Citation: | WU P P, TANG Z Z, YANG L, et al. Visualization of Rice Root System by 3D Modeling: A Review [J]. Fujian Journal of Agricultural Sciences,2021,36(8):972−980 doi: 10.19303/j.issn.1008-0384.2021.08.015 |
[1] |
SAMYOR D, DAS A B, DEKA S C. Pigmented rice a potential source of bioactive compounds: A review [J]. International Journal of Food Science & Technology, 2017, 52(5): 1073−1081.
|
[2] |
SMITH S, DE SMET I. Root system architecture: Insights from Arabidopsis and cereal crops [J]. Philosophical Transactions of the Royal Society B: Biological Sciences, 2012, 367(1595): 1441−1452. doi: 10.1098/rstb.2011.0234
|
[3] |
KRESZIES T, SCHREIBER L, RANATHUNGE K. Suberized transport barriers in Arabidopsis, barley and rice roots: From the model plant to crop species [J]. Journal of Plant Physiology, 2018, 227: 75−83. doi: 10.1016/j.jplph.2018.02.002
|
[4] |
赵春江, 陆声链, 郭新宇, 等. 数字植物研究进展: 植物形态结构三维数字化 [J]. 中国农业科学, 2015, 48(17):3415−3428. doi: 10.3864/j.issn.0578-1752.2015.17.009
ZHAO C J, LU S L, GUO X Y, et al. Advances in research of digital plant: 3D digitization of plant morphological structure [J]. Scientia Agricultura Sinica, 2015, 48(17): 3415−3428.(in Chinese) doi: 10.3864/j.issn.0578-1752.2015.17.009
|
[5] |
黄伟. 基于植物生长过程仿真的虚拟植物建模研究[D]. 重庆: 重庆大学, 2011.
HUANG W. Study on growth modeling of virtual plant based on simulation of growth process[D]. Chongqing: Chongqing University, 2011. (in Chinese).
|
[6] |
温维亮, 郭新宇, 赵春江, 等. 作物根系构型三维探测与重建方法研究进展 [J]. 中国农业科学, 2015, 48(3):436−448. doi: 10.3864/j.issn.0578-1752.2015.03.04
WEN W L, GUO X Y, ZHAO C J, et al. Crop roots configuration and visualization: A review [J]. Scientia Agricultura Sinica, 2015, 48(3): 436−448.(in Chinese) doi: 10.3864/j.issn.0578-1752.2015.03.04
|
[7] |
尤号田, 邢艳秋, 彭涛, 等. LiDAR不同强度校正法对樟子松叶面积指数估测的影响 [J]. 测绘学报, 2018, 47(2):170−179. doi: 10.11947/j.AGCS.2018.20170515
YOU H T, XING Y Q, PENG T, et al. Effects of different LiDAR intensity normalization methods on Scotch pine forest leaf area index estimation [J]. Acta Geodaetica et Cartographica Sinica, 2018, 47(2): 170−179.(in Chinese) doi: 10.11947/j.AGCS.2018.20170515
|
[8] |
梁欢, 顾庆毅. 一种基于结构光的运动补偿3D测量方法: CN106595502A[P]. 2017-04-26.
|
[9] |
周静静, 郭新宇, 吴升, 等. 基于多视角图像的植物三维重建研究进展 [J]. 中国农业科技导报, 2019, 21(2):9−18.
ZHOU J J, GUO X Y, WU S, et al. Research progress on plant three-dimensional reconstruction based on multi-view images [J]. Journal of Agricultural Science and Technology, 2019, 21(2): 9−18.(in Chinese)
|
[10] |
翁杨, 曾睿, 吴陈铭, 等. 基于深度学习的农业植物表型研究综述 [J]. 中国科学: 生命科学, 2019, 49(6):698−716. doi: 10.1360/SSV-2019-0020
WENG Y, ZENG R, WU C M, et al. A survey on deep-learning-based plant phenotype research in agriculture [J]. Scientia Sinica (Vitae), 2019, 49(6): 698−716.(in Chinese) doi: 10.1360/SSV-2019-0020
|
[11] |
DIEVART A, COUDERT Y, GANTET P, et al. Dissecting the biological bases of traits of interest in rice: Architecture and development of the root system [J]. Cahiers Agricultures, 2013, 22(5): 475−483. doi: 10.1684/agr.2013.0651
|
[12] |
STEFANELLI D, FRIDMAN Y, PERRY RL. DigiRootTM: New software for root studies [J]. European Journal of Horticultural Science, 2009, 74(4). doi: 10.2307/24126478
|
[13] |
DELORY B M, BAUDSON C, BROSTAUX Y, et al. archiDART: an R package for the automated computation of plant root architectural traits [J]. Plant and Soil, 2016, 398(1/2): 351−365.
