Evidence map›Paper›PMID 42086737›Full record

ArticleNature plants2026

Laminar patterning transcription factors orchestrate spatial metabolite partitioning in Capsicum fruit.

Jing Han, Yaping Tang, Zhiliang Yue, Wenjun Ji, Keying Geng, Hengjia Yang, Qiqi Jing, Jiahao Xu, Zhi Zhou, Yan Shi and 9 more

Abstract read
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In one paragraph

Article in Nature plants, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

19 authors.

Jing Han *Shandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Yaping Tang *Key Laboratory of Genome Research and Genetic Improvement of Xinjiang Characteristic Fruits and Vegetables, Xinjiang Academy of Agricultural Sciences, Urumqi, China.
Zhiliang Yue *Shandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.ORCID http://orcid.org/0000-0002-4205-8695
Wenjun Ji *Shandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.ORCID http://orcid.org/0000-0001-8705-0008
Keying Geng *Shandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Hengjia Yang *Shandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Qiqi JingShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Jiahao XuShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.ORCID http://orcid.org/0009-0003-6384-717X
Zhi ZhouState Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing, China.
Yan ShiShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Yuanyuan MiaoShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Jinshan LiShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Yongqi LiuShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Chunlei ZhangShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Xu WangShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China.
Jigang LiState Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing, China.ORCID http://orcid.org/0000-0002-4395-2656
Zhangsheng ZhuMinistry of Agriculture and Rural Affairs Key Laboratory of South China Horticultural Crop Biology and Germplasm Enhancement, College of Horticulture, South China Agricultural University, Guangzhou, China.ORCID http://orcid.org/0000-0001-8494-4583
Shengbao YangKey Laboratory of Genome Research and Genetic Improvement of Xinjiang Characteristic Fruits and Vegetables, Xinjiang Academy of Agricultural Sciences, Urumqi, China.
Bosheng LiShandong Key Laboratory of Precision Molecular Crop Design and Breeding, Peking University Institute of Advanced Agricultural Sciences, Shandong Laboratory of Advanced Agricultural Sciences in Weifang, Shandong, China. bosheng.li@pku-iaas.edu.cn.ORCID http://orcid.org/0000-0002-1816-7007

Funding

National Natural Science Foundation of China (National Science Foundation of China) 32170574National Natural Science Foundation of China (National Science Foundation of China) 32200249National Natural Science Foundation of China (National Science Foundation of China) 32460759Natural Science Foundation of Shandong Province (Shandong Provincial Natural Science Foundation) SYS202206Natural Science Foundation of Shandong Province (Shandong Provincial Natural Science Foundation) ZR2023QC026Natural Science Foundation of Shandong Province (Shandong Provincial Natural Science Foundation) ZR2023QC106
6 · The paper itself

Abstract

Chili pepper (Capsicum annuum L.) produces specialized metabolites, notably the pungent capsaicin and the red capsanthin. Although their biosynthetic pathways are well characterized, the cellular architecture that underpins spatial regulation remains unclear. Here we present a spatiotemporal single-nucleus atlas of pepper development, integrating single-nucleus RNA sequencing and spatial transcriptomics, profiling 332,468 high-quality cells from 57 samples spanning seedlings to mature fruits. This resource reveals a multilayered organization and precisely maps metabolic genes to defined cell types and spatial regions. We further identify laminar patterning transcription factors, including WRKY6, ZAT10 and BTF3, whose layer-specific expression correlates with localized capsanthin accumulation. Our work establishes a framework for dissecting laminar control of specialized metabolism and provides a valuable reference for comparative studies across species. The atlas is openly accessible at http://Pepper-Cell-Atlas.com .

Indexed as

CapsicumFruitPlant ProteinsTranscription FactorsGene Expression Regulation, PlantSpatial TranscriptomicsPlant ProteinsTranscription Factors

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Registered trials

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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 OpenQuestion graph.