skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Root system architecture in cereals: progress, challenges and perspective

Journal Article · · The Plant Journal
DOI:https://doi.org/10.1111/tpj.15669· OSTI ID:1876296
 [1];  [2];  [2]; ORCiD logo [3]; ORCiD logo [4];  [5]
  1. Quaid‐i‐Azam University Islamabad (Pakistan)
  2. Chinese Academy of Agricultural Sciences, Beijing (China)
  3. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  4. Quaid‐i‐Azam University Islamabad (Pakistan); Chinese Academy of Agricultural Sciences, Beijing (China); International Wheat and Maize Improvement Center (CIMMYT), Beijing (China)
  5. Chinese Academy of Agricultural Sciences, Beijing (China); International Wheat and Maize Improvement Center (CIMMYT), Beijing (China)

SUMMARY Roots are essential multifunctional plant organs involved in water and nutrient uptake, metabolite storage, anchorage, mechanical support, and interaction with the soil environment. Understanding of this ‘hidden half’ provides potential for manipulation of root system architecture (RSA) traits to optimize resource use efficiency and grain yield in cereal crops. Unfortunately, root traits are highly neglected in breeding due to the challenges of phenotyping, but could have large rewards if the variability in RSA traits can be fully exploited. Until now, a plethora of genes have been characterized in detail for their potential role in improving RSA. The use of forward genetics approaches to find sequence variations in genes underpinning desirable RSA would be highly beneficial. Advances in computer vision applications have allowed image‐based approaches for high‐throughput phenotyping of RSA traits that can be used by any laboratory worldwide to make progress in understanding root function and dissection of the genetics. At the same time, the frontiers of root measurement include non‐invasive methods like X‐ray computer tomography and magnetic resonance imaging that facilitate new types of temporal studies. Root physiology and ecology are further supported by spatiotemporal root simulation modeling. The discovery of component traits providing improved resilience and yield advantage in target environments is a key necessity for mainstreaming root‐based cereal breeding. The integrated use of pan‐genome resources, now available in most cereals, coupled with new in‐field phenotyping platforms has the potential for precise selection of superior genotypes with improved RSA.

Research Organization:
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER); National Natural Science Foundation of China (NSFC); Pakistan Science Foundation; Indigenous Fellowship Program of Higher Education Commission (HEC)
Grant/Contract Number:
AC05-00OR22725; 31961143007; PSF-NSFC III/Agr/C-QAU (16); 31950410563
OSTI ID:
1876296
Alternate ID(s):
OSTI ID: 1846327
Journal Information:
The Plant Journal, Vol. 110, Issue 1; ISSN 0960-7412
Publisher:
Society for Experimental BiologyCopyright Statement
Country of Publication:
United States
Language:
English

References (192)

A dual porosity model of nutrient uptake by root hairs journal August 2011
Quantitative 3D Analysis of Plant Roots Growing in Soil Using Magnetic Resonance Imaging journal January 2016
The WUSCHEL-Related Homeobox Gene WOX11 Is Required to Activate Shoot-Borne Crown Root Development in Rice journal March 2009
OsIAA13-mediated auxin signaling is involved in lateral root initiation in rice journal July 2012
DRO1 influences root system architecture in Arabidopsis and Prunus species journal March 2017
Expression and responses to dehydration and salinity stresses of V-PPase gene members in wheat journal December 2009
GrowScreen-PaGe, a non-invasive, high-throughput phenotyping system based on germination paper to quantify crop phenotypic diversity and plasticity of root traits under varying nutrient supply journal January 2017
Functional phenomics and genetics of the root economics space in winter wheat using high‐throughput phenotyping of respiration and architecture journal April 2021
Closing yield gaps through nutrient and water management journal August 2012
Quantitative trait loci analysis of root traits under phosphorus deficiency at the seedling stage in wheat journal March 2018
Overexpression of wheat gene TaMOR improves root system architecture and grain yield in Oryza sativa journal May 2016
Challenges of modifying root traits in crops for agriculture journal December 2014
