Converging functional phenotyping with systems mapping to illuminate the genotype–phenotype associations

IF 8.7 1区 农林科学 Q1 Agricultural and Biological Sciences Horticulture Research Pub Date : 2024-09-09 DOI:10.1093/hr/uhae256
Ting Sun, Zheng Shi, Rujia Jiang, Menachem Moshelion, Pei Xu
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Abstract

Illuminating the phenotype–genotype black box under complex traits is an ambitious goal for researchers. The generation of temporally or spatially phenotypic data today has far outpaced its interpretation, due to their highly dynamic nature depending on the environment and developmental stages. Here we propose an integrated enviro-pheno-geno functional approach to pinpoint the major challenges of decomposing physiological traits. The strategy first features high-throughput functional physiological phenotyping (FPP) to efficiently acquire phenotypic and environmental data. It then features functional mapping (FM) and the extended systems mapping (SM) to tackle trait dynamics. FM, by modeling traits as continuous functions, can increase the power and efficiency in dissecting the spatiotemporal effects of QTLs. SM could enable reconstruction of a genotype–phenotype map from developmental pathways. We present a recent case study that combines FPP and SM to dissect complex physiological traits. This integrated approach will be an important engine to drive the translation of phenomic big data into genetic gain.
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将功能表型与系统图谱相结合,阐明基因型与表型之间的联系
阐明复杂性状下的表型-基因型黑箱是研究人员的一个宏伟目标。由于表型数据受环境和发育阶段的影响而具有高度动态性,因此当今生成的时间或空间表型数据远远超过了对其的解释。在此,我们提出了一种综合的环境-表型-基因功能方法,以精确定位分解生理性状所面临的主要挑战。该策略首先以高通量功能生理表型(FPP)为特色,高效获取表型和环境数据。然后,以功能图谱(FM)和扩展系统图谱(SM)为特色,解决性状动态问题。功能图谱将性状建模为连续函数,可提高剖析 QTL 时空效应的能力和效率。SM可以通过发育途径重建基因型-表型图谱。我们介绍了最近的一项案例研究,该研究结合了 FPP 和 SM 来剖析复杂的生理性状。这种综合方法将成为推动表型组大数据转化为遗传增益的重要引擎。
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来源期刊
Horticulture Research
Horticulture Research Biochemistry, Genetics and Molecular Biology-Biochemistry
CiteScore
11.20
自引率
6.90%
发文量
367
审稿时长
20 weeks
期刊介绍: Horticulture Research, an open access journal affiliated with Nanjing Agricultural University, has achieved the prestigious ranking of number one in the Horticulture category of the Journal Citation Reports ™ from Clarivate, 2022. As a leading publication in the field, the journal is dedicated to disseminating original research articles, comprehensive reviews, insightful perspectives, thought-provoking comments, and valuable correspondence articles and letters to the editor. Its scope encompasses all vital aspects of horticultural plants and disciplines, such as biotechnology, breeding, cellular and molecular biology, evolution, genetics, inter-species interactions, physiology, and the origination and domestication of crops.
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