Identification of potential key genes and pathways associated with the Pashmina fiber initiation using RNA-Seq and integrated bioinformatics analysis

Bhat, Basharat Ahmad; Yaseen, Mıfftha; Singh, Ashutosh; Ahmad, Syed Mudasir; Ganai, Nazir Ahmad

doi:10.1038/s41598-021-81471-6

Cited by 18 publications

(12 citation statements)

References 39 publications

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“…Most of these genes are related to cell growth, and some researchers have found that the treatment of acute wounds in rats with IGF1 -overexpressing fibroblasts can significantly improve the rate of wound healing ( 37 ). ITGAV has been proven to be a key gene for the initiation of goat cashmere growth ( 38 ). Cyclin-dependent kinase 6 ( CDK6 ) is an important regulator of the cell cycle and plays a role to similar CDK4 as a mediator of keratinocyte proliferation ( 39 ).…”

Section: Discussionmentioning

confidence: 99%

Identification of key pathways and genes that regulate cashmere development in cashmere goats mediated by exogenous melatonin

Liu

et al. 2022

Front. Vet. Sci.

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The growth of secondary hair follicles in cashmere goats follows a seasonal cycle. Melatonin can regulate the cycle of cashmere growth. In this study, melatonin was implanted into live cashmere goats. After skin samples were collected, transcriptome sequencing and histological section observation were performed, and weighted gene co-expression network analysis (WGCNA) was used to identify key genes and establish an interaction network. A total of 14 co-expression modules were defined by WGCNA, and combined with previous analysis results, it was found that the blue module was related to the cycle of cashmere growth after melatonin implantation. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis showed that the first initiation of exogenous melatonin-mediated cashmere development was related mainly to the signaling pathway regulating stem cell pluripotency and to the Hippo, TGF-beta and MAPK signaling pathways. Via combined differential gene expression analyses, 6 hub genes were identified: PDGFRA, WNT5A, PPP2R1A, BMPR2, BMPR1A, and SMAD1. This study provides a foundation for further research on the mechanism by which melatonin regulates cashmere growth.

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Section: Discussionmentioning

confidence: 99%

Identification of key pathways and genes that regulate cashmere development in cashmere goats mediated by exogenous melatonin

Liu

et al. 2022

Front. Vet. Sci.

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“…Hair growth has a complex mechanism regulated by a variety of endogenous and exogenous factors [ 28 ]. Understanding the genetic basis of wool phenotype assist in improving the efficiency of wool production, and in identifying the molecular determinants of wool density and phenotype differences.…”

Section: Discussionmentioning

confidence: 99%

Identification of key genes and signaling pathways related to Hetian sheep wool density by RNA-seq technology

Shi

Liu

et al. 2022

PLoS ONE

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Hetian sheep is a breed of sheep unique to the Hetian area of Xinjiang whose wool is used for producing blankets. Individual differences and hair follicle density are the key factors affecting wool production. Therefore, this study aimed to assess the Hetian sheep having different wool densities to statistically analyze the wool traits and hair follicle parameters. Furthermore, the transcriptome sequencing analysis was performed on the skins with different wool densities. The results showed that wool quantity and total hair follicle density of the high wool density sheep was significantly higher than low wool density sheep. The sheepskin with high wool density was found to grow more and finer wool than sheepskin with low wool density. A total of 1,452 differentially expressed genes were screened from the two sets of samples, including 754 upregulated and 698 downregulated genes. The differentially expressed genes were involved in the TGF-β/BMP and MAPK signaling pathways related to hair growth. Eleven differentially expressed genes belonging to the KAPs and KIFs might affect the fineness of the wool. The key genes, like the TNF, MAP2K2, INHBA, FST, PTPN11, MAP3K7, KIT, and BMPR1A, were found to probably affect the growth and density of the wool. The qPCR verified eight genes related to the MAPK pathway whose gene expression trends were consistent with the transcriptome sequencing results. This study furnishes valuable resources for enhancing the quality and production of wool in the Hetian sheep.

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“…KEGG database [ 58 ] was used for the identification of pathways regulated by gene-set. To gain insight into the functional and enrichment analysis g: profiler webserver was used [ 59 ] using Capra hircus as reference.…”

Section: Methodsmentioning

confidence: 99%

Scavenger receptor B1 facilitates the endocytosis of Escherichia coli via TLR4 signaling in mammary gland infection

et al. 2023

Self Cite

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SCARB1 belongs to class B of Scavenger receptors (SRs) that are known to be involved in binding and endocytosis of various pathogens. SRs have emerging role in regulating innate immunity and host–pathogen interactions by acting in co-ordination with Toll-like receptors.Query Little is known about the function of SCARB1 in milk-derived mammary epithelial cells (MECs). This study reports the role of SCARB1 in infection and its potential association in TLR4 signaling on bacterial challenge in Goat mammary epithelial cells (GMECs). The novelty in the establishment of MEC culture lies in the method that aims to enhance the viability of the cells with intact characteristics upto a higher passage number. We represent MEC culture to be used as a potential infection model for deeper understanding of animal physiology especially around the mammary gland. On E.coli challenge the expression of SCARB1 was significant in induced GMECs at 6 h. Endoribonuclease-esiRNA based silencing of SCARB1 affects the expression of TLR4 and its pathways i.e. MyD88 and TRIF pathways on infection. Knockdown also affected the endocytosis of E.coli in GMECs demonstrating that E.coli uses SCARB1 function to gain entry in cells. Furthermore, we predict 3 unique protein structures of uncharacterized SCARB1 (Capra hircus) protein. Overall, we highlight SCARB1 as a main participant in host defence and its function in antibacterial advances to check mammary gland infections.

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Identification of potential key genes and pathways associated with the Pashmina fiber initiation using RNA-Seq and integrated bioinformatics analysis

Cited by 18 publications

References 39 publications

Identification of key pathways and genes that regulate cashmere development in cashmere goats mediated by exogenous melatonin

Identification of key pathways and genes that regulate cashmere development in cashmere goats mediated by exogenous melatonin

Identification of key genes and signaling pathways related to Hetian sheep wool density by RNA-seq technology

Scavenger receptor B1 facilitates the endocytosis of Escherichia coli via TLR4 signaling in mammary gland infection

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