High-Throughput Phenotyping and QTL Mapping Reveals the Genetic Architecture of Maize Plant Growth
Xuehai Zhang,Chenglong Huang,Di Wu,Feng Qiao,Wenqiang Li,Lingfeng Duan,Ke Wang,Yingjie Xiao,Guoxing Chen,Qian Liu,Lizhong Xiong,Wanneng Yang,Jianbing Yan +12 more
Reads0
Chats0
TLDR
Quantitative trait locus (QTL) mapping with a high-density genetic linkage map was used to uncover the genetic basis of these complex agronomic traits, and 988 QTLs have been identified for all investigated traits, including three QTL hotspots.Abstract:
With increasing demand for novel traits in crop breeding, the plant research community faces the challenge of quantitatively analyzing the structure and function of large numbers of plants. A clear goal of high-throughput phenotyping is to bridge the gap between genomics and phenomics. In this study, we quantified 106 traits from a maize (Zea mays) recombinant inbred line population (n = 167) across 16 developmental stages using the automatic phenotyping platform. Quantitative trait locus (QTL) mapping with a high-density genetic linkage map, including 2,496 recombinant bins, was used to uncover the genetic basis of these complex agronomic traits, and 988 QTLs have been identified for all investigated traits, including three QTL hotspots. Biomass accumulation and final yield were predicted using a combination of dissected traits in the early growth stage. These results reveal the dynamic genetic architecture of maize plant growth and enhance ideotype-based maize breeding and prediction.read more
Citations
More filters
Journal ArticleDOI
Crop Phenomics and High-Throughput Phenotyping: Past Decades, Current Challenges, and Future Perspectives.
Wanneng Yang,Hui Feng,Xuehai Zhang,Jian Zhang,John H. Doonan,William D. Batchelor,Lizhong Xiong,Jianbing Yan +7 more
TL;DR: Main developments on high-throughput phenotyping in the controlled environments and field conditions as well as for post-harvest yield and quality assessment in past decades are reviewed and the latest multiomics works combining high- throughput phenotypesing and genetic studies are described.
Journal ArticleDOI
Crop Phenomics: Current Status and Perspectives.
Chunjiang Zhao,Ying Zhang,Jianjun Du,Guo Xinyu,Weiliang Wen,Shenghao Gu,Jinglu Wang,Fan Jiangchuan +7 more
TL;DR: The challenges and prospective of crop phenomics are discussed in order to provide suggestions to develop new methods of mining genes associated with important agronomic traits, and propose new intelligent solutions for precision breeding.
Journal ArticleDOI
High-throughput phenotyping for crop improvement in the genomics era
Reyazul Rouf Mir,Mathew Reynolds,Francisco de Assis de Carvalho Pinto,Mohd Anwar Khan,Mohd Ashraf Bhat +4 more
TL;DR: The current status of efforts made in the last decade to systematically collect phenotypic data to alleviate this 'phenomics bottlenecks' by recording trait data through sophisticated non-invasive imaging, spectroscopy, image analysis, robotics, high-performance computing facilities and phenomics databases are reviewed.
Journal ArticleDOI
Plant phenomics: an overview of image acquisition technologies and image data analysis algorithms.
TL;DR: An in-depth analysis of image processing with its major issues and the algorithms that are being used or emerging as useful to obtain data out of images in an automatic fashion is given.
Journal ArticleDOI
Computer vision-based phenotyping for improvement of plant productivity: a machine learning perspective
Keiichi Mochida,Satoru Koda,Komaki Inoue,Takashi Hirayama,Shojiro Tanaka,Ryuei Nishii,Farid Melgani +6 more
TL;DR: Computer vision-based phenotyping will play significant roles in both the nowcasting and forecasting of plant traits through modeling of genotype/phenotype relationships.
References
More filters
Journal Article
R: A language and environment for statistical computing.
TL;DR: Copyright (©) 1999–2012 R Foundation for Statistical Computing; permission is granted to make and distribute verbatim copies of this manual provided the copyright notice and permission notice are preserved on all copies.
Journal ArticleDOI
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
Paul Shannon,Andrew Markiel,Owen Ozier,Nitin S. Baliga,Jonathan T. Wang,Daniel Ramage,Nada Amin,Benno Schwikowski,Trey Ideker +8 more
TL;DR: Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
Journal ArticleDOI
Precision mapping of quantitative trait loci.
TL;DR: A new method of QTL mapping is proposed and analyzed in this paper by combining interval mapping with multiple regression, an interval test in which the test statistic on a marker interval is made to be unaffected by QTLs located outside a defined interval.
Related Papers (5)
Field high-throughput phenotyping: the new crop breeding frontier
José Luis Araus,Jill E. Cairns +1 more