Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph
Growth is the developmental process involving important genetic components. Functional mapping (FunMap) has been used as an approach to map quantitative trait loci (QTLs) governing growth trajectories by incorporating growth equations. FunMap is based on reductionism thinking, with a power to identi...
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| Format: | Article |
| Language: | English |
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Maximum Academic Press
2021-01-01
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| Series: | Forestry Research |
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| Online Access: | https://www.maxapress.com/article/doi/10.48130/FR-2021-0019 |
| _version_ | 1797293172650409984 |
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| author | Li Feng Peng Jiang Caifeng Li Jinshuai Zhao Ang Dong Dengcheng Yang Rongling Wu |
| author_facet | Li Feng Peng Jiang Caifeng Li Jinshuai Zhao Ang Dong Dengcheng Yang Rongling Wu |
| author_sort | Li Feng |
| collection | DOAJ |
| description | Growth is the developmental process involving important genetic components. Functional mapping (FunMap) has been used as an approach to map quantitative trait loci (QTLs) governing growth trajectories by incorporating growth equations. FunMap is based on reductionism thinking, with a power to identify a small set of significant QTLs from the whole pool of genome-wide markers. Yet, increasing evidence shows that a complex trait is controlled by all genes the organism may possibly carry. Here, we describe and demonstrate a different mapping approach that encapsulates all markers into genetic interaction networks. This approach, symbolized as FunGraph, combines functional mapping, evolutionary game theory, and prey-predator theory into mathematical graphs, allowing the observed genetic effect of a locus to be decomposed into its independent component (resulting from this locus’ intrinsic capacity) and dependent component (due to extrinsic regulation by other loci). Using FunGraph, we can visualize and trace the roadmap of how each locus interact with every other locus to impact growth. In a population-based association study of Euphrates poplar, we use FunGraph to identify the previously neglected genetic interaction effects that contribute to the genetic architecture of juvenile stem growth. FunGraph could open up a novel gateway to comprehend the global genetic control mechanisms of complex traits. |
| first_indexed | 2024-03-07T20:10:00Z |
| format | Article |
| id | doaj.art-824691e1705a4b7fbee08bec73dc937a |
| institution | Directory Open Access Journal |
| issn | 2767-3812 |
| language | English |
| last_indexed | 2024-03-07T20:10:00Z |
| publishDate | 2021-01-01 |
| publisher | Maximum Academic Press |
| record_format | Article |
| series | Forestry Research |
| spelling | doaj.art-824691e1705a4b7fbee08bec73dc937a2024-02-28T01:55:17ZengMaximum Academic PressForestry Research2767-38122021-01-011111010.48130/FR-2021-0019FR-2021-0019Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraphLi Feng0Peng Jiang1Caifeng Li2Jinshuai Zhao3Ang Dong4Dengcheng Yang5Rongling Wu6Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, ChinaCenter for Statistical Genetics, Departments of Public Health Sciences and Statistics, The Pennsylvania State University, Hershey, PA 17033, USAGrowth is the developmental process involving important genetic components. Functional mapping (FunMap) has been used as an approach to map quantitative trait loci (QTLs) governing growth trajectories by incorporating growth equations. FunMap is based on reductionism thinking, with a power to identify a small set of significant QTLs from the whole pool of genome-wide markers. Yet, increasing evidence shows that a complex trait is controlled by all genes the organism may possibly carry. Here, we describe and demonstrate a different mapping approach that encapsulates all markers into genetic interaction networks. This approach, symbolized as FunGraph, combines functional mapping, evolutionary game theory, and prey-predator theory into mathematical graphs, allowing the observed genetic effect of a locus to be decomposed into its independent component (resulting from this locus’ intrinsic capacity) and dependent component (due to extrinsic regulation by other loci). Using FunGraph, we can visualize and trace the roadmap of how each locus interact with every other locus to impact growth. In a population-based association study of Euphrates poplar, we use FunGraph to identify the previously neglected genetic interaction effects that contribute to the genetic architecture of juvenile stem growth. FunGraph could open up a novel gateway to comprehend the global genetic control mechanisms of complex traits.https://www.maxapress.com/article/doi/10.48130/FR-2021-0019growthgrowth equationforest treegenetic architecturefunctional mappingfunctional graphing |
| spellingShingle | Li Feng Peng Jiang Caifeng Li Jinshuai Zhao Ang Dong Dengcheng Yang Rongling Wu Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph Forestry Research growth growth equation forest tree genetic architecture functional mapping functional graphing |
| title | Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph |
| title_full | Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph |
| title_fullStr | Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph |
| title_full_unstemmed | Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph |
| title_short | Genetic dissection of growth trajectories in forest trees: From FunMap to FunGraph |
| title_sort | genetic dissection of growth trajectories in forest trees from funmap to fungraph |
| topic | growth growth equation forest tree genetic architecture functional mapping functional graphing |
| url | https://www.maxapress.com/article/doi/10.48130/FR-2021-0019 |
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