Evidence map›Paper›PMID 41918070›Full record

ArticleBMC plant biology2026

Transcriptomic profiling reveals stage-specific responses to cold stress in rice seedlings.

Yanting Li, Peng Zhang, Dianwei Yao, Ke Li, Tongyue Ouyang, Hao Li, Lihua Li, Jianqing Zhu, Xiaomei Jia, Xiaoying Ye and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC plant biology, 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
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0citing papers in PubMed
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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

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3 · Its place in the literature

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0 citing papers in PubMed.

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4 · The record

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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

12 authors.

Yanting LiState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Peng ZhangState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Dianwei YaoState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Ke LiState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Tongyue OuyangState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Hao LiState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Lihua LiState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Jianqing ZhuDemonstration Base for International Science & Technology Cooperation of Sichuan Province, Sichuan Agricultural University, 211, Huimin Road, Chengdu, 611130, China.
Xiaomei JiaDemonstration Base for International Science & Technology Cooperation of Sichuan Province, Sichuan Agricultural University, 211, Huimin Road, Chengdu, 611130, China.
Xiaoying YeDemonstration Base for International Science & Technology Cooperation of Sichuan Province, Sichuan Agricultural University, 211, Huimin Road, Chengdu, 611130, China.
Jun ZhuState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China.
Rongjun ChenState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute of Sichuan Agricultural University, Chengdu, 611130, China. 13782@sicau.edu.cn.

Funding

Natural Science Foundation of Sichuan Province 2025ZNSFSC0159Science and Technology Department of Sichuan Province 2024YFD1200904.
6 · The paper itself

Abstract

Cold stress severely restricts rice growth, development, productivity, and geographical distribution. Here, we performed dynamic transcriptome profiling to investigate cold tolerance and cold-responsive metabolic pathways across distinct seedling growth stages in japonica rice cv. Nipponbare. We found that cold tolerance in Nipponbare seedlings exhibited a non-linear, V-shaped pattern: it gradually declined from 2 to 14 days after germination and then showed an upward trend from 16 to 24 days. Integrated analyses of RNA-seq, RT-qPCR, and physiological parameters indicated that 4-day seedlings primarily relied on a passive cold-resistance mode characterized by ‘low metabolism with high basal reserves’; 22-day seedlings adopted an active mode featuring ‘a strong antioxidant enzyme system with activation of secondary metabolism’; whereas 14-day seedlings represented a key transition stage marked by ‘growth-defense imbalance’. Collectively, our study elucidates seedling-age-dependent differences in cold tolerance and the corresponding metabolic regulatory mechanisms in Nipponbare, providing a theoretical basis for genetic improvement of cold tolerance in rice.

Indexed as

Cold-Shock ResponseOryzaSeedlingsTranscriptomeCold TemperatureGene Expression ProfilingGene Expression Regulation, PlantCold stressGrowth-defense trade-offKEGGRiceV-shaped pattern

Identifiers

PMID41918070
PMCPMC13182100

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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.