Evidence map›Paper›PMID 34991478›Full record

ArticleBMC genomics2022

Genome-wide association study identifies SNPs for growth performance and serum indicators in Valgus-varus deformity broilers (Gallus gallus) using ddGBS sequencing.

Yaping Guo, Hetian Huang, Zhenzhen Zhang, Yanchao Ma, Jianzeng Li, Hehe Tang, Haoxiang Ma, Zhuanjian Li, Wenting Li, Xiaojun Liu and 2 more

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

Article in BMC genomics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
3.9field-weighted citation impact, top 6% 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

2 citing papers in PubMed, 19 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

12 authors at 1 institution in 1 country.

Yaping Guo *College of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Hetian Huang *College of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Zhenzhen ZhangCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Yanchao MaCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Jianzeng LiCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Hehe TangCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Haoxiang MaCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Zhuanjian LiCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Wenting LiCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Xiaojun LiuCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China.
Xiangtao KangCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China. xtkang2001@263.net.
Ruili HanCollege of animal science and technology, Henan Agricultural University, Zhengzhou, Henan Province, 450002, P.R. China. rlhan@126.com.
Henan Agricultural University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundValgus-varus deformity (VVD) is a lateral or middle deviation of the tibiotarsus or tarsometatarsus, which is associated with compromised growth, worse bone quality and abnormal changes in serum indicators in broilers. To investigate the genetic basis of VVD, a genome wide association study (GWAS) was performed to identify candidate genes and pathways that are responsible for VVD leg disease, serum indicators and growth performance in broilers.

resultsIn total, VVD phenotype, seven serum indicators and three growth traits were measured for 126 VVD broilers (case group) and 122 sound broilers (control group) based on a high throughput genome wide genotyping-by-sequencing (GBS) method. After quality control 233 samples (113 sound broilers and 120 VVD birds) and 256,599 single nucleotide polymorphisms (SNPs) markers were used for further analysis. As a result, a total of 5 SNPs were detected suggestively significantly associated with VVD and 70 candidate genes were identified that included or adjacent to these significant SNPs. In addition, 43 SNPs located on Chr24 (0.22 Mb - 1.79 Mb) were genome-wide significantly associated with serum alkaline phosphatase (ALP) and 38 candidate genes were identified. Functional enrichment analysis showed that these genes are involved in two Gene Ontology (GO) terms related to bone development (cartilage development and cartilage condensation) and two pathways related to skeletal development (Toll-like receptor signaling pathway and p53 signaling pathway). BARX2 (BARX homeobox 2) and Panx3 (Pannexin 3) related to skeleton diseases and bone quality were obtained according to functional analysis. According to the integration of GWAS with transcriptome analysis, HYLS1 (HYLS1 centriolar and ciliogenesis associated) was an important susceptibility gene.

conclusionsThe results provide some reference for understanding the relationship between metabolic mechanism of ALP and pathogenesis of VVD, which will provide a theoretical basis for disease-resistant breeding of chicken leg soundness.

Indexed as

ChickensGenome-Wide Association StudyAnimalsGene Expression ProfilingPhenotypePolymorphism, Single NucleotideBroilerGenome-wide association studyGrowth performanceSerum indicatorsValgus-varus deformity

Identifiers

PMID34991478
PMCPMC8734266
OpenAlexW4206239907

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LicenceCC BY
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Registered trials

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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.