Jonathan P. Lynch
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View article: Broad environmental adaptation is associated with root anatomical phenotypes in maize landraces: an <i>in silico</i> study
Broad environmental adaptation is associated with root anatomical phenotypes in maize landraces: an <i>in silico</i> study Open
Background and Aims Root phenotypes contribute to environmental adaptation. We hypothesized that root phenotypes of maize (Zea mays L. ssp. mays) landraces reflect their adaptation to edaphic limitations in their native soil environments, …
View article: Ploidy alters root anatomy and shapes the evolution of wheat polyploids
Ploidy alters root anatomy and shapes the evolution of wheat polyploids Open
Polyploidization played a crucial role in crop domestication and modern agriculture. While increased cell size in polyploids is known to enhance plant biomass and vigor, its impact on soil exploration remains poorly understood. Using wheat…
View article: <i>In silico</i> analysis of the evolution of root phenotypes during maize domestication in Neolithic soils of Tehuacán
<i>In silico</i> analysis of the evolution of root phenotypes during maize domestication in Neolithic soils of Tehuacán Open
Summary Roots are essential for plant adaptation to changing environments, yet the role of roots in crop domestication remains unclear. This study examined the evolution of root phenotypes from teosinte to maize, a transition resulting in …
View article: <i>In silico</i> analysis of the evolution of root phenotypes during maize domestication in Neolithic soils of Tehuacán
<i>In silico</i> analysis of the evolution of root phenotypes during maize domestication in Neolithic soils of Tehuacán Open
Summary Roots are essential for plant adaptation to changing environments, yet the role of roots in crop domestication remains unclear. This study examines the evolution of root phenotypes from teosinte to maize, a transition resulting in …
View article: Did crop domestication change the fitness landscape of root response to soil mechanical impedance? An <i>in silico</i> analysis
Did crop domestication change the fitness landscape of root response to soil mechanical impedance? An <i>in silico</i> analysis Open
Background and Aims Root axes with greater penetration ability are often considered to be beneficial in hard soils. We hypothesized that maize root phenotypes with greater plasticity (meaning reduced elongation in response to mechanical im…
View article: Exploring yield stability and the fitness landscape of maize landrace root phenotypes<i>in silico</i>
Exploring yield stability and the fitness landscape of maize landrace root phenotypes<i>in silico</i> Open
Integrated root phenotypes contribute to environmental adaptation and yield stability. We used the functional-structural plant/soil model OpenSimRoot_v2 to reconstruct the root phenotypes and environments of eight maize landraces to unders…
View article: Responses of root architectural and anatomical traits to low nitrogen stress in rice
Responses of root architectural and anatomical traits to low nitrogen stress in rice Open
Improving nitrogen use efficiency in rice would provide economic and environmental benefits, but little is known about root morphological and anatomical responses to low nitrogen. In this study, two sets of rice genotypes, one set from the…
View article: Integrating GWAS with a gene co‐expression network better prioritizes candidate genes associated with root metaxylem phenes in maize
Integrating GWAS with a gene co‐expression network better prioritizes candidate genes associated with root metaxylem phenes in maize Open
Root metaxylems are phenotypically diverse structures whose function is particularly important under drought stress. Significant research has dissected the genetic machinery underlying metaxylem phenotypes in dicots, but that of monocots a…
View article: Xylem perforation plate phenotypes affect water use and drought adaptation in maize (<i>Zea mays</i>L.)
