Identification of Key Pathways and Genes Related to the Development of Hair Follicle Cycle in Cashmere Goats

Wang, Jianfang; Sui, Jie; Mao, Chao; Li, Xiaorui; Chen, Xingyi; Liang, Chengcheng; Wang, Xiaohui; Wang, Si-Hu; Jia, Caixia

doi:10.3390/genes12020180

Cited by 33 publications

(28 citation statements)

References 86 publications

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“…To define this group, a complete analysis of all correlations between the levels of transcripts was performed. WGCNA [29] was chosen because of its potential to unravel the gene regulatory architecture of complex traits [38,39]. This tool proposes to cluster genes into modules based on their co-expression across a set of samples.…”

Section: Discussionmentioning

confidence: 99%

Correlation Networks Provide New Insights into the Architecture of Testicular Steroid Pathways in Pigs

Robic

Faraut

Fève

et al. 2021

Genes

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Steroid metabolism is a fundamental process in the porcine testis to provide testosterone but also estrogens and androstenone, which are essential for the physiology of the boar. This study concerns boars at an early stage of puberty. Using a RT-qPCR approach, we showed that the transcriptional activities of several genes providing key enzymes involved in this metabolism (such as CYP11A1) are correlated. Surprisingly, HSD17B3, a key gene for testosterone production, was absent from this group. An additional weighted gene co-expression network analysis was performed on two large sets of mRNA-seq to identify co-expression modules. Of these modules, two containing either CYP11A1 or HSD17B3 were further analyzed. This comprehensive correlation meta-analysis identified a group of 85 genes with CYP11A1 as hub gene, but did not allow the characterization of a robust correlation network around HSD17B3. As the CYP11A1-group includes most of the genes involved in steroid synthesis pathways (including LHCGR encoding for the LH receptor), it may control the synthesis of most of the testicular steroids. The independent expression of HSD17B3 probably allows part of the production of testosterone to escape this control. This CYP11A1-group contained also INSL3 and AGT genes encoding a peptide hormone and an angiotensin peptide precursor, respectively.

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Section: Discussionmentioning

confidence: 99%

Correlation Networks Provide New Insights into the Architecture of Testicular Steroid Pathways in Pigs

Robic

Faraut

Fève

et al. 2021

Genes

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“…With the rapid development of high-throughput sequencing technology, some regulatory factors and signaling pathways involved in the hair follicle cycle have been found through differential expression and functional enrichment analysis. These well-known regulatory molecules and signaling pathways include Wnt/β-catenin [14][15][16], bone morphogenetic proteins (BMPs) [17,18], sonic hedgehog (SHH) [19], notch [20], fibroblast growth factors (FGFs) [21], transforming growth factors (TGFs) [22] and keratin-associated proteins (KRTAPs) [5,23], etc.…”

Section: Introductionmentioning

confidence: 99%

Time-course RNA-seq analysis reveals stage-specific and melatonin-triggered gene expression patterns during the hair follicle growth cycle in Capra hircus

Cong

et al. 2022

BMC Genomics

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Background Cashmere goat is famous for its high-quality fibers. The growth of cashmere in secondary hair follicles exhibits a seasonal pattern arising from circannual changes in the natural photoperiod. Although several studies have compared and analyzed the differences in gene expression between different hair follicle growth stages, the selection of samples in these studies relies on research experience or morphological evidence. Distinguishing hair follicle growth cycle according to gene expression patterns may help to explore the regulation mechanisms related to cashmere growth and the effect of melatonin from a molecular level more accurately. Results In this study, we applied RNA-sequencing to the hair follicles of three normal and three melatonin-treated Inner Mongolian cashmere goats sampled every month during a whole hair follicle growth cycle. A total of 3559 and 988 genes were subjected as seasonal changing genes (SCGs) in the control and treated groups, respectively. The SCGs in the normal group were divided into three clusters, and their specific expression patterns help to group the hair follicle growth cycle into anagen, catagen and telogen stages. Some canonical pathways such as Wnt, TGF-beta and Hippo signaling pathways were detected as promoting the hair follicle growth, while Cell adhesion molecules (CAMs), Cytokine-cytokine receptor interaction, Jak-STAT, Fc epsilon RI, NOD-like receptor, Rap1, PI3K-Akt, cAMP, NF-kappa B and many immune-related pathways were detected in the catagen and telogen stages. The PI3K-Akt signaling, ECM-receptor interaction and Focal adhesion were found in the transition stage between telogen to anagen, which may serve as candidate biomarkers for telogen-anagen regeneration. A total of 16 signaling pathways, 145 pathway mRNAs, and 93 lncRNAs were enrolled to construct the pathway-mRNA-lncRNA network, which indicated the function of lncRNAs through interacting with their co-expressed mRNAs. Pairwise comparisons between the control and melatonin-treated groups also indicated 941 monthly differentially expressed genes (monthly DEGs). These monthly DEGs were mainly distributed from April and September, which revealed a potential signal pathway map regulating the anagen stage triggered by melatonin. Enrichment analysis showed that Wnt, Hedgehog, ECM, Chemokines and NF-kappa B signaling pathways may be involved in the regulation of non-quiescence and secondary shedding under the influence of melatonin. Conclusions Our study decoded the key regulators of the whole hair follicle growth cycle, laying the foundation for the control of hair follicle growth and improvement of cashmere yield.

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“…The key genes and regulatory factors regulating wool density and growth remain elusive. The RNA sequencing (RNA-seq) technology has become a common tool to effectively analyze the periodic growth of skin hair follicles and the regulation mechanism of hair growth at the molecular biology level [ 20 – 22 ].…”

Section: Introductionmentioning

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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Identification of Key Pathways and Genes Related to the Development of Hair Follicle Cycle in Cashmere Goats

Cited by 33 publications

References 86 publications

Correlation Networks Provide New Insights into the Architecture of Testicular Steroid Pathways in Pigs

Correlation Networks Provide New Insights into the Architecture of Testicular Steroid Pathways in Pigs

Time-course RNA-seq analysis reveals stage-specific and melatonin-triggered gene expression patterns during the hair follicle growth cycle in Capra hircus

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

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