both the complexity and dynamics of cell states.
    Language English
    Publishing date 2024-05-09
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 1293750-2
    ISSN 1530-8995 ; 1081-0706
    ISSN (online) 1530-8995
    ISSN 1081-0706
    DOI 10.1146/annurev-cellbio-111323-102412
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    In stock of ZB MED Cologne/Königswinter

    Se 1003: Show issues Location:
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  8. Article: Robust organ size in Arabidopsis is primarily governed by cell growth rather than cell division patterns.

    Burda, Isabella / Li, Chun-Biu / Clark, Frances K / Roeder, Adrienne H K

    bioRxiv : the preprint server for biology

    2023  

    Abstract: Organ sizes and shapes are highly reproducible, or robust, within a species and individuals. ...

    Abstract Organ sizes and shapes are highly reproducible, or robust, within a species and individuals.
    Language English
    Publishing date 2023-11-20
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.11.11.566685
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  9. Article ; Online: The dynamics and biophysics of shape formation: Common themes in plant and animal morphogenesis.

    Burda, Isabella / Martin, Adam C / Roeder, Adrienne H K / Collins, Mary Ann

    Developmental cell

    2023  Volume 58, Issue 24, Page(s) 2850–2866

    Abstract: The emergence of tissue form in multicellular organisms results from the complex interplay between genetics and physics. In both plants and animals, cells must act in concert to pattern their behaviors. Our understanding of the factors sculpting ... ...

    Abstract The emergence of tissue form in multicellular organisms results from the complex interplay between genetics and physics. In both plants and animals, cells must act in concert to pattern their behaviors. Our understanding of the factors sculpting multicellular form has increased dramatically in the past few decades. From this work, common themes have emerged that connect plant and animal morphogenesis-an exciting connection that solidifies our understanding of the developmental basis of multicellular life. In this review, we will discuss the themes and the underlying principles that connect plant and animal morphogenesis, including the coordination of gene expression, signaling, growth, contraction, and mechanical and geometric feedback.
    MeSH term(s) Animals ; Morphogenesis ; Signal Transduction ; Biophysics ; Plants ; Plant Development
    Language English
    Publishing date 2023-12-19
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 2054967-2
    ISSN 1878-1551 ; 1534-5807
    ISSN (online) 1878-1551
    ISSN 1534-5807
    DOI 10.1016/j.devcel.2023.11.003
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    In stock of ZB MED Cologne/Königswinter

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  10. Article ; Online: Plant Morphogenesis: Mechanical Feedback Position Is Crucial in Organ Flattening.

    Harline, Kate / Roeder, Adrienne H K

    Current biology : CB

    2020  Volume 30, Issue 20, Page(s) R1268–R1270

    Abstract: A new study presents a three-dimensional mechanical model with multiple cell layers to interrogate the flattening of organs during development. This model shows the importance of initial asymmetry and its reinforcement by mechanical feedback within the ... ...

    Abstract A new study presents a three-dimensional mechanical model with multiple cell layers to interrogate the flattening of organs during development. This model shows the importance of initial asymmetry and its reinforcement by mechanical feedback within the inner cell walls, not the outer epidermal wall, in guiding organ flattening of organ primordia.
    MeSH term(s) Anisotropy ; Cell Wall ; Feedback ; Microtubules ; Plant Development ; Plant Leaves
    Language English
    Publishing date 2020-10-19
    Publishing country England
    Document type Journal Article ; Comment
    ZDB-ID 1071731-6
    ISSN 1879-0445 ; 0960-9822
    ISSN (online) 1879-0445
    ISSN 0960-9822
    DOI 10.1016/j.cub.2020.08.027
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 3208: Show issues Location:
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