|
[14] |
GONZÁLEZ A, SEVILLANO X, BETEGÓN-PUTZE I, et al. MyROOT 2.0: An automatic tool for high throughput and accurate primary root length measurement [J]. Computers and Electronics in Agriculture, 2020, 168: 105125. doi: 10.1016/j.compag.2019.105125
|
[15] |
TRACHSEL S, KAEPPLER S M, BROWN K M, et al. Shovelomics: high throughput phenotyping of maize (Zea mays L.) root architecture in the field [J]. Plant and Soil, 2011, 341(1/2): 75−87.
|
[16] |
胡琪娟, 王霖娇, 盛茂银. 植物细根生产和周转研究进展 [J]. 世界林业研究, 2019, 32(2):29−34.
HU Q J, WANG L J, SHENG M Y. Research progress of plant fine root production and turnover [J]. World Forestry Research, 2019, 32(2): 29−34.(in Chinese)
|
[17] |
管建慧, 郭新宇, 王纪华, 等. 玉米不同部位根系生长发育规律的研究 [J]. 玉米科学, 2007, 15(6):82−85, 88. doi: 10.3969/j.issn.1005-0906.2007.06.019
GUAN J H, GUO X Y, WANG J H, et al. Study on growth and development rule of different parts of maize root [J]. Journal of Maize Sciences, 2007, 15(6): 82−85, 88.(in Chinese) doi: 10.3969/j.issn.1005-0906.2007.06.019
|
[18] |
WU J, GUO Y. An integrated method for quantifying root architecture of field-grown maize [J]. Annals of Botany, 2014, 114(4): 841−851. doi: 10.1093/aob/mcu009
|
[19] |
杨乐, 彭军, 杨红云, 等. 基于微分L-系统的水稻根系三维生长模型研究 [J]. 农业机械学报, 2019, 50(10):208−214. doi: 10.6041/j.issn.1000-1298.2019.10.023
YANG L, PENG J, YANG H Y, et al. Three dimensional growth modeling of rice root based on differential L-system [J]. Transactions of the Chinese Society for Agricultural Machinery, 2019, 50(10): 208−214.(in Chinese) doi: 10.6041/j.issn.1000-1298.2019.10.023
|
[20] |
牛学礼, 南志标. 运用微根管技术研究草地植物细根的进展 [J]. 草业学报, 2017, 26(11):205−215. doi: 10.11686/cyxb2017041
NIU X L, NAN Z B. Review of minirhizotron applications for study of fine roots in grassland [J]. Acta Prataculturae Sinica, 2017, 26(11): 205−215.(in Chinese) doi: 10.11686/cyxb2017041
|
[21] |
YANG L, WU P P, YANG S Y, et al. Research on the construction and visualization of a three-dimensional model of rice root growth [J]. Applied Engineering in Agriculture, 2020, 36(6): 847−857. doi: 10.13031/aea.13543
|
[22] |
HAN T H, KUO Y F. Developing a system for three-dimensional quantification of root traits of rice seedlings [J]. Computers and Electronics in Agriculture, 2018, 152: 90−100. doi: 10.1016/j.compag.2018.07.001
|
[23] |
FANG S Q, YAN X L, LIAO H. 3D reconstruction and dynamic modeling of root architecture in situ and its application to crop phosphorus research [J]. The Plant Journal, 2009, 60(6): 1096−1108. doi: 10.1111/j.1365-313X.2009.04009.x
|
[24] |
ROGERS E D, MONAENKOVA D, MIJAR M, et al. X-ray computed tomography reveals the response of root system architecture to soil texture [J]. Plant Physiology, 2016, 171(3): 2028−2040. doi: 10.1104/pp.16.00397
|
[25] |
TERAMOTO S, TAKAYASU S, KITOMI Y, et al. High-throughput three-dimensional visualization of root system architecture of rice using X-ray computed tomography [J]. Plant Methods, 2020, 16: 66. doi: 10.1186/s13007-020-00612-6
|
[26] |
GERTH S, CLAUßEN J, EGGERT A, et al. Semiautomated 3D root segmentation and evaluation based on X-ray CT imagery [J]. Plant Phenomics, 2021, 2021: 1−13.