Optimizing soil-coring strategies to quantify root-length-density distribution in field-grown maize: virtual coring trials using 3-D root architecture models journal November 2017
Designer Roots for Future Crops journal November 2018
Functional phenomics: an emerging field integrating high-throughput phenotyping, physiology, and bioinformatics journal October 2018
Observing plant roots in their environment: current imaging options and specific contribution of two-dimensional approaches journal July 2003
A root-specific wall-associated kinase gene, HvWAK1, regulates root growth and is highly divergent in barley and other cereals journal February 2013
LEAF TIP NECROSIS1 Plays a Pivotal Role in the Regulation of Multiple Phosphate Starvation Responses in Rice     journal February 2011
Comparison of Soil Coring and Ingrowth Methods for Measuring Belowground Production journal October 1992
OsAUX1 controls lateral root initiation in rice ( O ryza sativa  L.) : OsAUX1 controlling lateral root initiation journal January 2015
Maize brace roots provide stalk anchorage journal November 2020
The roots of a new green revolution journal November 2010
Yield Trends Are Insufficient to Double Global Crop Production by 2050 journal June 2013
Three-Dimensional Root Phenotyping with a Novel Imaging and Software Platform journal March 2011
The YUCCA-Auxin-WOX11 Module Controls Crown Root Development in Rice journal April 2018
Low Crown Root Number Enhances Nitrogen Acquisition from Low-Nitrogen Soils in Maize journal April 2014
Rhizoslides: paper-based growth system for non-destructive, high throughput phenotyping of root development by means of image analysis journal January 2014
The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling: CRL5 is involved in crown root initiation in rice journal May 2011
Drought Response in Wheat: Key Genes and Regulatory Mechanisms Controlling Root System Architecture and Transpiration Efficiency journal December 2017
OsIAA23-mediated auxin signaling defines postembryonic maintenance of QC in rice: Postembryonic maintenance of QC in rice journal August 2011
Adventitious Roots and Lateral Roots: Similarities and Differences journal April 2014
Getting to the roots of it: Genetic and hormonal control of root architecture journal January 2013
Wheat root system architecture and soil moisture distribution in an aggregated soil using neutron computed tomography journal February 2020
Crown rootless1 , Which Is Essential for Crown Root Formation in Rice, Is a Target of an AUXIN RESPONSE FACTOR in Auxin Signaling journal April 2005
An Al-inducible expansin gene, OsEXPA10 is involved in root cell elongation of rice journal September 2016
Overexpression of the Wheat Expansin Gene TaEXPA2 Improved Seed Production and Drought Tolerance in Transgenic Tobacco Plants journal April 2016
Deeper roots associated with cooler canopies, higher normalized difference vegetation index, and greater yield in three wheat populations grown on stored soil water journal May 2019
Deep rooting conferred by DEEPER ROOTING 1 enhances rice yield in paddy fields journal July 2014
Identification of a novel mitochondrial protein, short postembryonic roots 1 (SPR1), involved in root development and iron homeostasis in Oryza sativa journal October 2010
Developmental Responses to Water and Salinity in Root Systems journal October 2019
The maize (Zea mays L.) RTCS gene encodes a LOB domain protein that is a key regulator of embryonic seminal and post-embryonic shoot-borne root initiation: Map-based cloning of the maize RTCS gene journal April 2007
TaARF4 genes are linked to root growth and plant height in wheat journal December 2018
Exploiting natural variation in root system architecture via genome-wide association studies journal January 2020
Constitutively wilted 1, a member of the rice YUCCA gene family, is required for maintaining water homeostasis and an appropriate root to shoot ratio journal July 2007
RhizoVision Crown: An Integrated Hardware and Software Platform for Root Crown Phenotyping journal February 2020
A dynamic model of nutrient uptake by root hairs journal December 2009
Brassinosteroid signaling in plant development and adaptation to stress journal March 2019
Accelerating root system phenotyping of seedlings through a computer-assisted processing pipeline journal July 2017
