Catalogue Search | MBRL
Search Results Heading
Explore the vast range of titles available.
MBRLSearchResults
-
DisciplineDiscipline
-
Is Peer ReviewedIs Peer Reviewed
-
Item TypeItem Type
-
SubjectSubject
-
YearFrom:-To:
-
More FiltersMore FiltersSourceLanguage
Done
Filters
Reset
627
result(s) for
"Venation"
Sort by:
Automated and accurate segmentation of leaf venation networks via deep learning
by
Xu, Hao
,
Jodra, Miguel
,
Fricker, Mark
in
Algorithms
,
Angles (geometry)
,
Artificial neural networks
2021
• Leaf vein network geometry can predict levels of resource transport, defence and mechanical support that operate at different spatial scales. However, it is challenging to quantify network architecture across scales due to the difficulties both in segmenting networks from images and in extracting multiscale statistics from subsequent network graph representations.
• Here we developed deep learning algorithms using convolutional neural networks (CNNs) to automatically segment leaf vein networks. Thirty-eight CNNs were trained on subsets of manually defined ground-truth regions from >700 leaves representing 50 southeast Asian plant families. Ensembles of six independently trained CNNs were used to segment networks from larger leaf regions (c. 100 mm²). Segmented networks were analysed using hierarchical loop decomposition to extract a range of statistics describing scale transitions in vein and areole geometry.
• The CNN approach gave a precision-recall harmonic mean of 94.5% ± 6%, outperforming other current network extraction methods, and accurately described the widths, angles and connectivity of veins. Multiscale statistics then enabled the identification of previously undescribed variation in network architecture across species.
• We provide a LeafVeinCNN software package to enable multiscale quantification of leaf vein networks, facilitating the comparison across species and the exploration of the functional significance of different leaf vein architectures.
Journal Article
Linking functional traits to multiscale statistics of leaf venation networks
by
Xu, Hao
,
Burslem, David F.R.P.
,
Jodra, Miguel
in
Axes (reference lines)
,
Circularity
,
Computer architecture
2020
• Leaf venation networks evolved along several functional axes, including resource transport, damage resistance, mechanical strength, and construction cost. Because functions may depend on architectural features at different scales, network architecture may vary across spatial scales to satisfy functional tradeoffs.
• We develop a framework for quantifying network architecture with multiscale statistics describing elongation ratios, circularity ratios, vein density, and minimum spanning tree ratios. We quantify vein networks for leaves of 260 southeast Asian tree species in samples of up to 2 cm², pairing multiscale statistics with traits representing axes of resource transport, damage resistance, mechanical strength, and cost.
• We show that these multiscale statistics clearly differentiate species’ architecture and delineate a phenotype space that shifts at larger scales; functional linkages vary with scale and are weak, with vein density, minimum spanning tree ratio, and circularity ratio linked to mechanical strength (measured by force to punch) and elongation ratio and circularity ratio linked to damage resistance (measured by tannins); and phylogenetic conservatism of network architecture is low but scale-dependent.
• This work provides tools to quantify the function and evolution of venation networks. Future studies including primary and secondary veins may uncover additional insights.
Journal Article
Leaf venation: structure, function, development, evolution, ecology and applications in the past, present and future
2013
The design and function of leaf venation are important to plant performance, with key implications for the distribution and productivity of ecosystems, and applications in paleobiology, agriculture and technology.Wesynthesize classical concepts and the recent literature on a wide range of aspects of leaf venation. We describe 10 major structural features that contribute to multiple key functions, and scale up to leaf and plant performance. We describe the development and plasticity of leaf venation and its adaptation across environments globally, and a new global data compilation indicating trends relating vein length per unit area to climate, growth form and habitat worldwide. Wesynthesize the evolution of vein traits in the major plant lineages throughout paleohistory, highlighting the multiple origins of individual traits. We summarize the strikingly diverse current applications of leaf vein research in multiple fields of science and industry. A unified core understanding will enable an increasing range of plant biologists to incorporate leaf venation into their research.
