Identification of relevant differential genes to the divergent development of pectoral muscle in ducks by transcriptomic analysis

There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

Abstract

Objective

The objective of this study was to identify candidate genes that play important roles in skeletal muscle development in ducks.

Methods

In this study, we investigated the transcriptional sequencing of embryonic pectoral muscles from two specialized lines: Liancheng white ducks (female) and Cherry valley ducks (male) hybrid Line A (LCA) and Line C (LCC) ducks. In addition, prediction of target genes for the differentially expressed mRNAs was conducted and the enriched gene ontology (GO) terms and Kyoto encyclopedia of genes and genomes signaling pathways were further analyzed. Finally, a protein-to-protein interaction network was analyzed by using the target genes to gain insights into their potential functional association.

Results

A total of 1,428 differentially expressed genes (DEGs) with 762 being up-regulated genes and 666 being down-regulated genes in pectoral muscle of LCA and LCC ducks identified by RNA-seq (p<0.05). Meanwhile, 23 GO terms in the down-regulated genes and 75 GO terms in up-regulated genes were significantly enriched (p<0.05). Furthermore, the top 5 most enriched pathways were ECM-receptor interaction, fatty acid degradation, pyruvate degradation, PPAR signaling pathway, and glycolysis/gluconeogenesis. Finally, the candidate genes including integrin b3 ( Itgb3), pyruvate kinase M1/2 ( Pkm), insulin-like growth factor 1 ( Igf1), glucose-6-phosphate isomerase ( Gpi), GABA type A receptor-associated protein-like 1 ( Gabarapl1), and thyroid hormone receptor beta ( Thrb) showed the most expression difference, and then were selected to verification by quantitative real-time polymerase chain reaction (qRT-PCR). The result of qRT-PCR was consistent with that of transcriptome sequencing.

Conclusion

This study provided information of molecular mechanisms underlying the developmental differences in skeletal muscles between specialized duck lines.

Related collections

Most cited references 38

Record: found
Abstract: found
Article: not found

PKM2, cancer metabolism, and the road ahead.

Talya Dayton, Tyler Jacks, Matthew Vander Heiden (2016)

A major metabolic aberration associated with cancer is a change in glucose metabolism. Isoform selection of the glycolytic enzyme pyruvate kinase has been implicated in the metabolic phenotype of cancer cells, and specific pyruvate kinase isoforms have been suggested to support divergent energetic and biosynthetic requirements of cells in tumors and normal tissues. PKM2 isoform expression has been closely linked to embryogenesis, tissue repair, and cancer. In contrast, forced expression of the PKM1 isoform has been associated with reduced tumor cell proliferation. Here, we discuss the role that PKM2 plays in cells and provide a historical perspective for how the study of PKM2 has contributed to understanding cancer metabolism. We also review recent studies that raise important questions with regard to the role of PKM2 in both normal and cancer cell metabolism.

0 comments Cited 238 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: found
Article: not found

Is Open Access

Control of fresh meat quality through manipulation of muscle fiber characteristics.

S T Joo, G D Kim, Y Hwang … (2013)

Variations of fresh meat quality exist because the quality traits are affected by various intrinsic and extrinsic factors. Because the meat quality is basically dependent on muscle fiber characteristics, numerous studies have reported the relationship between quality traits and fiber characteristics. Despite intensive research, the relationship is yet to be fully established, however, the present knowledge suggests several potential ways to manipulate muscle fiber characteristics to improve meat quality. The present paper reviews the definition of fresh meat quality, meat quality traits and variations of meat quality. Also, this review presents recent knowledge underlying the relationship between fresh meat quality traits and muscle fiber characteristics. Finally, the present work proposes several potential factors including breed, genotype, sex, hormone, growth performance, diet, muscle location, exercise and ambient temperature that can be used to manipulate muscle fiber characteristics and subsequently meat quality in animals.

0 comments Cited 148 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: found
Article: not found

Hepatic autophagy is suppressed in the presence of insulin resistance and hyperinsulinemia: inhibition of FoxO1-dependent expression of key autophagy genes by insulin.

