Evidence map›Paper›PMID 39043952›Full record

ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2024

Mining for QTL controlling maize low-phosphorus response genes combined with deep resequencing of RIL parental genomes and in silico GWAS analysis.

Bowen Luo, Peng Ma, Chong Zhang, Xiao Zhang, Jing Li, Junchi Ma, Zheng Han, Shuhao Zhang, Ting Yu, Guidi Zhang and 12 more

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Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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1 · What the graph read from it

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

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3 · Its place in the literature

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4 · The record

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5 · Who and what money

Authors and funding

22 authors.

Bowen LuoState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Chengdu, 611130, Sichuan, China.
Peng MaMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Chong ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Xiao ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Jing LiMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Junchi MaMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Zheng HanMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Shuhao ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Ting YuMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Guidi ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Hongkai ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Haiying ZhangMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Binyang LiMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Jia GuoRice Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Ping GeSaileGene Inc, Beijing, 100020, China.
Yuzhou LanDepartment of Plant Breeding, The Swedish University of Agricultural Sciences, P.O. Box 190, 23422, Lomma, Sweden.
Dan LiuMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Ling WuMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Duojiang GaoMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Shiqiang GaoMaize Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Shunzong SuCollege of Resources, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
Shibin GaoState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Chengdu, 611130, Sichuan, China. shibingao@163.com.ORCID http://orcid.org/0000-0001-7184-580X

Funding

China Agriculture Research System CARS-02Crop Characteristic Resources Creation and Utilization Key Laboratory of Sichuan Province No. myzdsys23-02National Key Research and Development Program of China 2021YFD1200704Natural Science Foundation of China 32101655Postdoctoral Research Foundation of China 2022M712292Sichuan Province Science and Technology Support Program 2021YFFZ0017Sichuan Province Science and Technology Support Program 2021YFYZ0027Sichuan Province Science and Technology Support Program 2023YFH0038
6 · The paper itself

Abstract

key messageExtensive and comprehensive phenotypic data from a maize RIL population under both low- and normal-Pi treatments were used to conduct QTL mapping. Additionally, we integrated parental resequencing data from the RIL population, GWAS results, and transcriptome data to identify candidate genes associated with low-Pi stress in maize. Phosphorus (Pi) is one of the essential nutrients that greatly affect the maize yield. However, the genes underlying the QTL controlling maize low-Pi response remain largely unknown. In this study, a total of 38 traits at both seedling and maturity stages were evaluated under low- and normal-Pi conditions using a RIL population constructed from X178 (tolerant) and 9782 (sensitive), and most traits varied significantly between low- and normal-Pi treatments. Twenty-nine QTLs specific to low-Pi conditions were identified after excluding those with common intervals under both low- and normal-Pi conditions. Furthermore, 45 additional QTLs were identified based on the index value ((Trait_under_LowPi-Trait_under_NormalPi)/Trait_under_NormalPi) of each trait. These 74 QTLs collectively were classified as Pi-dependent QTLs. Additionally, 39 Pi-dependent QTLs were clustered in nine HotspotQTLs. The Pi-dependent QTL interval contained 19,613 unique genes, 6,999 of which exhibited sequence differences with non-synonymous mutation sites between X178 and 9782. Combined with in silico GWAS results, 277 consistent candidate genes were identified, with 124 genes located within the HotspotQTL intervals. The transcriptome analysis revealed that 21 genes, including the Pi transporter ZmPT7 and the strigolactones pathway-related gene ZmPDR1, exhibited consistent low-Pi stress response patterns across various maize inbred lines or tissues. It is noteworthy that ZmPDR1 in maize roots can be sharply up-regulated by low-Pi stress, suggesting its potential importance as a candidate gene for responding to low-Pi stress through the strigolactones pathway.

Indexed as

Chromosome MappingPhosphorusQuantitative Trait LociZea maysComputer SimulationGene Expression Regulation, PlantGenes, PlantGenome, PlantHigh-Throughput Nucleotide SequencingPhenotypePhosphorus

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PMID39043952

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.