Evidence map›Paper›PMID 41042306›Full record

ArticleRice (New York, N.Y.)2025

Seeing Red, Selecting True: RUBY-Reported Seed Marker Streamlines CRISPR-Clean Rice Breeding.

Jin-Lei Liu, Tao Yang, Yu-Wei Fu, Zhitian Zhan, Hong Chen, Han Cheng, Jiankun Zhou, Yi-Ming Wang, Li-Jun Tang, Wen-Qiang Chen and 5 more

Abstract readLetter
In one paragraph

Article in Rice (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Article
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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

15 authors.

Jin-Lei Liu *State Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Tao Yang *State Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Yu-Wei FuSchool of Ecology and Environmental Science, Yunnan University, Kunming, China.
Zhitian ZhanState Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, 210095, China.
Hong ChenState Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing, 210095, China.
Han ChengState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Jiankun ZhouState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Yi-Ming WangState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Li-Jun TangState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Wen-Qiang ChenState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Ming-Wei WuState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Dake ZhaoSchool of Ecology and Environmental Science, Yunnan University, Kunming, China.
Chun-Ming LiuState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
Yubing HeKey Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, National Nanfan Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Sanya, China. heyubing@caas.cn.
Jinxin LiuState Key Laboratory of Forage Breeding-by-Design and Utilization, Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China. jxliu@ibcas.ac.cn.

Funding

Nanfan special project of CAAS YBXM2307Nanfan special project of CAAS YBXM2405Nanfan special project of CAAS YBXM2446National Key Research and Development Program of China 2024YFF1000600National Natural Science Foundation of China 32070348National Natural Science Foundation of China 32200335National Natural Science Foundation of China 32230077Youth innovation Program of Chinese Academy of Agricultural Sciences Y2023QC39
6 · The paper itself

Abstract

The Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-CRISPR-associated protein (Cas)9 genome-editing technology has become a cornerstone for generating knockout mutations in plant functional genomics. To obtain genetically stable CRISPR-edited plants, the removal of exogenous CRISPR constructs through genetic segregation is imperative. However, current transgene-free strategies lack universality and operational simplicity. Here, we developed a modular CRISPR toolkit integrated with the widely applicable visual RUBY marker. This system achieved 100% editing efficiency in three independent CRISPR-Cas9 editing events in rice (cv. Zhonghua 11), enabled rapid visual identification of transgene-free progeny, and may provide a framework for future adaptation of CRISPR vectors to other plant species. Our design significantly accelerates the identification of edited lines while bypassing laborious molecular validation steps.

Indexed as

CRISPR-Cas9Genome editingRUBYTransgene-freeVisible marker-assisted selection

Identifiers

PMID41042306
PMCPMC12495005

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

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.