Evolving technologies for growing, imaging and analyzing 3D root system architecture of crop plants

Journal of Integrative Plant Biology

Volumn 58, Issue 3, 2016, Pages 230-241

  Piñeros, Miguel A ^a   Larson, Brandon G ^a   Shaff, Jon E ^a   Schneider, David J ^a   Falcão, Alexandre Xavier ^b   Yuan, Lixing ^c   Clark, Randy T ^a   Craft, Eric J ^a   Davis, Tyler W ^a   Pradier, Pierre Luc ^a   Shaw, Nathanael M ^a   Assaranurak, Ithipong ^d   Mccouch, Susan R ^d   Sturrock, Craig ^e   Bennett, Malcolm ^e,f   Kochian, Leon V ^a  

^a ROBERT W HOLLEY CENTER FOR AGRICULTURE AND HEALTH   (United States)

^b UNIVERSITY OF CAMPINAS   (Brazil)

^c CHINA AGRICULTURAL UNIVERSITY   (China)

^d Cornell University ^*  (United States)

^e UNIVERSITY OF NOTTINGHAM   (United Kingdom)

^f KING SAUD UNIVERSITY   (Saudi Arabia)

Author keywords

Abiotic stress; Digital root phenotyping; Mineral nutrition; Root system architecture

Indexed keywords

CROP PLANT; GENETIC ANALYSIS; GROWTH RATE; PHENOTYPE; PHYSIOLOGY; RHIZOSPHERE; ROOT SYSTEM; TECHNOLOGICAL DEVELOPMENT; THREE-DIMENSIONAL MODELING;

BACTERIAL POLYSACCHARIDE; GELLAN; SOIL;

ANATOMY AND HISTOLOGY; CROP; GENETICS; GENOTYPE; GROWTH, DEVELOPMENT AND AGING; HYDROPONICS; ORYZA; PLANT ROOT; PROCEDURES; SOIL; THREE DIMENSIONAL IMAGING; X-RAY COMPUTED TOMOGRAPHY;

CROPS, AGRICULTURAL; GENOTYPE; HYDROPONICS; IMAGING, THREE-DIMENSIONAL; ORYZA; PLANT ROOTS; POLYSACCHARIDES, BACTERIAL; SOIL; TOMOGRAPHY, X-RAY COMPUTED;

EID: 84962528541     PISSN: 16729072     EISSN: 17447909     Source Type: Journal    
DOI: 10.1111/jipb.12456     Document Type: Article

References (23)

1. Clark RT, MacCurdy RB, Jung JK, Shaff JE, McCouch SR, Aneshansley DJ, Kochian LV ( 2011) Three-dimensional root phenotyping with a novel imaging and software platform. Plant Physiol 156: 455-465
2. Courtois B, Audebert A, Dardou A, Roques S, Ghneim-Herrera T, Droc G, Frouin J, Rouan L, Goze E, Kilian A, Ahmadi N, Dingkuhn M ( 2013) Genome-wide association mapping of root traits in a japonica rice panel. PLoS ONE 8: e78037
3. de Dorlodot S, Forster B, Pages L, Price A, Tuberosa R, Draye X ( 2007) Root system architecture: Opportunities and constraints for genetic improvement of crops. Trends Plant Sci 12: 474-481
4. Downie H, Holden N, Otten W, Spiers AJ, Valentine TA, Dupuy LX ( 2012) Transparent soil for imaging the rhizosphere. PLoS ONE 7: e44276
5. Downie HF, Adu MO, Schmidt S, Otten W, Dupuy LX, White PJ, Valentine TA ( 2015) Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis. Plant Cell Environ 38: 1213-1232
6. Fiorani F, Schurr U ( 2013) Future scenarios for plant phenotyping. Annu Rev Plant Biol 64: 267-291
7. Kumar P, Cai JH, Miklavcic SJ ( 2015) A complete system for 3D reconstruction of roots for phenotypic analysis. Signal Image Anal Biomed Life Sci 823: 249-270
8. Laine S, Karras T ( 2011) Efficient Sparse Voxel Octrees. IEEE Trans Visual Comput Graphics 17: 1048-1059
9. Li XX, Zeng RS, Liao H ( 2016) Improving crop nutrient efficiency through root architecture modifications. J Integr Plant Biol 58. doi:10.1111/jipb.12434
10. Lynch JP ( 2007) Roots of the second green revolution. Aust J Bot 55: 493-512
11. Lynch JP ( 2011) Root phenes for enhanced soil exploration and phosphorus acquisition: Tools for future crops. Plant Physiol 156: 1041-1049
12. Magnavaca R, Gardner CO, Clark RB ( 1987) Evaluation of inbred maize lines for aluminum tolerance in nutrient solution. In: Gabelman HWLBC, ed. Genetic Aspects of Plant Mineral Nutrition. Martinus Nijhoff, Dordrecht, The Netherlands. pp. 255-265
13. Mairhofer S, Zappala S, Tracy SR, Sturrock C, Bennett M, Mooney SJ, Pridmore T ( 2012) RooTrak: Automated recovery of three-dimensional plant root architecture in soil from X-Ray microcomputed tomography images using visual tracking. Plant Physiol 158: 561-569
14. Munns R, Tester M ( 2008) Mechanisms of salinity tolerance. Annu Rev Plant Biol 59: 651-681
15. Otsu N ( 1979) A threshold selection method from gray-level histograms. IEEE Trans Syst Man Cybern Syst Humans 9: 62-66
16. Rousseau D, Dee H, Pridmore T ( 2015) Imaging Methods for Phenotyping of Plant Traits. In: Kumar J, Pratap A, Kumar S, eds. Phenomics in Crop Plants: Trends, Options and Limitations. Springer India. pp. 61-74
17. Steinberg SL, Kluitenberg GJ, Jones SB, Daidzic NE, Reddi LN, Xiao M, Tuller M, Newman RM, Or D, Alexander JID ( 2005) Physical and hydraulic properties of baked ceramic aggregates used for plant growth medium. J Am Soc Hort Sci 130: 767-774
18. Sturrock CJ, Woodhal J, Brown M, Walker C, Mooney SJ, Ray RV ( 2015) Effects of damping-off caused by Rhizoctonia solani anastomosis group 2-1 on roots of wheat and oil seed rape quantified using X-ray Computed Tomography and real-time PCR. Front Plant Sci 6: 461. doi: 10.3389/fpls.2015.00461
19. Tester M, Langridge P ( 2010) Breeding technologies to increase crop production in a changing world. Science 327: 818-822
20. Topp CN, Iyer-Pascuzzi AS, Anderson JT, Lee CR, Zurek PR, Symonova O, Zheng Y, Bucksch A, Mileyko Y, Galkovskyi T, Moore BT, Harer J, Edelsbrunner H, Mitchell-Olds T, Weitz JS, Benfey PN ( 2013) 3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture. Proc Natl Acad Sci USA 110: E1695-E1704
21. Uga Y, Kitomi Y, Ishikawa S, Yano M ( 2015) Genetic improvement for root growth angle to enhance crop production. Breed Sci 65: 111-119
22. van Bavel CHM, Lascano R, Wilson DR ( 1978) Water relations of fritted clay. Soil Sci Soc Am J 42: 657-659
23. Zhu JM, Ingram PA, Benfey PN, Elich T ( 2011) From lab to field, new approaches to phenotyping root system architecture. Curr Opin Plant Biol 14: 310-317