Rice Homeodomain Protein WOX11 Recruits a Histone Acetyltransferase Complex to Establish Programs of Cell Proliferation of Crown Root Meristem journal May 2017
Peptidyl-prolyl isomerization targets rice Aux/IAAs for proteasomal degradation during auxin signalling journal June 2015
Can Changes in Canopy and/or Root System Architecture Explain Historical Maize Yield Trends in the U.S. Corn Belt? journal January 2009
High-throughput phenotyping of seminal root traits in wheat journal January 2015
A plant root system architectural taxonomy: A framework for root nomenclature journal June 2010
High-throughput phenotyping technology for maize roots journal September 2011
Adventitious root formation in rice requires OsGNOM1 and is mediated by the OsPINs family journal June 2009
Pavon 76 Bread Wheat–Rye Translocations Improve Field Root Biomass Production under Diverse Nitrogen Management Systems journal July 2015
Genetic Control of Lateral Root Formation in Cereals journal November 2016
Over-expression of TaEXPB23, a wheat expansin gene, improves oxidative stress tolerance in transgenic tobacco plants journal January 2015
Genetic Screening for Mutants with Altered Seminal Root Numbers in Hexaploid Wheat Using a High-Throughput Root Phenotyping Platform journal September 2019
Plasticity of the Arabidopsis Root System under Nutrient Deficiencies journal July 2013
Altered expression of Ta RSL 4 gene by genome interplay shapes root hair length in allopolyploid wheat journal September 2015
Spatial distribution of maize roots by complete 3D soil monolith sampling journal September 2008
Evolving technologies for growing, imaging and analyzing 3D root system architecture of crop plants: Digital phenotyping of root system architecture journal March 2016
Formin homology 1 (OsFH1) regulates root-hair elongation in rice (Oryza sativa) journal January 2013
Relationship between Root Growth Angle of Seedlings and Vertical Distribution of Roots in the Field in Wheat Cultivars. journal January 1993
QTL for root angle and number in a population developed from bread wheats (Triticum aestivum) with contrasting adaptation to water-limited environments journal March 2013
Genomic Regions Influencing Seminal Root Traits in Barley journal March 2016
The rice FISH BONE gene encodes a tryptophan aminotransferase, which affects pleiotropic auxin-related processes journal June 2014
Soil strength influences wheat root interactions with soil macropores journal August 2019
Winter wheat cultivars and nitrogen (N) fertilization—Effects on root growth, N uptake efficiency and N use efficiency journal August 2015
Wheat root systems as a breeding target for climate resilience journal April 2021
Root Traits and Phenotyping Strategies for Plant Improvement journal June 2015
Legume shovelomics: High—Throughput phenotyping of common bean (Phaseolus vulgaris L.) and cowpea (Vigna unguiculata subsp, unguiculata) root architecture in the field journal June 2016
Editorial: Crop Breeding for Drought Resistance journal March 2019
The use of PET/CT scanning technique for 3D visualization and quantification of real-time soil/plant interactions journal September 2011
A wheat phenotyping network to incorporate physiological traits for climate change in South Asia journal November 2014
Characterization of QTLs for Root Traits of Wheat Grown under Different Nitrogen and Phosphorus Supply Levels journal December 2017
Quantitative trait loci analysis for root traits in synthetic hexaploid wheat under drought stress conditions journal August 2020
Temperature responses of roots: impact on growth, root system architecture and implications for phenotyping journal January 2009
Selection in Early Generations to Shift Allele Frequency for Seminal Root Angle in Wheat journal July 2018
A Semidwarf Phenotype of Barley uzu Results from a Nucleotide Substitution in the Gene Encoding a Putative Brassinosteroid Receptor journal October 2003
Introgression of Novel Traits from a Wild Wheat Relative Improves Drought Adaptation in Wheat   journal February 2013
A Deep Learning-Based Phenotypic Analysis of Rice Root Distribution from Field Images journal October 2020
Roots Withstanding their Environment: Exploiting Root System Architecture Responses to Abiotic Stress to Improve Crop Tolerance journal August 2016
LAZY Genes Mediate the Effects of Gravity on Auxin Gradients and Plant Architecture journal August 2017
Overexpression of OsEXPA8, a Root-Specific Gene, Improves Rice Growth and Root System Architecture by Facilitating Cell Extension journal October 2013