|
[27] |
向子云, 罗锡文, 周学成, 等. 多层螺旋CT三维成像技术观测植物根系的实验研究 [J]. CT理论与应用研究, 2006, 15(3):1−5. doi: 10.3969/j.issn.1004-4140.2006.03.001
XIANG Z Y, LUO X W, ZHOU X C, et al. Experimental study on observation of original shape of crop root system with multi helical CT technology [J]. Computerized Tomography Theory and Applications, 2006, 15(3): 1−5.(in Chinese) doi: 10.3969/j.issn.1004-4140.2006.03.001
|
[28] |
周学成, 罗锡文, 严小龙, 等. 基于遗传算法的原位根系CT图像的模糊阈值分割 [J]. 中国图象图形学报, 2009, 14(4):681−687. doi: 10.11834/jig.20090418
ZHOU X C, LUO X W, YAN X L, et al. A fuzzy thresholding segmentation for plant root CT images based on genetic algorithm [J]. Journal of Image and Graphics, 2009, 14(4): 681−687.(in Chinese) doi: 10.11834/jig.20090418
|
[29] |
TOPP C N, IYER-PASCUZZI A S, ANDERSON J T, et al. 3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture [J]. PNAS, 2013, 110(18): E1695−E1704. doi: 10.1073/pnas.1304354110
|
[30] |
KUTSAHERA L. Wurzelatlas mitteleuropaischer ackerunkrauter und kulturpflanzen [J]. Economic Botany, 1963, 17(2): 158−159. doi: 10.2307/4252435
|
[31] |
PAGÈS L, VERCAMBRE G, DROUET J L, et al. Root Typ: A generic model to depict and analyse the root system architecture [J]. Plant and Soil, 2004, 258(1): 103−119. doi: 10.1023/B:PLSO.0000016540.47134.03
|
[32] |
PAGES L, MOREAU D, SARLIKIOTI V, et al. ArchiSimple: A parsimonious model of the root system architecture[C]. //Plant Growth Modeling, Simulation, Visualization and Applications.:Institute of Electrical and Electronics Engineers, 2012:297-303.
|
[33] |
徐其军, 汤亮, 顾东祥, 等. 基于形态参数的水稻根系三维建模及可视化 [J]. 农业工程学报, 2010, 26(10):188−194. doi: 10.3969/j.issn.1002-6819.2010.10.032
XU Q J, TANG L, GU D X, et al. Architectural parameter-based three dimensional modeling and visualization of rice roots [J]. Transactions of the Chinese Society of Agricultural Engineering, 2010, 26(10): 188−194.(in Chinese) doi: 10.3969/j.issn.1002-6819.2010.10.032
|
[34] |
房燕. 基于人工生命的骆驼刺根系的模型构建与研究[D]. 长春: 东北师范大学, 2011.
FANG Y. Construction and research of Alhagi roots model based on artificial life[D]. Changchun: Northeast Normal University, 2011. (in Chinese).
|
[35] |
GE Y, GE Z Y, YI H F, et al. Visual simulation of upland rice root as related to soil compaction[C]//2011 Second International Conference on Digital Manufacturing & Automation. August 5-7, 2011, Zhangjiajie, China. IEEE, 2011: 1392−1394.
|
[36] |
LEITNER D, KLEPSCH S, BODNER G, et al. A dynamic root system growth model based on L-Systems [J]. Plant and Soil, 2010, 332(1/2): 177−192.
|
[37] |
钟南, 罗锡文, 秦琴. 基于微分L系统理论的植物根系生长模拟的算法 [J]. 系统仿真学报, 2006, 18(S2):138−139, 143.
ZHONG N, LUO X W, QIN Q. Simulation arithmetic of root systems growth with differential L-systems [J]. Journal of System Simulation, 2006, 18(S2): 138−139, 143.(in Chinese)
|
[38] |
彭英, 张素兰. 基于L系统的水稻根系建模与可视化 [J]. 计算机系统应用, 2020, 29(6):22−28.
