High-Throughput Plant Phenotyping: Methods and Protocols

ISBN-13: 9781071625361 / Angielski / Twarda / 2022

Lorence, Argelia

Opis

This volume looks at a collection of the latest techniques used to quantify the genome-by-environment-by-management (GxExM) interactions in a variety of model and plant crops. The chapters in this book are organized into five parts. Part One discusses high-throughput plant phenotyping (HTPP) protocols for plants growing under controlled conditions. Part Two present novel algorithms for extracting data from seed images, color analysis from fruits, and other digital readouts from 2D objects. Part Three covers molecular imaging protocols using PET and X-ray approaches, and Part Four presents a collection of HTPP techniques for crops growing under field conditions. The last part focuses on molecular analysis, metabolomics, network analysis, and statistical methods for the quantitative genetic analysis of HTP data. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

Cutting-edge and practical, High-Throughput Plant Phenotyping: Review and Protocols is a valuable resource for both novice and expert researchers looking to learn more about this important field.

Chapter 21 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Spis treści

Preface…

Table of Contents…

Contributors…

Part I HTP Protocols for Plants Growing Under Controlled Conditions

1. High Throughput Screening to Examine the Dynamic of Stay Green by an Imaging System 

Daniel Padilla-Chacón and Cecilia B. Peña Valdivia

2. An Automated High-Throughput Phenotyping System for Marchantia polymorpha

Karina Medina-Jimenez, Mario A. Arteaga-Vazquez, and Argelia Lorence

3. A Novel High-Throughput Phenotyping Hydroponic System for Nitrogen Deficiency Studies in Arabidopsis thaliana

Lucia M. Acosta-Gamboa, Zachary C. Campbell, Fei Gao, Benjamin Babst, and Argelia Lorence

4. Camelina sativa High-Throughput Phenotyping Under Normal and Salt Conditions Using a Plant Phenomics Platform

Emilio Vello, John Aguirre, Yang Shao, and Thomas Bureau

5. A Straightforward High-Throughput Aboveground Phenotyping Platform for Small to Medium-Sized Plants

Denise Caldwell and Anjali S. Iyer-Pascuzzi

6. Wireless Fixed Camera Network for Greenhouse-Based Plant Phenotyping

Nadia Shakoor and Todd C. Mockler

7. Experimental Design for Controlled Environment High-Throughput Plant Phenotyping

Jennifer L. Clarke, Yumou Qiu, and James C. Schnable

Part II Novel Algorithms for HTP

8. High-Throughput Extraction of Seed Traits Using Image Acquisition and Analysis

Chongyuan Zhang and Sindhuja Sankaran

9. ColorQuant: A High-Throughput Technique to Extract and Quantify Color Phenotypes from Plant Images

Mao Li, Margaret H. Frank, and Zoë Migicovsky

10. Using Cameras for Precise Measurement of Two-Dimensional Plant Features: CASS

   Amy Tabb, Germán A. Holguín, and Rachel Naegele

Part III Molecular Plant Imaging

11. Positron Emission Tomography (PET) for Molecular Plant Imaging 

Sergey Komarov and Yuan-Chuan Tai 

12. Phenotyping Complex Plant Structures with a Large Format Industrial Scale High Resolution X-Ray Tomography Instrument

Keith E. Duncan and Christopher N. Topp

Part IV HTP Protocols for Plants Growing Under Field Conditions

13. Challenges for a Massive Implementation of Phenomics in Plant Breeding Programs

Gustavo A. Lobos, Félix Estrada, Alejandro del Pozo, Sebastián Romero-Bravo, Cesar A. Astudillo, and Freddy Mora-Poblete

14. Designing Experiments for Physiological Phenomics

Addie Thompson, Michael Kantar, and Katy Rainey

15. Design Considerations for In-Field Measurement of Plant Architecture Traits Using Ground-Based Platforms

Piyush Pandey and Sierra Young

16. Design and Construction of Unmanned Ground Vehicles for Sub-Canopy Plant Phenotyping

Adam Stager, Herbert G. Tanner, and Erin Sparks

17. Nighttime Chlorophyll Fluorescence Imaging of Dark-Adapted Plants Using a Robotic Field Phenotyping Platform

Maria Newcomb and Nadia Shakoor

Part V Molecular, Metabolomics, Network Analysis, and Quantitative Genetic Analysis of HTP Data

18. A Method for Rapid and Reliable Molecular Detection of Drought-Response Genes in Sorghum bicolor (L.) Moench Roots 

Juan B. Fontanet-Manzaneque, David Blasco-Escámez, Damiano Martignago, Andrés Rico-Medina, and Ana I. Caño-Delgado

19. High-Throughput Profiling of Metabolic Phenotypes Using High-Resolution GC-MS

Nishikant Wase, Nathan Abshire, and Toshihiro Obata

20. Gene Co-Expression Network Analysis and Linking Modules to Phenotyping Response in Plants

Qian Du, Malachy Campbell, Huihui Yu, Kan Liu, Harkamal Walia, Qi Zhang, and Chi Zhang

21. Statistical Methods for the Quantitative Genetic Analysis of High-Throughput Phenotyping Data

Gota Morota, Diego Jarquin, Malachy T. Campbell, and Hiroyoshi Iwata

Subject Index List…