A major QTL controlling deep rooting on rice chromosome 4 journal October 2013
A Proteomics Approach to Investigating Promotive Effects of Brassinolide on Lamina Inclination and Root Growth in Rice Seedlings. journal January 2003
Wheat Brassinosteroid-Insensitive1 (TaBRI1) Interacts with Members of TaSERK Gene Family and Cause Early Flowering and Seed Yield Enhancement in Arabidopsis journal June 2016
Computer vision and machine learning enabled soybean root phenotyping pipeline journal January 2020
Control of root system architecture by DEEPER ROOTING 1 increases rice yield under drought conditions journal August 2013
Developing X-ray Computed Tomography to non-invasively image 3-D root systems architecture in soil journal November 2011
Digital imaging of root traits (DIRT): a high-throughput computing and collaboration platform for field-based root phenomics journal November 2015
Spreading Dead Zones and Consequences for Marine Ecosystems journal August 2008
Changes in durum wheat root and aerial biomass caused by the introduction of the Rht-B1b dwarfing allele and their effects on yield formation journal January 2016
Involvement of Brassinosteroids in the Gravitropic Response of Primary Root of Maize journal July 2000
Capturing Arabidopsis Root Architecture Dynamics with root-fit Reveals Diversity in Responses to Salinity     journal September 2014
TAA1-Mediated Auxin Biosynthesis Is Essential for Hormone Crosstalk and Plant Development journal April 2008
Root System Architecture and Abiotic Stress Tolerance: Current Knowledge in Root and Tuber Crops journal November 2016
QTL mapping and epistasis analysis of brace root traits in maize journal October 2011
The protein kinase Pstol1 from traditional rice confers tolerance of phosphorus deficiency journal August 2012
A toolkit to rapidly modify root systems through single plant selection journal January 2022
Molecular cloning of a root hairless gene rth1 in rice journal January 2009
Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy journal January 2014
An online database for plant image analysis software tools journal January 2013
3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture journal April 2013
Stimulation of root hair elongation in Arabidopsis thaliana by low phosphorus availability journal May 1996
Regulation of plant root system architecture: implications for crop advancement journal April 2015
QTLs associated with root traits increase yield in upland rice when transferred through marker-assisted selection journal September 2012
Genetic effect of dwarfing gene Rht13 compared with Rht-D1b on plant height and some agronomic traits in common wheat (Triticum aestivum L.) journal June 2014
Breeding crop plants with deep roots: their role in sustainable carbon, nutrient and water sequestration journal August 2011
RADIX: rhizoslide platform allowing high throughput digital image analysis of root system expansion journal September 2016
Root phenotypes for improved nutrient capture: an underexploited opportunity for global agriculture journal March 2019
Plant roots use a patterning mechanism to position lateral root branches toward available water journal June 2014
The rice narrow leaf2 and narrow leaf3 loci encode WUSCHEL ‐related homeobox 3 A ( O s WOX 3 A ) and function in leaf, spikelet, tiller and lateral root development journal April 2013
Shovelomics: high throughput phenotyping of maize (Zea mays L.) root architecture in the field journal November 2010
Long-term deep-supercooling of large-volume water and red cell suspensions via surface sealing with immiscible liquids journal August 2018
Root hair-specific EXPANSIN B genes have been selected for graminaceae root hairs journal August 2010
Genomic regions responsible for seminal and crown root lengths identified by 2D & 3D root system image analysis journal April 2018
Root hair-specific expansins modulate root hair elongation in rice: Rice root hair elongation requires expansins journal March 2011
Soil coring at multiple field environments can directly quantify variation in deep root traits to select wheat genotypes for breeding journal June 2014
Identification of QTLs associated with seedling root traits and their correlation with plant height in wheat journal February 2013
Roothairless5 , which functions in maize ( Zea mays L.) root hair initiation and elongation encodes a monocot-specific NADPH oxidase journal July 2014
