Structural and Chemical Characterization of the Ediacaran Embryo-Like Fossils via the Combination of 3D-XRM and FIB-SEM Approaches

Qian Chen, Weichen Sun, Suping Wu, Zongjun Yin

Journal of Earth Science ›› 2024, Vol. 35 ›› Issue (4) : 1204-1214. DOI: 10.1007/s12583-024-0008-1

Structural and Chemical Characterization of the Ediacaran Embryo-Like Fossils via the Combination of 3D-XRM and FIB-SEM Approaches

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Abstract

The three-dimensional (3D) morphology, anatomy, and in-situ chemical composition analysis of fossils are crucial for systematic paleontology and determining their phylogenetic positions. Scanning electron microscopy (SEM) coupled with energy-dispersive X-ray spectroscopy (EDS), offers valuable structural and chemical information for the analysis of fossils. However, its primary limitation is the restriction to two-dimensional surface data, which limits the exploration of fossils’ 3D complexities. Conversely, 3D X-ray microscopy (3D-XRM), also known as a novel form of micro-computed tomography (micro-CT) facilitates the non-destructive 3D reconstruction of fossil specimens. Nevertheless, it lacks the capability to provide in-situ compositional data. Acknowledging the constraints inherent in these individual techniques, and in response to the evolving requirements of paleontological research, this study introduces an integrated approach that combines 3D-XRM with EDS-coupled focused ion beam scanning electron microscopy (FIB-SEM). This innovative strategy is designed to synergize the advantages of both techniques, thereby addressing challenges that conventional methods cannot. It enables the rapid identification of regions of interest (ROI) within fossil specimens at micrometer resolution. Subsequently, this method collects detailed data on both 3D structures and chemical compositions at the nanometer scale for the identified ROI. This integrated approach represents a significant advancement in paleontological and geological research methodologies, promising to meet the increasing demands of these fields.

Keywords

Embryo-like microfossils / structural and chemical characterization / 3D-XRM / FIB-SEM / 3D reconstruction

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Qian Chen, Weichen Sun, Suping Wu, Zongjun Yin. Structural and Chemical Characterization of the Ediacaran Embryo-Like Fossils via the Combination of 3D-XRM and FIB-SEM Approaches. Journal of Earth Science, 2024, 35(4): 1204‒1214 https://doi.org/10.1007/s12583-024-0008-1

