Description
Book SynopsisThis 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 reage
Table of ContentsPreface…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 polymorphaKarina Medina-Jimenez, Mario A. Arteaga-Vazquez, and Argelia Lorence
3. A Novel High-Throughput Phenotyping Hydroponic System for Nitrogen Deficiency Studies in Arabidopsis thalianaLucia 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 PlatformEmilio Vello, John Aguirre, Yang Shao, and Thomas Bureau
5. A Straightforward High-Throughput Aboveground Phenotyping Platform for Small to Medium-Sized PlantsDenise Caldwell and Anjali S. Iyer-Pascuzzi
6. Wireless Fixed Camera Network for Greenhouse-Based Plant PhenotypingNadia Shakoor and Todd C. Mockler
7. Experimental Design for Controlled Environment High-Throughput Plant PhenotypingJennifer 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 AnalysisChongyuan Zhang and Sindhuja Sankaran
9. ColorQuant: A High-Throughput Technique to Extract and Quantify Color Phenotypes from Plant ImagesMao 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 InstrumentKeith 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 ProgramsGustavo A. Lobos, Félix Estrada, Alejandro del Pozo, Sebastián Romero-Bravo, Cesar A. Astudillo, and Freddy Mora-Poblete
14. Designing Experiments for Physiological PhenomicsAddie Thompson, Michael Kantar, and Katy Rainey
15. Design Considerations for In-Field Measurement of Plant Architecture Traits Using Ground-Based PlatformsPiyush Pandey and Sierra Young
16. Design and Construction of Unmanned Ground Vehicles for Sub-Canopy Plant PhenotypingAdam Stager, Herbert G. Tanner, and Erin Sparks
17. Nighttime Chlorophyll Fluorescence Imaging of Dark-Adapted Plants Using a Robotic Field Phenotyping PlatformMaria 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-MSNishikant Wase, Nathan Abshire, and Toshihiro Obata20. Gene Co-Expression Network Analysis and Linking Modules to Phenotyping Response in PlantsQian 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 DataGota Morota, Diego Jarquin, Malachy T. Campbell, and Hiroyoshi Iwata
Subject Index List…
