Evidence map›Paper›PMID 40796913›Full record

ArticleNature communications2025

Comparative genomic analyses reveal different genetic basis of two types of fruit in Maloideae.

Yi Wang, Hongju Hu, Juntong Jin, Hui Yuan, Jingguo Zhang, Yuqing Wang, Mingqian Wang, Shaobo Yin, Jiaming Zhao, Shijiao Lin and 7 more

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Comprehensive Analysis of thePlants (Basel, Switzerland) · 2025
    Article
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

17 authors.

Yi Wang *Key Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Hongju Hu *Institute of Fruit and Tea, Hubei Academy of Agricultural Sciences, Wuhan, China.
Juntong Jin *Key Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Hui Yuan *Key Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Jingguo Zhang *Institute of Fruit and Tea, Hubei Academy of Agricultural Sciences, Wuhan, China.
Yuqing WangKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Mingqian WangKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Shaobo YinKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Jiaming ZhaoKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Shijiao LinKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Yuling LiangKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Jiayao WangKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Shipeng WeiKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Weiting LiuKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China.
Bin LiKey Laboratory of Healthy Food Nutrition and Innovative Manufacturing (Liaoning Province), College of Food, Shenyang Agricultural University, Shenyang, China.
Yinglin JiKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China. jiyl@syau.edu.cn.ORCID http://orcid.org/0000-0002-1595-1998
Aide WangKey Laboratory of Fruit Postharvest Biology (Liaoning Province), College of Horticulture, Shenyang Agricultural University, Shenyang, China. awang@syau.edu.cn.ORCID http://orcid.org/0000-0002-7034-7021

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Fleshy fruits are classified as ethylene-dependent or ethylene-independent according to the ethylene climacteric at the onset of ripening. However, the mechanism forming these two types of fruits is unclear. Pears (Pyrus spp.) contain the both types, thus can serve as a model system to answer this question. Here, we assemble haplotype-resolved and chromosome-level genomes for ethylene-dependent and ethylene-independent accessions, and re-sequence 118 pear accessions. Two long noncoding RNAs named Ethylene Inhibiting Factor 1 (EIF1) and EIF2 are identified, which suppress the transcription of ethylene biosynthesis gene ACS1 and ethylene biosynthesis, generating ethylene-independent fruit. Comparative genomic analyses reveal that allele-specific structural variations result in the loss of EIF1 and/or EIF2, removing the suppression on ACS1 transcription and generating ethylene-dependent fruit. Further study reveals that, in most common fleshy fruits of Maloideae, EIF homologue exits in ethylene-independent pear and loquat and is transcribed; while in ethylene-dependent apple and hawthorn, EIF homologue does not exist in their genomes.

Indexed as

FruitGenome, PlantPyrusEthylenesGene Expression Regulation, PlantGenomicsMalusPlant ProteinsRNA, Long NoncodingethyleneEthylenesPlant ProteinsRNA, Long Noncoding

Identifiers

PMID40796913
PMCPMC12343845

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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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 Socratic graph.