X-ray microtomography and linear discriminant analysis enable detection of embolism-related acoustic emissions

BackgroundAcoustic emission (AE) sensing is in use since the late 1960s in drought-induced embolism research as a non-invasive and continuous method. It is very well suited to assess a plant’s vulnerability to dehydration. Over the last couple of years, AE sensing has further improved due to progress in AE sensors, data acquisition methods and analysis systems. Despite these recent advances, it is still challenging to detect drought-induced embolism events in the AE sources registered by the sensors during dehydration, which sometimes questions the quantitative potential of AE sensing.ResultsIn quest of a method to separate embolism-related AE signals from other dehydration-related signals, a 2-year-old potted Fraxinus excelsior L. tree was subjected to a drought experiment. Embolism formation was acoustically measured with two broadband point-contact AE sensors while simultaneously being visualized by X-ray computed microtomography (µCT). A machine learning method was used to link visually detected embolism formation by µCT with corresponding AE signals. Specifically, applying linear discriminant analysis (LDA) on the six AE waveform parameters amplitude, counts, duration, signal strength, absolute energy and partial power in the range 100–200 kHz resulted in an embolism-related acoustic vulnerability curve (VCAE-E) better resembling the standard µCT VC (VCCT), both in time and in absolute number of embolized vessels. Interestingly, the unfiltered acoustic vulnerability curve (VCAE) also closely resembled VCCT, indicating that VCs constructed from all registered AE signals did not compromise the quantitative interpretation of the species’ vulnerability to drought-induced embolism formation.ConclusionAlthough machine learning could detect similar numbers of embolism-related AE as µCT, there still is insufficient model-based evidence to conclusively attribute these signals to embolism events. Future research should therefore focus on similar experiments with more in-depth analysis of acoustic waveforms, as well as explore the possibility of Fast Fourier transformation (FFT) to remove non-embolism-related AE signals.

[1]  Silvia B. Kikuta,et al.  Ultrasound acoustic emissions from bark samples differing in anatomical characteristics , 2003 .

[2]  A. McElrone,et al.  Patterns of drought-induced embolism formation and spread in living walnut saplings visualized using X-ray microtomography. , 2015, Tree physiology.

[3]  M. Gullo,et al.  Three different methods for measuring xylem cavitation and embolism : a comparison , 1991 .

[4]  A. McElrone,et al.  In vivo visualization of the final stages of xylem vessel refilling in grapevine (Vitis vinifera) stems. , 2018, The New phytologist.

[5]  Stefan Mayr,et al.  Xylem cavitation resistance can be estimated based on time‐dependent rate of acoustic emissions , 2015, The New phytologist.

[6]  K. Ritman,et al.  Acoustic Emissions from Plants: Ultrasonic and Audible Compared , 1988 .

[7]  John Grace,et al.  Cavitation and water transport in trees , 1994 .

[8]  Kathy Steppe,et al.  Sap flow dynamics of a beech tree during the solar eclipse of 11 August 1999 , 2002 .

[9]  Ashutosh Kumar Singh,et al.  The Elements of Statistical Learning: Data Mining, Inference, and Prediction , 2010 .

[10]  G. McLachlan Discriminant Analysis and Statistical Pattern Recognition , 1992 .

[11]  Barbara L. Gartner,et al.  Cavitation and water storage capacity in bole xylem segments of mature and young Douglas-fir trees , 2001, Trees.

[12]  Sylvain Delzon,et al.  Noninvasive Measurement of Vulnerability to Drought-Induced Embolism by X-Ray Microtomography1 , 2015, Plant Physiology.

[13]  Veerle Cnudde,et al.  Recent Micro-CT Scanner Developments at UGCT , 2014 .

[14]  A. Tyree,et al.  Vulnerability of Xylem to Cavitation and Embolism , 1989 .

[15]  A. Mobasheri,et al.  Application of machine learning to proteomics data: classification and biomarker identification in postgenomics biology. , 2013, Omics : a journal of integrative biology.

[16]  V. Cnudde,et al.  Software tools for quantification of X-ray microtomography at the UGCT , 2007 .

[17]  Stefan Mayr,et al.  Cavitation in dehydrating xylem of Picea abies: energy properties of ultrasonic emissions reflect tracheid dimensions. , 2011, Tree physiology.

[18]  Kathy Steppe,et al.  Sugars from woody tissue photosynthesis reduce xylem vulnerability to cavitation. , 2017, The New phytologist.

[19]  Sylvain Delzon,et al.  Methods for measuring plant vulnerability to cavitation: a critical review. , 2013, Journal of experimental botany.

[20]  M. Zimmermann Xylem Structure and the Ascent of Sap , 1983, Springer Series in Wood Science.

[21]  Melvin T. Tyree,et al.  A method for measuring hydraulic conductivity and embolism in xylem , 1988 .

[22]  Sari Palmroth,et al.  A test of the hydraulic vulnerability segmentation hypothesis in angiosperm and conifer tree species. , 2016, Tree physiology.

[23]  M Dierick,et al.  A LabVIEW® based generic CT scanner control software platform. , 2010, Journal of X-ray science and technology.

[24]  John A. Milburn,et al.  The conduction of sap , 1966, Planta.

[25]  Hilde van der Togt,et al.  Publisher's Note , 2003, J. Netw. Comput. Appl..