Xylem perforation plate phenotypes affect water use and drought adaptation in maize (<i>Zea mays</i>L.) Open
Summary Rationale : Xylem morphology in annual monocots is important for water use strategies in many agronomically important species. Methods: We assess how xylem perforation plates affect water use strategies in maize ( Zea mays L.) thro…
View article: Cortical parenchyma wall width regulates root metabolic cost and maize performance under suboptimal water availability
Cortical parenchyma wall width regulates root metabolic cost and maize performance under suboptimal water availability Open
We describe how increased root cortical parenchyma wall width (CPW) can improve tolerance to drought stress in maize by reducing the metabolic costs of soil exploration. Significant variation (1.0–5.0 µm) for CPW was observed in maize germ…
View article: Root anatomy and biomechanical properties: improving predictions through root cortical and stele properties
Root anatomy and biomechanical properties: improving predictions through root cortical and stele properties Open
Purpose Quantifying the stability of individual plants or their contribution to soil reinforcement against erosion or landslides requires an understanding of the tensile properties of their roots. This work developed a new analytical model…
View article: Cortical cell size regulates root metabolic cost
Cortical cell size regulates root metabolic cost Open
SUMMARY It has been hypothesized that vacuolar occupancy in mature root cortical parenchyma cells regulates root metabolic cost and thereby plant fitness under conditions of drought, suboptimal nutrient availability, and increased soil mec…
View article: LEADER (Leaf Element Accumulation from DEep Roots): A nondestructive phenotyping platform to estimate rooting depth in the field
LEADER (Leaf Element Accumulation from DEep Roots): A nondestructive phenotyping platform to estimate rooting depth in the field Open
Deeper rooted crops are an avenue to increase plant water and nitrogen uptake under limiting conditions and increase long‐term soil carbon storage. Measuring rooting depth, however, is challenging due to the destructive, laborious, or impr…
View article: Location: root architecture structures rhizosphere microbial associations
Location: root architecture structures rhizosphere microbial associations Open
Root architectural phenotypes are promising targets for crop breeding, but root architectural effects on microbial associations in agricultural fields are not well understood. Architecture determines the location of microbial associations …
View article: A role for fermentation in aerobic conditions as revealed by computational analysis of maize root metabolism during growth by cell elongation
A role for fermentation in aerobic conditions as revealed by computational analysis of maize root metabolism during growth by cell elongation Open
SUMMARY The root is a well‐studied example of cell specialisation, yet little is known about the metabolism that supports the transport functions and growth of different root cell types. To address this, we used computational modelling to …
View article: Cortical parenchyma wall width (CPW) regulates root metabolic cost and maize performance under suboptimal water availability
Cortical parenchyma wall width (CPW) regulates root metabolic cost and maize performance under suboptimal water availability Open
We describe how increased root cortical parenchyma wall width (CPW) can improve tolerance to drought stress in maize by reducing the metabolic costs of soil exploration. Significant variation (1.0 to 5.0 µm) for CPW was observed within mai…
View article: Cortical cell size regulates root metabolic cost
Cortical cell size regulates root metabolic cost Open
It has been hypothesized that vacuolar occupancy in mature root cortical parenchyma cells regulates root metabolic cost and thereby plant fitness under conditions of drought, suboptimal nutrient availability, and soil mechanical impedance.…
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Issue Information Open
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View article: LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field Open
Deeper rooted crops are an avenue to increase plant water and nitrogen uptake under limiting conditions and increase long-term soil carbon storage. Measuring rooting depth, however, is challenging due to the destructive, laborious, or impr…
View article: LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field Open
Data and code for figure generation for LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
View article: LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field Open
Data and code for figure generation for LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
View article: LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field Open
Data and code for figure generation for LEADER (Leaf Element Accumulation from Deep Roots): a nondestructive phenotyping platform to estimate rooting depth in the field
View article: Large root cortical cells and reduced cortical cell files improve growth under suboptimal nitrogen in silico
Large root cortical cells and reduced cortical cell files improve growth under suboptimal nitrogen in silico Open
Suboptimal nitrogen availability is a primary constraint to plant growth. We used OpenSimRoot, a functional-structural plant/soil model, to test the hypothesis that larger root cortical cell size (CCS), reduced cortical cell file number (C…
View article: Transcription factor bHLH121 regulates root cortical aerenchyma formation in maize
Transcription factor bHLH121 regulates root cortical aerenchyma formation in maize Open
Root anatomical phenotypes present a promising yet underexploited avenue to deliver major improvements in yield and climate resilience of crops by improving water and nutrient uptake. For instance, the formation of root cortical aerenchyma…
View article: Influence of root cortical aerenchyma on the rhizosphere microbiome of field-grown maize
Influence of root cortical aerenchyma on the rhizosphere microbiome of field-grown maize Open
The root anatomical phenotype root cortical aerenchyma (RCA) decreases the metabolic cost of soil exploration and improves plant growth under drought and low soil fertility. RCA may also change the microenvironment of rhizosphere microorga…
View article: <i>RootSlice</i> —A novel functional‐structural model for root anatomical phenotypes
<i>RootSlice</i> —A novel functional‐structural model for root anatomical phenotypes Open
Root anatomy is an important determinant of root metabolic costs, soil exploration, and soil resource capture. Root anatomy varies substantially within and among plant species. RootSlice is a multicellular functional‐structural model of ro…
View article: In silico evidence for the utility of parsimonious root phenotypes for improved vegetative growth and carbon sequestration under drought
In silico evidence for the utility of parsimonious root phenotypes for improved vegetative growth and carbon sequestration under drought Open
Drought is a primary constraint to crop yields and climate change is expected to increase the frequency and severity of drought stress in the future. It has been hypothesized that crops can be made more resistant to drought and better able…