References

[]
Chen J Y, Bottjer D J, Davidson E H, et al.. Phosphatized Polar Lobe-Forming Embryos from the Precambrian of Southwest China. Science, 2006, 312(5780): 1644-1646,
CrossRef Google scholar
[]
Chen J Y, Bottjer D J, Davidson E H, et al.. Phase Contrast Synchrotron X-Ray Microtomography of Ediacaran (Doushantuo) Metazoan Microfossils: Phylogenetic Diversity and Evolutionary Implications. Precambrian Research, 2009, 173(1/2/3/4): 191-200,
CrossRef Google scholar
[]
Chen L, Xiao S H, Pang K, et al.. Cell Differentiation and GermSoma Separation in Ediacaran Animal Embryo-Like Fossils. Nature, 2014, 516(7530): 238-241,
CrossRef Google scholar
[]
Chen S, Paunesku T, Yuan Y, et al.. The Bionanoprobe: Synchrotron-Based Hard X-Ray Fluorescence Microscopy for 2D/3D Trace Element Mapping. Microscopy Today, 2015, 23(3): 26-29,
CrossRef Google scholar
[]
de Jonge M D, Holzner C, Baines S B, et al.. Quantitative 3D Elemental Microtomography of Cyclotella Meneghiniana at 400-nm Resolution. Proceedings of the National Academy of Sciences of the United States of America, 2010, 107(36): 15676-15680,
CrossRef Google scholar
[]
Donoghue P C J. Palaeontology: Embryonic Identity Crisis. Nature, 2007, 445(7124): 155-156,
CrossRef Google scholar
[]
Donoghue P C J, Bengtson S, Dong X P, et al.. Synchrotron X-Ray Tomographic Microscopy of Fossil Embryos. Nature, 2006, 442(7103): 680-683,
CrossRef Google scholar
[]
Dunlop J A, Wirth S, Penney D, et al.. A Minute Fossil Phoretic Mite Recovered by Phase-Contrast X-Ray Computed Tomography. Biology Letters, 2012, 8(3): 457-460,
CrossRef Google scholar
[]
Groso A, Abela R, Stampanoni M. Implementation of a Fast Method for High Resolution Phase Contrast Tomography. Optics Express, 2006, 14(18): 8103-8110,
CrossRef Google scholar
[]
Gu L X, Li J H. The Focused Ion Beam (FIB) Technology and Its Applications for Earth and Planetary Sciences. Bulletin of Mineralogy, Petrology and Geochemistry, 2020, 39(6): 1119-1140 (in Chinese with English Abstract)
[]
Hagadorn J W, Xiao S H, Donoghue P C J, et al.. Cellular and Subcellular Structure of Neoproterozoic Animal Embryos. Science, 2006, 314(5797): 291-294,
CrossRef Google scholar
[]
Huldtgren T, Cunningham J A, Yin C Y, et al.. Fossilized Nuclei and Germination Structures Identify Ediacaran “Animal Embryos” as Encysting Protists. Science, 2011, 334(6063): 1696-1699,
CrossRef Google scholar
[]
Li J H, Li Q L, Zhao L, et al.. Rapid Screening of Zr-Containing Particles from Chang’e-5 Lunar Soil Samples for Isotope Geochronology: Technical Roadmap for Future Study. Geoscience Frontiers, 2022, 13(3): 101367,
CrossRef Google scholar
[]
Li J H, Pan Y X. Applications of Transmission Electron Microscopy in the Earth Sciences. Scientia Sinica Terrae, 2015, 45: 1359-1382 (in Chinese with English Abstract)
[]
Li J H, Pei R, Teng F F, et al.. Micro-XRF Study of the Troodontid Dinosaur Jianianhualong Tengi Reveals New Biological and Taphonomical Signals. Atomic Spectroscopy, 2021, 42(1): 1-11
[]
Luo Y Q, Paunesku T, Antipova O, et al.. A Reliable Workflow for Improving Nanoscale X-Ray Fluorescence Tomographic Analysis on Nanoparticle-Treated HeLa Cells. Metallomics, 2022, 14(9): mfac025,
CrossRef Google scholar
[]
Mader K, Marone F, Hintermüller C, et al.. High-Throughput Full-Automatic Synchrotron-Based Tomographic Microscopy. Journal of Synchrotron Radiation, 2011, 18: 117-124, Pt 2)
CrossRef Google scholar
[]
Miller M K, Forbes R G. Atom Probe Tomography. Materials Characterization, 2009, 60(6): 461-469,
CrossRef Google scholar
[]
Pan Y H, Hu L, Zhao T. Applications of Chemical Imaging Techniques in Paleontology. National Science Review, 2019, 6(5): 1040-1053,
CrossRef Google scholar
[]
Reymond C E, Hallock P, Westphal H. Preface for “Tropical Large Benthic Foraminifera: Adaption, Extinction, and Radiation”. Journal of Earth Science, 2022, 33(6): 1339-1347,
CrossRef Google scholar
[]
Rigo M, Golding M L, Jiang H S. Preface. Journal of Earth Science, 2021, 32(3): 471-473,
CrossRef Google scholar
[]
Stampanoni M, Borchert G, Wyss P, et al.. High Resolution X-Ray Detector for Synchrotron-Based Microtomography. Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, 2002, 491(1/2): 291-301,