Journal Article
Comparative venation costs of monocotyledon and dicotyledon species in the eastern Colorado steppe
by
Gleason, Sean M
,
Kray, J. A
,
Ocheltree, Troy W
in
Capacitance
,
Construction costs
,
Dendritic structure
2024
Main conclusionLeaf vein network cost (total vein surface area per leaf volume) for major veins and vascular bundles did not differ between monocot and dicot species in 21 species from the eastern Colorado steppe. Dicots possessed significantly larger minor vein networks than monocots.Across the tree of life, there is evidence that dendritic vascular transport networks are optimized, balancing maximum speed and integrity of resource delivery with minimal resource investment in transport and infrastructure. Monocot venation, however, is not dendritic, and remains parallel down to the smallest vein orders with no space-filling capillary networks. Given this departure from the “optimized” dendritic network, one would assume that monocots are operating at a significant energetic disadvantage. In this study, we investigate whether monocot venation networks bear significantly greater carbon/construction costs per leaf volume than co-occurring dicots in the same ecosystem, and if so, what physiological or ecological advantage the monocot life form possesses to compensate for this deficit. Given that venation networks could also be optimized for leaf mechanical support or provide herbivory defense, we measured the vascular system of both monocot and dicots at three scales to distinguish between leaf investment in mechanical support (macroscopic vein), total transport and capacitance (vascular bundle), or exclusively water transport (xylem) for both parallel and dendritic venation networks. We observed that vein network cost (total vein surface area per leaf volume) for major veins and vascular bundles was not significantly different between monocot species and dicot species. Dicots, however, possess significantly larger minor vein networks than monocots. The 19 species subjected to gas-exchange measurement in the field displayed a broad range of Amax and but demonstrated no significant relationships with any metric of vascular network size in major or minor vein classes. Given that monocots do not seem to display any leaf hydraulic disadvantage relative to dicots, it remains an important research question why parallel venation (truly parallel, down to the smallest vessels) has not arisen more than once in the history of plant evolution.
Journal Article
A comprehensive illustrated protocol for clearing, mounting, and imaging leaf venation networks
2025
Premise Leaf venation network architecture can provide insights into plant evolution, ecology, and physiology. Venation networks are typically assessed through histological methods, but existing protocols provide limited guidance on processing large or challenging leaves. Methods and results We present an illustrated protocol for visualizing whole leaf venation networks, including sample preparation, clearing, staining, mounting, imaging, and archiving steps. The protocol also includes supply lists, troubleshooting procedures, safety considerations, and examples of successful and unsuccessful outcomes. The protocol is suitable for a wide range of leaf sizes and morphologies and has been used with all major plant groups. Conclusion We provide a workflow for obtaining high‐quality mounts and images of venation networks of a wide range of species, using readily available materials.
Journal Article
Leaf venation networks of Bornean trees
2019
The data set contains images of leaf venation networks obtained from tree species in Malaysian Borneo. The data set contains 726 leaves from 295 species comprising 50 families, sampled from eight forest plots in Sabah. Image extents are approximately 1 × 1 cm, or 50 megapixels. All images contain a region of interest in which all veins have been hand traced. The complete data set includes over 30 billion pixels, of which more than 600 million have been validated by hand tracing. These images are suitable for morphological characterization of these species, as well as for training of machine-learning algorithms that segment biological networks from images. Data are made available under the Open Data Commons Attribution License. You are free to copy, distribute, and use the database; to produce works from the database; and to modify, transform, and build upon the database. You must attribute any public use of the database, or works produced from the database, in the manner specified in the license. For any use or redistribution of the database, or works produced from it, you must make clear to others the license of the database and keep intact any notices on the original database.
Journal Article
Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in Arabidopsis
by
Hajný, Jakub
,
Friml, Jiří
,
Mazur, Ewa
in
Arabidopsis - genetics
,
Arabidopsis - metabolism
,
Arabidopsis Proteins - genetics
2020
• Plant survival depends on vascular tissues, which originate in a self-organizing manner as strands of cells co-directionally transporting the plant hormone auxin. The latter phenomenon (also known as auxin canalization) is classically hypothesized to be regulated by auxin itself via the effect of this hormone on the polarity of its own intercellular transport. Correlative observations supported this concept, but molecular insights remain limited.
