Bridging the Genotype to Phenotype Gap: Uncovering root anatomical, architectural and field traits.
Lead Research Organisation:
University of Nottingham
Department Name: Sch of Biosciences
Abstract
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Publications
Adu M
(2016)
Effects of rooting media on root growth and morphology of Brassica rapa seedlings
in South African Journal of Plant and Soil
Ajmera I
(2022)
Integrated root phenotypes for improved rice performance under low nitrogen availability.
in Plant, cell & environment
Atkinson J
(2017)
Ears, shoots and leaves.
in Nature plants
Atkinson JA
(2017)
An Updated Protocol for High Throughput Plant Tissue Sectioning.
in Frontiers in plant science
Atkinson JA
(2019)
Uncovering the hidden half of plants using new advances in root phenotyping.
in Current opinion in biotechnology
Atkinson JA
(2015)
Phenotyping pipeline reveals major seedling root growth QTL in hexaploid wheat.
in Journal of experimental botany
Atkinson JA
(2014)
Branching out in roots: uncovering form, function, and regulation.
in Plant physiology
Bagley SA
(2020)
Low-Cost Automated Vectors and Modular Environmental Sensors for Plant Phenotyping.
in Sensors (Basel, Switzerland)
Banda J
(2019)
Lateral Root Formation in Arabidopsis: A Well-Ordered LRexit.
in Trends in plant science
Bao Y
(2014)
Plant roots use a patterning mechanism to position lateral root branches toward available water.
in Proceedings of the National Academy of Sciences of the United States of America
Baral A
(2021)
External Mechanical Cues Reveal a Katanin-Independent Mechanism behind Auxin-Mediated Tissue Bending in Plants.
in Developmental cell
Bhosale R
(2018)
A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate.
in Nature communications
Chapman K
(2020)
CEP receptor signalling controls root system architecture in Arabidopsis and Medicago.
in The New phytologist
Davies WJ
(2015)
Achieving more crop per drop.
in Nature plants
De La Fuente Cantó C
(2020)
An extended root phenotype: the rhizosphere, its formation and impacts on plant fitness.
in The Plant journal : for cell and molecular biology
Giri J
(2018)
Rice auxin influx carrier OsAUX1 facilitates root hair elongation in response to low external phosphate.
in Nature communications
Griffiths M
(2022)
X-ray CT reveals 4D root system development and lateral root responses to nitrate in soil
in The Plant Phenome Journal
Huang G
(2022)
Ethylene inhibits rice root elongation in compacted soil via ABA- and auxin-mediated mechanisms.
in Proceedings of the National Academy of Sciences of the United States of America
Huang G
(2018)
Rice actin binding protein RMD controls crown root angle in response to external phosphate.
in Nature communications
Kenobi K
(2017)
Linear discriminant analysis reveals differences in root architecture in wheat seedlings related to nitrogen uptake efficiency.
in Journal of experimental botany
Mairhofer S
(2017)
X-Ray Computed Tomography of Crop Plant Root Systems Grown in Soil.
in Current protocols in plant biology
Mairhofer S
(2015)
Extracting multiple interacting root systems using X-ray microcomputed tomography
in The Plant Journal
Mairhofer S
(2015)
On the evaluation of methods for the recovery of plant root systems from X-ray computed tomography images.
in Functional plant biology : FPB
Mairhofer S
(2015)
Visual tracking for the recovery of multiple interacting plant root systems from X-ray $$\upmu $$ µ CT images
in Machine Vision and Applications
Morris EC
(2017)
Shaping 3D Root System Architecture.
in Current biology : CB
Orman-Ligeza B
(2018)
The Xerobranching Response Represses Lateral Root Formation When Roots Are Not in Contact With Water
in SSRN Electronic Journal
Orosa-Puente B
(2018)
Root branching toward water involves posttranslational modification of transcription factor ARF7.
in Science (New York, N.Y.)
Pandey BK
(2019)
A New Angle on How Roots Acclimate to Sporadic Rainfall.
in Cell
Pandey BK
(2021)
Plant roots sense soil compaction through restricted ethylene diffusion.
in Science (New York, N.Y.)