PENG Y, ZHANG S L. L-system-based modeling and visualization of rice root system [J]. Computer Systems & Applications, 2020, 29(6): 22−28.(in Chinese)
|
[39] |
刘慧, 汤亮, 张文宇, 等. 基于模型的可视化水稻生长系统的构建与实现 [J]. 农业工程学报, 2009, 25(9):148−154, 362. doi: 10.3969/j.issn.1002-6819.2009.09.027
LIU H, TANG L, ZHANG W Y, et al. Construction and implementation of model-based visual rice growth system [J]. Transactions of the Chinese Society of Agricultural Engineering, 2009, 25(9): 148−154, 362.(in Chinese) doi: 10.3969/j.issn.1002-6819.2009.09.027
|
[40] |
初广丽, 张伟, 王延杰, 等. 基于机器视觉的水果采摘机器人目标识别方法 [J]. 中国农机化学报, 2018, 39(2):83−88.
CHU G L, ZHANG W, WANG Y J, et al. A method of fruit picking robot target identification based on machine vision [J]. Journal of Chinese Agricultural Mechanization, 2018, 39(2): 83−88.(in Chinese)
|
[41] |
徐超, 李乔. 基于计算机视觉的三维重建技术综述 [J]. 数字技术与应用, 2017(1):54−56.
XU C, LI Q. 3D reconstruction technology based on computer vision: A Review [J]. Digital Technology and Application, 2017(1): 54−56.(in Chinese)
|
[42] |
LOOMIS J J, LIU X W, DING Z H, et al. Visualization of plant growth[C]//Proceedings of Visualization '97 (Cat. No. 97CB36155). October 24-24, 1997, Phoenix, AZ, USA. IEEE, 1997: 475-478.
|
[43] |
TERAMOTO S, UGA Y. A deep learning-based phenotypic analysis of rice root distribution from field images [J]. Plant Phenomics (Washington, D C), 2020, 2020: 3194308.
|
[44] |
吴丹, 叶军立, 王康, 等. 基于轮廓投影的盆栽水稻三维重建方法研究 [J]. 中国农业科技导报, 2020, 22(9):87−95.
WU D, YE J L, WANG K, et al. Three-dimension reconstruction method based on silhouette for pot rice [J]. Journal of Agricultural Science and Technology, 2020, 22(9): 87−95.(in Chinese)
|
[45] |
SCHULZ H, POSTMA J A, VAN DUSSCHOTEN D, et al. Plant root system analysis from MRI images[M]//Communications in Computer and Information Science. Berlin, Heidelberg: Springer Berlin Heidelberg, 2013: 411-425.
|
[46] |
VAN DUSSCHOTEN D, METZNER R, KOCHS J, et al. Quantitative 3D analysis of plant roots growing in soil using magnetic resonance imaging [J]. Plant Physiology, 2016, 170(3): 1176−1188. doi: 10.1104/pp.15.01388
|
[47] |
AHMED M A, ZAREBANADKOUKI M, KAESTNER A, et al. Measurements of water uptake of maize roots: The key function of lateral roots [J]. Plant and Soil, 2016, 398(1/2): 59−77.
|
[48] |
刘秀位, 谷慧杰, 韩洁, 等. 基于探地雷达和电容法的作物根系原位无损测量技术研究进展 [J]. 农业工程学报, 2020, 36(20):226−237. doi: 10.11975/j.issn.1002-6819.2020.20.027
LIU X W, GU H J, HAN J, et al. Research progress of ground penetrating radar and electrical capacitance for in situ non-destructive measurement of crop roots [J]. Transactions of the Chinese Society of Agricultural Engineering, 2020, 36(20): 226−237.(in Chinese) doi: 10.11975/j.issn.1002-6819.2020.20.027
|
[49] |
王传宇, 赵明, 阎建河, 等. 基于双目立体视觉技术的玉米叶片三维重建 [J]. 农业工程学报, 2010, 26(4):198−202. doi: 10.3969/j.issn.1002-6819.2010.04.033
WANG C Y, ZHAO M, YAN J H, et al. Three-dimensional reconstruction of maize leaves based on binocular stereovision system [J]. Transactions of the Chinese Society of Agricultural Engineering, 2010, 26(4): 198−202.(in Chinese) doi: 10.3969/j.issn.1002-6819.2010.04.033
|
[50] |
殷悦, 张慧春, 郑加强. 基于双目立体视觉的植物三维重建系统 [J]. 中国农机化学报, 2021, 42(3):129−135.