Hui-Yu Liu, Jianmin Han, Sophia Cao … (2009)

Autophagy is essential for maintaining both survival and health of cells. Autophagy is normally suppressed by amino acids and insulin. It is unclear what happens to the autophagy activity in the presence of insulin resistance and hyperinsulinemia. In this study, we examined the autophagy activity in the presence of insulin resistance and hyperinsulinemia and the associated mechanism. Insulin resistance and hyperinsulinemia were induced in mice by a high fat diet, followed by measurements of autophagy markers. Our results show that autophagy was suppressed in the livers of mice with insulin resistance and hyperinsulinemia. Transcript levels of some key autophagy genes were also suppressed in the presence of insulin resistance and hyperinsulinemia. Conversely, autophagy activity was increased in the livers of mice with streptozotocin-induced insulin deficiency. Levels of vps34, atg12, and gabarapl1 transcripts were elevated in the livers of mice with insulin deficiency. To study the mechanism, autophagy was induced by nutrient deprivation or glucagon in cultured hepatocytes in the presence or absence of insulin. Autophagy activity and transcript levels of vps34, atg12, and gabarapl1 genes were reduced by insulin. The effect of insulin was largely prevented by overexpression of the constitutive nuclear form of FoxO1. Importantly, autophagy of mitochondria (mitophagy) in cultured cells was suppressed by insulin in the presence of insulin resistance. Together, our results show that autophagy activity and expression of some key autophagy genes were suppressed in the presence of insulin resistance and hyperinsulinemia. Insulin suppression of autophagy involves FoxO1-mediated transcription of key autophagy genes.

0 comments Cited 139 times – based on 0 reviews      Review now

Bookmark

All references

Author and article information

Journal

Journal ID (nlm-ta): Anim Biosci

Journal ID (iso-abbrev): Anim Biosci

Title: Animal Bioscience

Publisher: Animal Bioscience

ISSN (Print): 2765-0189

ISSN (Electronic): 2765-0235

Publication date (Print): August 2024

Publication date (Electronic): 1 April 2024

Volume: 37

Issue: 8

Pages: 1345-1354

Affiliations

[1 ]Department of Animal Genetics, Breeding and Reproduction, College of Animal Science and Technology, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China

[2 ]Nanjing Institute of Animal Husbandry and Poultry Science, Nanjing, Jiangsu 210036, China

Author notes

[* ]Corresponding Authors: Debing Yu, Tel: +86-25-84395314, Fax: +86-25-84395314, E-mail: yudebing@ 123456njau.edu.cn . Minli Yu, Tel: +86-25-84395036, Fax: +86-25-84395036, E-mail: yuminli@ 123456njau.edu.cn

[a]

These authors contribute equal to this paper.

Author information

Fan Li https://orcid.org/0009-0009-6274-6100

Zongliang He https://orcid.org/0009-0002-3152-9874

Yinglin Lu https://orcid.org/0000-0002-7375-831X

Jing Zhou https://orcid.org/0009-0007-1644-1694

Heng Cao https://orcid.org/0009-0000-8225-8010

Xingyu Zhang https://orcid.org/0009-0007-1353-3243

Hongjie Ji https://orcid.org/0009-0000-3842-232X

Kunpeng Lv https://orcid.org/0009-0004-8378-2286

Debing Yu https://orcid.org/0000-0002-4803-8580

Minli Yu https://orcid.org/0000-0002-9902-6985

Article

Publisher ID: ab-23-0505

DOI: 10.5713/ab.23.0505

PMC ID: 11222850

PubMed ID: 38575126

SO-VID: 45c5acb2-3928-4e24-8395-9d4f34240efa

License:

This is an open-access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited

History

Date received : 1 December 2023

Date revision received : 12 January 2024

Date accepted : 26 January 2024

Comments

Comment on this article

scite_

Smart Citations

Citing PublicationsSupportingMentioningContrasting

View Citations

See how this article has been cited at scite.ai

scite shows how a scientific paper has been cited by providing the context of the citation, a classification describing whether it supports, mentions, or contrasts the cited claim, and a label indicating in which section the citation was made.

Most referenced authors 393

See all reference authors

Identification of relevant differential genes to the divergent development of pectoral muscle in ducks by transcriptomic analysis

Read this article at

Abstract

Objective

Methods

Results

Conclusion

Related collections

Measurement of Glucocorticoid Receptor Signaling in Major Depression

Most cited references 38

PKM2, cancer metabolism, and the road ahead.

Control of fresh meat quality through manipulation of muscle fiber characteristics.

Hepatic autophagy is suppressed in the presence of insulin resistance and hyperinsulinemia: inhibition of FoxO1-dependent expression of key autophagy genes by insulin.

Author and article information

Journal

Affiliations

Author notes

Author information

Article

History

Categories

Comments

Comment on this article

Similar content 423

Most referenced authors 393