CrossRef Google scholar
[]
Sun W C, Yin Z J, Cunningham J A, et al.. Nucleus Preservation in Early Ediacaran Weng’an Embryo-Like Fossils, Experimental Taphonomy of Nuclei and Implications for Reading the Eukaryote Fossil Record. Interface Focus, 2020, 10(4): 20200015,
CrossRef Google scholar
[]
Sun W C, Yin Z J, Liu P J, et al.. Ultrastructure and in-situ Chemical Characterization of Intracellular Granules of Embryo-Like Fossils from the Early Ediacaran Weng’an Biota. PalZ, 2021, 95(4): 611-621,
CrossRef Google scholar
[]
Tafforeau P, Boistel R, Boller E, et al.. Applications of X-Ray Synchrotron Microtomography for Non-Destructive 3D Studies of Paleontological Specimens. Applied Physics A, 2006, 83(2): 195-202,
CrossRef Google scholar
[]
Wirth R. Focused Ion Beam (FIB) Combined with SEM and TEM: Advanced Analytical Tools for Studies of Chemical Composition, Microstructure and Crystal Structure in Geomaterials on a Nanometre Scale. Chemical Geology, 2009, 261(3/4): 217-229,
CrossRef Google scholar
[]
Wu S P, Yin Z J, Sun W C, et al.. High-Resolution Tomography of Millimeter- to Centimeter-Sized Fossils Using Three-Dimensional X-Ray Microscopy. Acta Palaeontologica Sinica, 2018, 57(2): 157-167 (in Chinese with English Abstract)
[]
Xiao S H, Zhang Y, Knoll A H. Three-Dimensional Preservation of Algae and Animal Embryos in a Neoproterozoic Phosphorite. Nature, 1998, 391(6667): 553-558,
CrossRef Google scholar
[]
Yang C, Rooney A D, Condon D J, et al.. The Tempo of Ediacaran Evolution. Science Advances, 2021, 7(45): eabi9643,
CrossRef Google scholar
[]
Yin Z J, Cunningham J A, Vargas K, et al.. Nuclei and Nucleoli in Embryo-Like Fossils from the Ediacaran Weng’ an Biota. Precambrian Research, 2017, 301: 145-151,
CrossRef Google scholar
[]
Yin Z J, Li G, Zhu M Y. Three Dimensional Nondestructive Imaging Techniques for the Microfossils: A Comparison. Acta Micropalaeontologica Sinica, 2014, 31(4): 440-452 (in Chinese with English Abstract)
[]
Yin Z J, Lu J. Virtual Palaeontology: When Fossils Illuminated by X-Ray. Palaeoworld, 2019, 28(4): 425-428,
CrossRef Google scholar
[]
Yin Z J, Sun W C, Liu P J, et al.. Developmental Biology of Helicoforamina Reveals Holozoan Affinity, Cryptic Diversity, and Adaptation to Heterogeneous Environments in the Early Ediacaran Weng’an Biota (Doushantuo Formation, South China). Science Advances, 2020, 6(24): eabb0083,
CrossRef Google scholar
[]
Yin Z J, Sun W C, Liu P J, et al.. Diverse and Complex Developmental Mechanisms of Early Ediacaran Embryo-Like Fossils from the Weng’an Biota, Southwest China. Philosophical Transactions of the Royal Society B: Biological Sciences, 2022, 377(1847): 20210032,
CrossRef Google scholar
[]
Yin Z J, Vargas K, Cunningham J, et al.. The Early Ediacaran Caveasphaera Foreshadows the Evolutionary Origin of Animal-Like Embryology. Current Biology, 2019, 29(24): 4307-4314.e2,
CrossRef Google scholar
[]
Yin Z J, Zhu M Y, Bottjer D J, et al.. Meroblastic Cleavage Identifies some Ediacaran Doushantuo (China) Embryo-Like Fossils as Metazoans. Geology, 2016, 44(9): 735-738,
CrossRef Google scholar
[]
Yin Z J, Zhu M Y, Tafforeau P, et al.. Early Embryogenesis of Potential Bilaterian Animals with Polar Lobe Formation from the Ediacaran Weng’ an Biota, South China. Precambrian Research, 2013, 225: 44-57,
CrossRef Google scholar
[]
Yin Z J, Zhu M Y, Xiao T Q. Application of Synchrotron X-Ray Microtomography in Paleontology for Nondestructive 3-D Imaging of Fossil Specimens. Physics, 2009, 38(7): 504-510 (in Chinese with English Abstract)
[]
Zhang Y, Chang S, Feng Q L, et al.. A Diverse Microfossil Assemblage from the Ediacaran-Cambrian Deep-Water Chert of the Liuchapo Formation in Guizhou Province, South China. Journal of Earth Science, 2023, 34(2): 398-408,
CrossRef Google scholar
[]
Zhou C M, Li X H, Xiao S H, et al.. A New SIMS Zircon U-Pb Date from the Ediacaran Doushantuo Formation: Age Constraint on the Weng’ an Biota. Geological Magazine, 2017, 154(6): 1193-1201,
CrossRef Google scholar

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