Evidence map›Paper›PMID 33509086›Full record

ArticleBMC genomics2021

Genome-wide identification of ubiquitin proteasome subunits as superior reference genes for transcript normalization during receptacle development in strawberry cultivars.

Jianqing Chen, Jinyu Zhou, Yanhong Hong, Zekun Li, Xiangyu Cheng, Aiying Zheng, Yilin Zhang, Juanjuan Song, Guifeng Xie, Changmei Chen and 3 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2021. 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
0.7field-weighted citation impact, top 32% of its field
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, 13 citations in OpenAlex.

  1. Article
  2. Evaluation of reference genes for transcript normalization inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2022
    Article
  3. 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

13 authors at 1 institution in 1 country.

Jianqing Chen *College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China. Jianqingchen@fafu.edu.cn.ORCID http://orcid.org/0000-0001-8290-3649
Jinyu Zhou *College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Yanhong Hong *College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Zekun Li *College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Xiangyu ChengCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Aiying ZhengCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Yilin ZhangCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Juanjuan SongCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Guifeng XieCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Changmei ChenCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Meng YuanCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Tengyun WangCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
Qingxi ChenCollege of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China. cqx0246@fafu.edu.cn.
Fujian Agriculture and Forestry University · CN

Funding

Funds for the Plateau Discipline Construction of College of Horticulture, Fujian Agriculture and Forestry University 102/71201801101
6 · The paper itself

Abstract

backgroundGene transcripts that show invariant abundance during development are ideal as reference genes (RGs) for accurate gene expression analyses, such as RNA blot analysis and reverse transcription-quantitative real time PCR (RT-qPCR) analyses. In a genome-wide analysis, we selected three "Commonly used" housekeeping genes (HKGs), fifteen "Traditional" HKGs, and nine novel genes as candidate RGs based on 80 publicly available transcriptome libraries that include data for receptacle development in eight strawberry cultivars.

resultsThe results of the multifaceted assessment consistently revealed that expression of the novel RGs showed greater stability compared with that of the "Commonly used" and "Traditional" HKGs in transcriptome and RT-qPCR analyses. Notably, the majority of stably expressed genes were associated with the ubiquitin proteasome system. Among these, two 26 s proteasome subunits, RPT6A and RPN5A, showed superior expression stability and abundance, and are recommended as the optimal RGs combination for normalization of gene expression during strawberry receptacle development.

conclusionThese findings provide additional useful and reliable RGs as resources for the accurate study of gene expression during receptacle development in strawberry cultivars.

Indexed as

FragariaGene Expression ProfilingProteasome Endopeptidase ComplexReal-Time Polymerase Chain ReactionReference StandardsTranscriptomeUbiquitinProteasome Endopeptidase ComplexUbiquitinReceptacle developmentReference geneStrawberryUbiquitin 26S proteasome system

Identifiers

PMID33509086
PMCPMC7845027
OpenAlexW3125194924

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.