A Guidebook for creating 3D object using GIMP 3.0 and ImageJ.

A Practical Guide to 3D Reconstruction from Serial Sections: Using GIMP3, ImageJ, and Mathematica

by Yasushi Miki (Author), Daniel K. Gladish (Author)

ISBN-13: 9798268447194

Publication date: October 25, 2025

Kindle, Paperback

ASIN: B0D5LF29BZ

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Origin and Development of Phloem and Xylem as Revealed in 3D Models of the Vascular Cylinder in Primary Roots of Oryza sativa L. cv. Hitomebore

Yasushi Miki, Susumu Saito, Teruo Niki and Daniel K. Gladish

Plants 2026, 15(4), 607; https://doi.org/10.3390/plants15040607

Figure 4. Phloem system. A three-dimensional object was reconstructed from serial sections of a rice vascular cylinder (VC). View angle from above: 60°. Pericycle (GreenYellow), protophloem mother cells (DarkGoldenrod), protophloem sieve tube (Tomato), sieve tube companion cells (Gold), and metaphloem sieve tubes (SandyBrown). Selected initials and plerome cells are shown in various distinct colors at the apex. The apex of the vascular cylinder (AVC) = 0 on the scale. (A) Virtual sectional view of the 3D reconstruction. (B) Bird’s-eye view of the 3D reconstruction. (C) Bird’s-eye view of the 3D reconstruction with the pericycle removed.

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3D Reconstruction

A Practical Guide to 3D Reconstruction from Serial Sections: Using GIMP3, ImageJ, and Mathematica

by Yasushi Miki (Author), Daniel K. Gladish (Author)

ISBN-13: 979-8268447194

Publication date: October 25, 2025

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Plants 2024

Re-Evaluation of Vascular Histogenesis in the Root Tips of Selected Species in the Poaceae Using New Methods: Analysis of the Plerome, Vascular Initials, Pericycle and Late-Maturing Metaxylem Vessels

Yasushi Miki, Susumu Saito, Teruo Niki and Daniel K. Gladish

Plants 202413(6), 910; https://doi.org/10.3390/plants13060910

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APPS 2023

Improved image processing for 3D virtual object construction from serial sections reveals tissue patterns in root tips of Zea mays

Yasushi Miki, Susumu Saito, Teruo Niki and Daniel K. Gladish

Applications in Plant Sciences, vol. 11, July 2023

https://doi.org/10.1002/aps3.11531

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APPS 2020

Three‐dimensional digital image construction of metaxylem vessels in root tips of Zea mays subsp. mexicana from thin transverse sections

Yasushi Miki, Susumu Saito, Teruo Niki, Daniel K. Gladish

Applications in Plant Sciences, vol. 8, May 2020 

https://doi.org/10.1002/aps3.11347

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