• In the current study, we established an experimental system based on the model Arabidopsis thaliana, which exhibits auxin transport channels and formation of vasculature strands in response to local auxin application.
• Our methodology permits the genetic analysis of auxin canalization under controllable experimental conditions. By utilizing this opportunity, we confirmed the dependence of auxin canalization on a PIN-dependent auxin transport and nuclear, TIR1/AFB-mediated auxin signaling. We also show that leaf venation and auxin-mediated PIN repolarization in the root require TIR1/AFB signaling.
• Further studies based on this experimental system are likely to yield better understanding of the mechanisms underlying auxin transport polarization in other developmental contexts.
Journal Article
Independent evolutionary changes in fine-root traits among main clades during the diversification of seed plants
by
Baraloto, Christopher
,
Valverde-Barrantes, Oscar J.
,
Maherali, Hafiz
in
angiosperm diversification
,
Angiospermae
,
Angiosperms
2020
• Changes in fine-root morphology are typically associated with transitions from the ancestral arbuscular mycorrhizal (AM) to the alternative ectomycorrhizal (ECM) or nonmycorrhizal (NM) associations. However, the modifications in root morphology may also coincide with new modifications in leaf hydraulics and growth habit during angiosperm diversification. These hypotheses have not been evaluated concurrently, and this limits our understanding of the causes of fine-root evolution.
• To explore the evolution of fine-root systems, we assembled a 600+ species database to reconstruct historical changes in seed plants over time. We utilise ancestral reconstruction approaches together with phylogenetically informed comparative analyses to test whether changes in fine-root traits were most strongly associated with mycorrhizal affiliation, leaf hydraulics or growth form.
• Our findings showed significant shifts in root diameter, specific root length and root tissue density as angiosperms diversified, largely independent from leaf changes or mycorrhizal affiliation. Growth form was the only factor associated with fine-root traits in statistical models including mycorrhizal association and leaf venation, suggesting substantial modifications in fine-root morphology during transitions from woody to nonwoody habits.
• Divergences in fine-root systems were crucial in the evolution of seed plant lineages, with important implications for ecological processes in terrestrial ecosystems.
Journal Article
Microphysiological systems inspired by leaf venation
by
Mao, Mao
,
Meng, Zijie
,
He, Jiankang
in
Biomedical engineering
,
Biomedical research
,
biomimetic microfluidic networks
2024
Nature-inspired microfluidic networks are revolutionizing microphysiological systems, allowing for the precise emulation of human physiology. This article delves into the fabrication techniques of leaf-venation-inspired (LVI) microfluidic networks and explores their transformative applications in organ-on-a-chip and tissue engineering, showcasing their pivotal role in advancing biomedical research.
Nature-inspired microfluidic networks are revolutionizing microphysiological systems, allowing for the precise emulation of human physiology. This article delves into the fabrication techniques of leaf-venation-inspired (LVI) microfluidic networks and explores their transformative applications in organ-on-a-chip and tissue engineering, showcasing their pivotal role in advancing biomedical research.
Journal Article
Variation in Tree Species Ability to Capture and Retain Airborne Fine Particulate Matter (PM2.5)
2017
Human health risks caused by PM
2.5
raise awareness to the role of trees as bio-filters of urban air pollution, but not all species are equally capable of filtering the air. The objectives of this current study were: (1) to determine the foliar traits for effective PM
2.5
-capture and (2) explore species-to-species differences in foliar PM
2.5
-recapture capacity following a rain event. The study concluded that overall, the acicular needle shape made conifers more efficient with PM
2.5
accumulation and post-rainfall recapture than broadleaved species. The foliar shape and venation of broadleaved species did not appear to influence the PM
2.5
accumulation. However, the number of the grooves and trichomes of broadleaved species were positively related to foliar PM
2.5
accumulation, suggesting that they could be used as indicators for the effectiveness of tree PM
2.5
capture. Furthermore, the amount of PM
2.5
removal by rainfall was determined by the total foliar PM
2.5
. Not all PM
2.5
remained on the foliage. In some species, PM
2.5
was resuspended during the growing season, and thus reduced the net particular accumulation for that species. These findings contribute to a better understanding of tree species potential for reducing PM
2.5
in urban environments.
Journal Article