YIN Y, ZHANG H C, ZHENG J Q. Three dimensional reconstruction system of plant based on binocular stereo vision [J]. Journal of Chinese Agricultural Mechanization, 2021, 42(3): 129−135.(in Chinese)
|
[51] |
SOMMA F, HOPMANS J W, CLAUSNITZER V. Transient three-dimensional modeling of soil water and solute transport with simultaneous root growth, root water and nutrient uptake [J]. Plant and Soil, 1998, 202(2): 281−293. doi: 10.1023/A:1004378602378
|
[52] |
ZAPPALA S, MAIRHOFER S, TRACY S, et al. Quantifying the effect of soil moisture content on segmenting root system architecture in X-ray computed tomography images [J]. Plant and Soil, 2013, 370(1/2): 35−45.
|
[53] |
DUNBABIN V M, POSTMA J A, SCHNEPF A, et al. Modelling root-soil interactions using three-dimensional models of root growth, architecture and function [J]. Plant and Soil, 2013, 372(1/2): 93−124.
|
[54] |
张玉, 秦华东, 黄敏, 等. 水稻根系空间分布特性的数学模拟及应用 [J]. 华南农业大学学报, 2013, 34(3):304−308. doi: 10.7671/j.issn.1001-411X.2013.03.005
ZHANG Y, QIN H D, HUANG M, et al. Mathematical simulation of rice root spatial distribution and its application [J]. Journal of South China Agricultural University, 2013, 34(3): 304−308.(in Chinese) doi: 10.7671/j.issn.1001-411X.2013.03.005
|
[55] |
刘永霞, 岳延滨, 刘岩, 等. 不同品种和氮肥条件下水稻根系主要几何参数动态量化 [J]. 中国农业科学, 2010, 43(9):1782−1790. doi: 10.3864/j.issn.0578-1752.2010.09.003
LIU Y X, YUE Y B, LIU Y, et al. Quantitative research of dynamic models of the main geometric parameters of rice root system of different varieties under different nitrogen conditions [J]. Scientia Agricultura Sinica, 2010, 43(9): 1782−1790.(in Chinese) doi: 10.3864/j.issn.0578-1752.2010.09.003
|
[56] |
李娟, 章明清, 林琼, 等. 水稻根系氮磷钾吸收特性及其模拟模型研究 [J]. 土壤通报, 2011, 42(1):117−122.
LI J, ZHANG M Q, LIN Q, et al. Studies on N, P and K absorption characteristics of rice root system and its simulation model [J]. Chinese Journal of Soil Science, 2011, 42(1): 117−122.(in Chinese)
|
[57] |
LI T, ANGELES O, MARCAIDA M III, et al. From ORYZA2000 to ORYZA (v3): An improved simulation model for rice in drought and nitrogen-deficient environments [J]. Agricultural and Forest Meteorology, 2017, 237/238: 246−256. doi: 10.1016/j.agrformet.2017.02.025
|
[58] |
蒋艳娜, 肖伯祥, 郭新宇, 等. 植物建模与动画合成研究 [J]. 系统仿真学报, 2015, 27(4):881−892.
JIANG Y N, XIAO B X, GUO X Y, et al. Study in plant modeling and animation [J]. Journal of System Simulation, 2015, 27(4): 881−892.(in Chinese)
|
[59] |
贾全全, 杨晓杰. 根系分形维数及其研究进展 [J]. 安徽农业科学, 2011, 39(2):652−653, 656. doi: 10.3969/j.issn.0517-6611.2011.02.009
JIA Q Q, YANG X J. Fractal dimension and it's study extension to root systems [J]. Journal of Anhui Agricultural Sciences, 2011, 39(2): 652−653, 656.(in Chinese) doi: 10.3969/j.issn.0517-6611.2011.02.009
|
[60] |
CLARK R T, MACCURDY R B, JUNG J K, et al. Three-dimensional root phenotyping with a novel imaging and software platform [J]. Plant Physiology, 2011, 156(2): 455−465. doi: 10.1104/pp.110.169102
|
[61] |
ADELEKE E, MILLAS R, MCNEAL W, et al. Assessing root system architecture of wheat seedlings using A high-throughput root phenotyping system [J]. bioRxiv, 2019. doi: 10.1101/677955
|