Genetic Control of Root System Development in Maize journal January 2018
Overexpression of Rice NAC Gene SNAC1 Improves Drought and Salt Tolerance by Enhancing Root Development and Reducing Transpiration Rate in Transgenic Cotton journal January 2014
TaNAC69 from the NAC superfamily of transcription factors is up-regulated by abiotic stresses in wheat and recognises two consensus DNA-binding sequences journal January 2006
Prioritizing quantitative trait loci for root system architecture in tetraploid wheat journal February 2016
Evaluation of deep root phenotyping techniques in tube rhizotrons journal July 2018
Genotypic Variation in Root Growth Angle in Rice (Oryza sativa L.) and its Association with Deep Root Development in Upland Fields with Different Water Regimes journal September 2006
Regulation of the α-expansin gene OsEXPA8 expression affects root system architecture in transgenic rice plants journal January 2014
Detection of quantitative trait loci for seminal root traits in maize (Zea mays L.) seedlings grown under differential phosphorus levels journal May 2006
Can smart nutrient applications optimize the plant's hidden half to improve drought resistance? journal January 2021
Root morphology and photosynthetic performance of maize inbred lines at low temperature journal July 2007
Three genomes differentially contribute to the seedling lateral root number in allohexaploid wheat: evidence from phenotype evolution and gene expression journal July 2018
Major quantitative trait loci for seminal root morphology of wheat seedlings journal June 2011
Food: An underground revolution journal July 2010
Variation Analysis of Root System Development in Wheat Seedlings Using Root Phenotyping System journal February 2020
Root length densities of UK wheat and oilseed rape crops with implications for water capture and yield journal March 2015
Imaging and Analysis Platform for Automatic Phenotyping and Trait Ranking of Plant Root Systems journal January 2010
A PIN1 Family Gene, OsPIN1, involved in Auxin-dependent Adventitious Root Emergence and Tillering in Rice journal October 2005
Evolution of US maize (Zea mays L.) root architectural and anatomical phenes over the past 100 years corresponds to increased tolerance of nitrogen stress journal March 2015
Root System Architecture and Its Association with Yield under Different Water Regimes in Durum Wheat journal August 2018
A high throughput robot system for machine vision based plant phenotype studies journal June 2012
Root phenotyping: from component trait in the lab to breeding: Table 1. journal June 2015
Regulation of Root Hair Initiation and Expansin Gene Expression in Arabidopsis journal November 2002
OsNAC5 overexpression enlarges root diameter in rice plants leading to enhanced drought tolerance and increased grain yield in the field journal October 2012
Growth of axile and lateral roots of maize: I development of a phenotying platform journal April 2009
Characterization of Pearl Millet Root Architecture and Anatomy Reveals Three Types of Lateral Roots journal June 2016
GROWSCREEN-Rhizo is a novel phenotyping robot enabling simultaneous measurements of root and shoot growth for plants grown in soil-filled rhizotrons journal January 2012
Public-domain software for root image analysis journal October 2014
Three-dimensional architecture of axile roots of field-grown maize journal October 2014
A zinc finger protein, interacted with cyclophilin, affects root development via IAA pathway in rice journal May 2017
Evolution of Deeper Rooting 1-like homoeologs in wheat entails the C-terminus mutations as well as gain and loss of auxin response elements journal April 2019
Cooperative action of the paralogous maize lateral organ boundaries (LOB) domain proteins RTCS and RTCL in shoot‐borne root formation journal April 2015
Auxin distribution is differentially affected by nitrate in roots of two rice cultivars differing in responsiveness to nitrogen journal October 2013
Recognizing the hidden half in wheat: root system attributes associated with drought tolerance journal March 2021
Over-expression of OsPIN2 leads to increased tiller numbers, angle and shorter plant height through suppression of OsLAZY1: Auxin efflux transporter gene OsPIN2 journal July 2011
Ror2 signaling regulates Golgi structure and transport through IFT20 for tumor invasiveness journal January 2017
