Evidence map›Paper›PMID 35403571›Full record

ArticleBioengineered2022

Transcriptome analysis of thymic tissues from Chinese Partridge Shank chickens with or without Newcastle disease virus LaSota vaccine injection via high-throughput RNA sequencing.

Furong Nie, Jingfeng Zhang, Mengyun Li, Xuanniu Chang, Haitao Duan, Haoyan Li, Jia Zhou, Yudan Ji, Liangxing Guo

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

Article in Bioengineered, 2022. 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
0.1field-weighted citation impact, top 63% 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, 2 citations in OpenAlex.

  1. 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

9 authors at 1 institution in 1 country.

Furong NieHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Jingfeng ZhangHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Mengyun LiHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Xuanniu ChangHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Haitao DuanHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Haoyan LiHenan Chenxia Biomedical Co., Ltd, Zhengzhou, China.
Jia ZhouHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Yudan JiHenan University of Animal Husbandry and Economy, Zhengzhou, China.
Liangxing GuoHenan University of Animal Husbandry and Economy, Zhengzhou, China.ORCID 0000-0003-2672-4253
Henan University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The LaSota strain of Newcastle disease virus (NDV) is a commonly used vaccine to control Newcastle disease. However, improper immunization is a common reason for vaccine failure. Hence, it is imperative to thoroughly explore innate immunity-related molecular regulatory responses to the LaSota vaccine. In this text, 140 long non-coding RNAs (lncRNAs), 8 microRNAs (miRNAs), and 1514 mRNAs were identified to be differentially expressed by RNA sequencing analysis in the thymic tissues of Chinese Partridge Shank chickens after LaSota vaccine inoculation. Moreover, 70 dysregulated genes related to innate immunity were identified based on GO, Reactome pathway, and InnateDB annotations and differential expression analysis. Additionally, dysregulated lncRNAs and innate immunity-related mRNAs that could interact with dysregulated miRNAs were identified based on bioinformatics prediction analysis via the miRanda software and differential expression analysis. Among these transcripts, expression patterns of five lncRNAs, seven miRNAs, and six mRNAs were further examined by RT-qPCR assay. Both RNA-seq and RT-qPCR outcomes showed that 10 transcripts (MSTRG.22689.1, ENSGALT00000065826, ENSGALT00000059336, ENSGALT00000060887, gga-miR-6575-5p, gga-miR-6631-5p, gga-miR-1727, paraoxonase 2 (PON2), mitogen-activated protein kinase 10, and cystic fibrosis transmembrane conductance regulator (CFTR) were highly expressed, and 4 transcripts (MSTRG.188121.10, gga-miR-6655-5p, gga-miR-6548-3p, and matrix metallopeptidase 9 (MMP9) were low expressed after NDV infection. Additionally, two potential competing endogenous RNA networks (ENSGALT00000060887/gga-miR-6575-5p/PON2 or MSTRG.188121.10/gga-miR-6631-5p/MMP9) and some co-expression axes (ENSGALT00000065826/gga-miR-6631-5p, MSTRG.188121.10/gga-miR-6575-5p, MSTRG.188121.10/CFTR, ENSGALT00000060887/MMP9) were identified based on RT-qPCR and co-expression analyses. In conclusion, we identified multiple dysregulated lncRNAs, miRNAs, and mRNAs after LaSota infection and some potential regulatory networks for these dysregulated transcripts.

Indexed as

MicroRNAsRNA, Long NoncodingVaccinesAnimalsChickensChinaCystic Fibrosis Transmembrane Conductance RegulatorGene Expression ProfilingHigh-Throughput Nucleotide SequencingMatrix Metalloproteinase 9Newcastle disease virusRNA, MessengerTranscriptomeCystic Fibrosis Transmembrane Conductance RegulatorMatrix Metalloproteinase 9MicroRNAsRNA, Long NoncodingRNA, MessengerVaccinesinnate immuneLaSotalncRNAmicroRNAmRNANewcastle diseaseNewcastle disease virusRNA sequencing

Identifiers

PMID35403571
PMCPMC9161911
OpenAlexW4223439759

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.