Passot S
(2016)
Characterization of Pearl Millet Root Architecture and Anatomy Reveals Three Types of Lateral Roots.
in Frontiers in plant science
Piñeros MA
(2016)
Evolving technologies for growing, imaging and analyzing 3D root system architecture of crop plants.
in Journal of integrative plant biology
Postma JA
(2017)
OpenSimRoot: widening the scope and application of root architectural models.
in The New phytologist
Reynolds M
(2021)
Addressing Research Bottlenecks to Crop Productivity.
in Trends in plant science
Scherzer S
(2017)
Insect haptoelectrical stimulation of Venus flytrap triggers exocytosis in gland cells.
in Proceedings of the National Academy of Sciences of the United States of America
Schoenaers S
(2018)
The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth.
in Current biology : CB
Schäfer E
(2022)
Modeling root loss reveals impacts on nutrient uptake and crop development
in Plant Physiology
Tardieu F
(2017)
Plant Phenomics, From Sensors to Knowledge.
in Current biology : CB
Von Wangenheim D
(2020)
Early developmental plasticity of lateral roots in response to asymmetric water availability.
in Nature plants
Von Wirén N
(2016)
Crosstalk between Gibberellin Signaling and Iron Uptake in Plants: An Achilles' Heel for Modern Cereal Varieties?
in Developmental Cell
Yang Z
(2020)
A mini foxtail millet with an Arabidopsis-like life cycle as a C4 model system
in Nature Plants
York LM
(2016)
The holistic rhizosphere: integrating zones, processes, and semantics in the soil influenced by roots.
in Journal of experimental botany
| Description | Relating the genetic make-up (genotype) to the shape and function (phenotype) of plants represents the major challenge to researchers over the next decade. Advances in plant phenotyping promise to 'bridge this gap'. • The USPA would promote the exchange of staff, expertise and facilities between the top US and UK labs pioneering the area of root phenotyping • US researchers gain access to the state-of-art microCT facility at Nottingham to non-invasively image root architecture in soil in 3/4D (see image below) • UK researchers gain access to the newly established, Laser Ablation Tomography system at Penn State uniquely able to image root anatomy in 3D |
| Exploitation Route | Academic route: our findings have obvious educational and agricultural value. Non-academic route: Our discovery provides the basis for researchers to design new strategies to manipulate plant growth and development |
| Sectors | Agriculture, Food and Drink,Education,Environment |
| URL | https://www.cpib.ac.uk/research/networks/bridging-the-genotype-to-phenotype-gap-uncovering-root-anatomical-architectural-and-field-traits/ |
| Description | Our program of UK-US staff exchanges, research workshops and training events involve sharing phenotyping expertise, datasets, software and access to state-of-the-art root imaging facilities. |
| First Year Of Impact | 2014 |
| Sector | Agriculture, Food and Drink,Education,Environment |
| Impact Types | Economic |
| Description | DEEPER |
| Amount | $7,000,000 (USD) |
| Funding ID | DE-AR0000821 |
| Organisation | U.S. Department of Energy |
| Sector | Public |
| Country | United States |
| Start | 07/2017 |
| End | 07/2021 |
| Description | Penn State University / University of Nottingham |
| Organisation | Penn State University |
| Department | Department of Plant Science |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | The University of Nottingham team have pioneered research on root development and non-invasive imaging of root architecture using X-ray microCT. The team have recently built a state-of-the-art root phenotyping platform (called the Hounsfield Facility after the Nottingham born Nobel prize winning inventor of CT, Sir Godfrey Hounsfield). The UK team provide expertise in molecular genetics, developmental biology and imaging of crop roots. |
| Collaborator Contribution | The Penn State University (PSU) team have pioneered research on field phenotyping of crop root architecture and anatomy. The PSU team have recently developed a state-of-the-art root phenotyping approach termed Laser Ablation Tomography (LAT). The PSU partner contribute expertise in crop root architecture and anatomical traits using their 'shovelomics' and 'anatomics' phenotyping pipelines and facilities. |
| Impact | The international partnering award between University of Nottingham (UoN) and US collaborators at Penn State University (PSU) has proved extremely productive. Highlights arising as a result our partnering award during the past 4 years include: 1. >20 student-staff exchanges between the UK & US teams* 2. 3 research workshops and scientific meetings relating to root phenotyping* 3. Major US and UK research awards include A. A joint $7 million ARPA-E research grant entitled DEEPER* B. An International Newton Award to UK, US & Asian partners* C. Joint equipment development (resulting in a BBSRC ALERT17 equipment award Grant Ref: BB/R013748/1)* 4. >10 co-authored papers/manuscripts published, in press, submitted or in preparation to high impact journals* (including Current Biology, New Phytologist and Nature Communications) 5. Staff secondments (Professor Jonathan Lynch has a 20% appointment at UoN) 6. Visit to UoN by PSU Senior Management (Feb 2018) to discuss strategic research opportunities between our Institutions. *Denotes interdisciplinary outputs involving maths, plant, crop, soil and computer sciences. |
| Start Year | 2014 |
| Description | SUMOcode: deciphering how SUMOylation enables plants to adapt to their environment (BB/V003534/1) |
| Organisation | Durham University |
| Department | School of Biological and Biomedical Sciences |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Plant Cell Biology, imaging and phenotyping |
| Collaborator Contribution | Durham brings SUMO expertise complementing our own organisation's plant cell biology and phenotyping expertise |
| Impact | sLOLA award just started |
| Start Year | 2021 |