Genome-wide association mapping in a diverse spring barley collection reveals the presence of QTL hotspots and candidate genes for root and shoot architecture traits at seedling stage journal May 2019
Barley genotypes with long root hairs sustain high grain yields in low-P field journal May 2004
RhizoVision Explorer: Open-source software for root image analysis and measurement standardization journal September 2021
Next generation shovelomics: set up a tent and REST journal February 2015
Novel QTLs for growth angle of seminal roots in wheat (Triticum aestivum L.) journal December 2011
The maize (Zea mays L.) roothairless3 gene encodes a putative GPI-anchored, monocot-specific, COBRA-like protein that significantly affects grain yield journal June 2008
The LATERAL ROOT DENSITY gene regulates root growth during water stress in wheat journal February 2020
E3 ubiquitin ligase SOR1 regulates ethylene response in rice root by modulating stability of Aux/IAA protein journal April 2018
Phenotyping pipeline reveals major seedling root growth QTL in hexaploid wheat journal March 2015
From weeds to crops: genetic analysis of root development in cereals journal January 2004
LARGE ROOT ANGLE1, encoding OsPIN2, is involved in root system architecture in rice journal December 2017
RhizoTubes as a new tool for high throughput imaging of plant root development and architecture: test, comparison with pot grown plants and validation journal June 2016
Influence of extreme weather disasters on global crop production journal January 2016
An automated, cost-effective and scalable, flood-and-drain based root phenotyping system for cereals journal June 2016
From promise to application: root traits for enhanced nutrient capture in rice breeding journal April 2016
Homeobox transcription factor OsZHD2 promotes root meristem activity in rice by inducing ethylene biosynthesis journal May 2020
A method to separate plant roots from soil and analyze root surface area journal December 2004
Root hair development in grasses and cereals (Poaceae) journal August 2017
VERNALIZATION1 Modulates Root System Architecture in Wheat and Barley journal January 2018
Genetic diversity of root system architecture in response to drought stress in grain legumes journal March 2018
Root anatomical phenes associated with water acquisition from drying soil: targets for crop improvement journal April 2014
Development of a phenotyping platform for high throughput screening of nodal root angle in sorghum journal July 2017
Genetic Dissection of Root System Architectural Traits in Spring Barley journal April 2019
Cold tolerance of maize seedlings as determined by root morphology and photosynthetic traits journal April 2008
Auxin response, but not its polar transport, plays a role in hydrotropism of Arabidopsis roots journal January 2007
Root plasticity under abiotic stress journal August 2021
Harnessing root architecture to address global challenges journal November 2021
Developing X-ray Computed Tomography to non-invasively image 3-D root systems architecture in soil journal November 2011
OsDGL1, a Homolog of an Oligosaccharyltransferase Complex Subunit, is Involved in N-Glycosylation and Root Development in Rice journal December 2012
The importance of cereals (Poaceae: Gramineae) nutrition in human health: A review [English] journal June 2013
Genetic Variability and Control of Nodal Root Angle in Sorghum journal September 2011
Shovelomics: high throughput phenotyping of maize (Zea mays L.) root architecture in the field journal November 2010
Functional analysis of the OsNPF4.5 nitrate transporter reveals a conserved mycorrhizal pathway of nitrogen acquisition in plants journal June 2020
Root hair-specific expansins modulate root hair elongation in rice: Rice root hair elongation requires expansins journal March 2011

Similar Records

Root angle is controlled by EGT1 in cereal crops employing an antigravitropic mechanism
Journal Article · Tue Jul 26 00:00:00 EDT 2022 · Proceedings of the National Academy of Sciences of the United States of America · OSTI ID:1876296

GENOME ENABLED MODIFICATION OF POPLAR ROOT DEVELOPMENT FOR INCREASED CARBON SEQUESTRATION
Technical Report · Tue Mar 05 00:00:00 EST 2013 · OSTI ID:1876296

Identification of genetic and environmental factors influencing aerial root traits that support biological nitrogen fixation in sorghum
Journal Article · Thu Dec 14 00:00:00 EST 2023 · G3 · OSTI ID:1876296