Jonathan A. Atkinson
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View article: pyRootHair: Machine Learning Accelerated Software for High-Throughput Phenotyping of Plant Root Hair Traits
pyRootHair: Machine Learning Accelerated Software for High-Throughput Phenotyping of Plant Root Hair Traits Open
Root hairs play a key role in plant nutrient and water uptake. Historically, root hair traits have largely been quantified manually. As such, this process has been laborious and low-throughput. However, given their importance for plant hea…
View article: The HK5 and HK6 cytokinin receptors mediate diverse developmental pathways in rice
The HK5 and HK6 cytokinin receptors mediate diverse developmental pathways in rice Open
The phytohormone cytokinin regulates diverse aspects of plant growth and development. Our understanding of the metabolism and perception of cytokinin has made great strides in recent years, mostly from studies of the model dicot Arabidopsi…
View article: The Rapid Anatomics Tool (RAT): A low-cost root anatomical phenotyping pipeline reveals changes in root anatomy along the root axis
The Rapid Anatomics Tool (RAT): A low-cost root anatomical phenotyping pipeline reveals changes in root anatomy along the root axis Open
Root anatomical phenotyping has become a demonstrably essential part of investigating root physiology and in acquiring a holistic understanding of plant development. However, accessible high throughput methods for root anatomical analysis …
View article: Elucidating tissue and subcellular specificity of the entire SUMO network reveals how stress responses are fine-tuned in a eukaryote
Elucidating tissue and subcellular specificity of the entire SUMO network reveals how stress responses are fine-tuned in a eukaryote Open
SUMOylation is essential in plant and animal cells, but it remains unknown how small ubiquitin-like modifier (SUMO) components act in concert to modify specific targets in response to environmental stresses. In this study, we characterize …
View article: Microbial drivers of root plasticity
Microbial drivers of root plasticity Open
Summary Soils are highly heterogeneous and dynamic systems, experiencing a constant flow of plant root exudates and moisture fluctuations that affect nutrient distribution, soil physicochemical properties, and microbial metabolisms. Plant …
View article: PhenoAssistant: A Conversational Multi-Agent AI System for Automated Plant Phenotyping
PhenoAssistant: A Conversational Multi-Agent AI System for Automated Plant Phenotyping Open
Plant phenotyping increasingly relies on (semi-)automated image-based analysis workflows to improve its accuracy and scalability. However, many existing solutions remain overly complex, difficult to reimplement and maintain, and pose high …
View article: PhenoAssistant: A Conversational Multi-Agent AI System for Automated Plant Phenotyping
PhenoAssistant: A Conversational Multi-Agent AI System for Automated Plant Phenotyping Open
Plant phenotyping increasingly relies on (semi-)automated image-based analysis workflows to improve its accuracy and scalability. However, many existing solutions remain overly complex, difficult to reimplement and maintain, and pose high …
View article: High-fidelity wheat plant reconstruction using 3D Gaussian splatting and neural radiance fields
High-fidelity wheat plant reconstruction using 3D Gaussian splatting and neural radiance fields Open
Background The reconstruction of 3-dimensional (3D) plant models can offer advantages over traditional 2-dimensional approaches by more accurately capturing the complex structure and characteristics of different crops. Conventional 3D reco…
View article: Root metaxylem area influences drought tolerance and transpiration in pearl millet in a soil texture dependent manner
Root metaxylem area influences drought tolerance and transpiration in pearl millet in a soil texture dependent manner Open
Summary Pearl millet is a key cereal for food security in drylands but its yield is strongly impacted by drought. We investigated how root anatomical traits contribute to mitigating the effects of vegetative drought stress in pearl millet.…
View article: A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat
A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat Open
Background Root hairs are single-celled projections on root surfaces, critical for water and nutrient uptake. Here, we describe the first short root hair mutant in wheat ( Triticum aestivum L.), identified in a mutagenized population and t…
View article: Root hairs: an underexplored target for sustainable cereal crop production
Root hairs: an underexplored target for sustainable cereal crop production Open
To meet the demands of a rising human population, plant breeders will need to develop improved crop varieties that maximize yield in the face of increasing pressure on crop production. Historically, the optimization of crop root architectu…
View article: Comparative Effects of Site-specific and Blanket Fertilizer Application on Soil Physicochemical properties and Maize (Zea mays L.) Yield at Mikalango in Chikwawa District, Southern Malawi
Comparative Effects of Site-specific and Blanket Fertilizer Application on Soil Physicochemical properties and Maize (Zea mays L.) Yield at Mikalango in Chikwawa District, Southern Malawi Open
Malawi's economy predominantly relies on agriculture. However, continuous soil degradation threatens crop production, food security, and nutrition. The use of fertilizers in soil fertility amendment has not been as effective due to blanket…
View article: A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat.
A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat. Open
Root hairs are single-celled projections on root surfaces, critical for water and nutrient uptake. Here, we describe the first short root hair mutant in wheat (Triticum aestivum L.), identified in a mutagenized population and termed here s…
View article: Author Response: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Author Response: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Full text Figures and data Side by side Abstract eLife assessment eLife digest Introduction Results Discussion Materials and methods Data availability References Peer review Author response Article and author information Metrics Abstract S…
View article: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet’s ea…
View article: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet’s ea…
View article: Author Response: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Author Response: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet's ea…
View article: Root Hairs: An under-explored target for sustainable cereal crop production
Root Hairs: An under-explored target for sustainable cereal crop production Open
To meet the demands of a rising human population, plant breeders will need to develop improved crop varieties that maximize yield in the face of increasing pressure on crop production. Historically, the optimization of crop root architectu…
View article: The effects of soil compaction on wheat seedling root growth are specific to soil texture and soil moisture status
The effects of soil compaction on wheat seedling root growth are specific to soil texture and soil moisture status Open
Soil structure is a crucial soil physical property that determines a soil's ability to support the growth and development of plants. Soil compaction modifies soil structure by reducing pore space between soil particles thereby leading to a…
View article: Correction: The HK5 and HK6 cytokinin receptors mediate diverse developmental pathways in rice
Correction: The HK5 and HK6 cytokinin receptors mediate diverse developmental pathways in rice Open
There was an error in Development (2020) 147, dev191734 (doi:10.1242/dev.191734).The authors have found that the cytokinin histidine kinase mutant lines used (hk5, hk6 and hk5 hk6) all contained, in addition to the stated hk5 and/or hk6 mu…
View article: Reviewer #1 (Public Review): Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet
Reviewer #1 (Public Review): Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet's ea…
View article: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet’s ea…
View article: Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet
Glutaredoxin regulation of primary root growth confers early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet’s ea…
View article: Loss of ancestral function in duckweed roots is accompanied by progressive anatomical reduction and a re-distribution of nutrient transporters
Loss of ancestral function in duckweed roots is accompanied by progressive anatomical reduction and a re-distribution of nutrient transporters Open
Organ loss occurs frequently during plant and animal evolution. Sometimes, non-functional organs are retained through evolution. Vestigial organs are defined as genetically determined structures that have lost their ancestral (or salient) …
View article: Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet
Glutaredoxin regulation of primary root growth is associated with early drought stress tolerance in pearl millet Open
Seedling root traits impact plant establishment under challenging environments. Pearl millet is one of the most heat and drought tolerant cereal crops that provides a vital food source across the sub-Saharan Sahel region. Pearl millet’s ea…