[26]  Jussi-Petteri Suuronen,et al.  Visualizing water-filled versus embolized status of xylem conduits by desktop x-ray microtomography , 2013, Plant Methods.

[27]  M. Tyree,et al.  Xylem dysfunction in Quercus: vessel sizes, tyloses, cavitation and seasonal changes in embolism. , 1990, Tree physiology.

[28]  E Badel,et al.  X-ray microtomography (micro-CT): a reference technology for high-resolution quantification of xylem embolism in trees. , 2015, Plant, cell & environment.

[29]  Frans Bongers,et al.  Ecological differentiation in xylem cavitation resistance is associated with stem and leaf structural traits. , 2011, Plant, cell & environment.

[30]  Markus G. R. Sause,et al.  INVESTIGATION OF PENCIL-LEAD BREAKS AS ACOUSTIC EMISSION SOURCES , 2011 .

[31]  D. Lemoine,et al.  Comparative studies of the water relations and the hydraulic characteristics in Fraxinus excelsior, Acer pseudoplatanus and A. opalus trees under soil water contrasted conditions , 2001 .

[32]  R. Zimmermann,et al.  Canopy transpiration and water fluxes in the xylem of the trunk of Larix and Picea trees — a comparison of xylem flow, porometer and cuvette measurements , 1985, Oecologia.

[33]  Kathy Steppe,et al.  Clustering reveals cavitation-related acoustic emission signals from dehydrating branches. , 2016, Tree physiology.

[34]  Bernhard Plank,et al.  Radial shrinkage and ultrasound acoustic emissions of fresh versus pre-dried Norway spruce sapwood , 2010, Trees.

[35]  Kathy Steppe,et al.  Acoustic Emissions to Measure Drought-Induced Cavitation in Plants , 2016 .

[36]  Johannes E. Schindelin,et al.  Fiji: an open-source platform for biological-image analysis , 2012, Nature Methods.

[37]  Kathy Steppe,et al.  Diel growth dynamics in tree stems: linking anatomy and ecophysiology. , 2015, Trends in plant science.

[38]  Peter Hietz,et al.  An improved method and data analysis for ultrasound acoustic emissions and xylem vulnerability in conifer wood. , 2012, Physiologia plantarum.

[39]  Veerle Cnudde,et al.  Cavitation: a blessing in disguise? New method to establish vulnerability curves and assess hydraulic capacitance of woody tissues. , 2015, Tree physiology.

[40]  M. Tyree,et al.  Ultrasonic acoustic emissions from the sapwood of cedar and hemlock : an examination of three hypotheses regarding cavitations. , 1984, Plant physiology.

[41]  Sébastien Lê,et al.  FactoMineR: An R Package for Multivariate Analysis , 2008 .

[42]  Sylvain Delzon,et al.  Direct X-Ray Microtomography Observation Confirms the Induction of Embolism upon Xylem Cutting under Tension1 , 2014, Plant Physiology.

[43]  M. Tyree,et al.  Ultrasonic Acoustic Emissions from the Sapwood of Thuja occidentalis Measured inside a Pressure Bomb. , 1984, Plant physiology.

[44]  J. Sperry,et al.  Mechanism of water stress-induced xylem embolism. , 1988, Plant physiology.

[45]  Brendan Choat,et al.  The Dynamics of Embolism Repair in Xylem: In Vivo Visualizations Using High-Resolution Computed Tomography1[C][W][OA] , 2010, Plant Physiology.

[46]  Yagang Zhang,et al.  Application of Machine Learning , 2010 .

[47]  Sabine Rosner,et al.  A new type of vulnerability curve: is there truth in vine? , 2015, Tree physiology.

[48]  Melvin T. Tyree,et al.  Characterization and propagation of acoustic emission signals in woody plants: towards an improved acoustic emission counter , 1989 .

[49]  Alioune Ngom,et al.  A review on machine learning principles for multi-view biological data integration , 2016, Briefings Bioinform..

[50]  Kathy Steppe,et al.  Deciphering acoustic emission signals in drought stressed branches: the missing link between source and sensor , 2015, Front. Plant Sci..

[51]  R. Sathya,et al.  Comparison of Supervised and Unsupervised Learning Algorithms for Pattern Classification , 2013 .

[52]  Kathy Steppe,et al.  Nanobubbles: a new paradigm for air-seeding in xylem. , 2015, Trends in plant science.

[53]  R. Zweifel,et al.  Ultrasonic acoustic emissions in drought-stressed trees--more than signals from cavitation? , 2008, The New phytologist.

[54]  Grzegorz Musielak,et al.  The identification of fracture in dried wood based on theoretical modelling and acoustic emission , 2004, Wood Science and Technology.

[55]  Carlos Ortiz-de-Solorzano,et al.  Consistent and Elastic Registration of Histological Sections Using Vector-Spline Regularization , 2006, CVAMIA.

[56]  H. Cochard,et al.  Vulnerability of several conifers to air embolism. , 1992, Tree physiology.

[57]  R. W. Blank,et al.  Acoustic emission from drought-stressed red pine (Pinus resinosa) , 1990 .

[58]  F. C. Beall,et al.  Overview of the use of ultrasonic technologies in research on wood properties , 2002, Wood Science and Technology.

[59]  Bo Karlsson,et al.  Extraction of features from ultrasound acoustic emissions: a tool to assess the hydraulic vulnerability of Norway spruce trunkwood? , 2006, The New phytologist.