An Integrated Analysis of Cashmere Fineness lncRNAs in Cashmere Goats

Zheng, Yawen; Sheng, Sheng D.; Hui, Tai Y.; Chang, Yue; Sun, Jia; Guo, Dan; Guo, Su L.; Li, Bo J.; Xue, Hui; Wang, Ze Y; Bai, Wen

doi:10.3390/genes10040266

Cited by 32 publications

(27 citation statements)

References 72 publications

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“…Empirical Bayes sequencing analysis identified 11 down-regulated and 32 up-regulated circRNAs in embryos with black fur skin and white fur skin of mice, and these circRNAs may play a role in skin pigmentation 28 . The effects of mRNA and lncRNA have been reported on the skin and hair follicles 29,30 , but there are few studies on the effect of circRNAs on the fineness of cashmere and cashmere growth.…”

Section: Discussionmentioning

confidence: 99%

Comprehensive analysis of circRNAs from cashmere goat skin by next generation RNA sequencing (RNA-seq)

Zheng

Hui

Chang

et al. 2020

Sci Rep

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circular RnA (circRnA) is endogenous non-coding RnA (ncRnA) with a covalently closed circular structure. it is mainly generated through RnA alternative splicing or back-splicing. circRnA is known in the majority of eukaryotes and very stable. However, knowledge of the circRnA involved in regulating cashmere fineness is limited. Skin samples were collected from Liaoning cashmere goats (LCG) and Inner Mongolia cashmere goats (MCG) during the anagen period. For differentially expressed circRNAs, RNA sequencing was performed, and the analysis led to an identification of 17 up-regulated circRNAs and 15 down-regulated circRNAs in LCG compared with MCG skin samples. In order to find the differentially expressed circRNAs in LCG, we carried out qPCRs on 10 candidate circRNAs in coarse type skin of LCG (CT-LCG) and fine type skin of LCG (FT-LCG). Four circRNAs: ciRNA128, circRNA6854, circRNA4154 and circRNA3620 were confirmed to be significantly differential expression in LCG. Also, a regulatory network of circRNAs-miRNAs was bioinformatically deduced and may help to understand molecular mechanisms of potential circRnA involvement in regulating cashmere fineness.

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Section: Discussionmentioning

confidence: 99%

Comprehensive analysis of circRNAs from cashmere goat skin by next generation RNA sequencing (RNA-seq)

Zheng

Hui

Chang

et al. 2020

Sci Rep

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“…Indeed, KRTDAP and CST6 are highest expressed in Cluster 9. Notably, KRT35 and KRTAP11-1, may be related to cashmere character 12 , whereas in goat their expressions are confined to Dermal papilla cells. Additionally, LEF1 is considered to be a hair-inducing gene of dermal papilla cells 13 .…”

Section: Results and Analysesmentioning

confidence: 99%

“…were reported to be differentially expressed in different cashmere bers 12 . Furthermore, the expression of S100A4 was the highest in SDPCs, which is may involve in Yangtze River Delta white goat hair growth 20 .…”

Section: Results and Analysesmentioning

confidence: 99%

10×Genomics Single-cell Sequencing Reveals Differential Cell Types in Skin Tissues of Liaoning Cashmere Goats and Key Genes Related Potentially to the Fineness of Cashmere Fiber

Zheng

Wang

Hui

et al. 2020

Preprint

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Cashmere fineness is one of the important factors determining cashmere quality, however, our understanding about the cells that make up the cashmere fineness is limited. Here, we used single-cell RNA sequencing (scRNA-seq) and computational models to identify 13 skin cell types in Liaoning Cashmere Goats. We also analyzed the molecular changes by Pseudo-Timeline Analysis in the development process and revealed the maturation process in gene expression profile in Liaoning Cashmere Goats. Weighted gene co-expression network analysis (WGCNA) explored hub genes in cell clusters related to cashmere formation. Secondary hair follicle dermal papilla cells (SDPCs) play an important role in the growth and density of cashmere. ACTA2, a marker gene of SDPCs, was selected for immunofluorescence (IF) and western blot (WB) verification. It was proved that it was mainly expressed in SDPCs, and WB results showed different expression levels. COL1A1 is a high expression gene in SDPCs, which was verified by IF and WB. Then select the function gene CXCL8 of SDPCs to verify, and prove the differential expression in the coarse type and the fine type of Liaoning Cashmere Goats. Therefore, COL1A1 may involve in regulated skin development and CXCL8 gene may regulate cashmere fineness. These genes may be involved in regulating the fineness of cashmere in goat secondary hair follicle dermal papilla cells, our research will provide new insights into the mechanism of cashmere growth and cashmere fineness regulation by cells.

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“…Moreover, many hair follicle-related genes were identified in this study. For example, WDR74 and WNT10A were related to hair follicle morphogenesis [ 43 ], and LRRC14 regulates hair follicle induction [ 45 ] and inhibits NF-kB activation [ 58 ]; therefore, these genes may regulate hair follicle induction and are important for hair follicle and epidermal appendage development [ 59 ].…”

Section: Discussionmentioning

confidence: 99%

Genetic Signatures of Selection for Cashmere Traits in Chinese Goats

Jin

Lü

Fei

et al. 2020

Animals

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Inner Mongolia and Liaoning cashmere goats in China are well-known for their cashmere quality and yield. Thus, they are great models for identifying genomic regions associated with cashmere traits. Herein, 53 Inner Mongolia cashmere goats, Liaoning cashmere goats and Huanghuai goats were genotyped, and 53,347 single-nucleotide polymorphisms (SNPs) were produced using the Illumina Caprine 50K SNP chip. Additionally, we identified some positively selected SNPs by analyzing Fst and XP-EHH. The top 5% of SNPs had selection signatures. After gene annotation, 222 and 173 candidate genes were identified in Inner Mongolia and Liaoning cashmere goats, respectively. Several genes were related to hair follicle development, such as TRPS1, WDR74, LRRC14, SPTLC3, IGF1R, PADI2, FOXP1, WNT10A and CSN3. Gene enrichment analysis of these cashmere trait-associated genes related 67 enriched signaling pathways that mainly participate in hair follicle development and stem cell pluripotency regulation. Furthermore, we identified 20 overlapping genes that were selected in both cashmere goat breeds. Among these overlapping genes, WNT10A and CSN3, which are associated with hair follicle development, are potentially involved in cashmere production. These findings may improve molecular breeding of cashmere goats in the future.

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An Integrated Analysis of Cashmere Fineness lncRNAs in Cashmere Goats

Cited by 32 publications

References 72 publications

Comprehensive analysis of circRNAs from cashmere goat skin by next generation RNA sequencing (RNA-seq)

Comprehensive analysis of circRNAs from cashmere goat skin by next generation RNA sequencing (RNA-seq)

10×Genomics Single-cell Sequencing Reveals Differential Cell Types in Skin Tissues of Liaoning Cashmere Goats and Key Genes Related Potentially to the Fineness of Cashmere Fiber

Genetic Signatures of Selection for Cashmere Traits in Chinese Goats

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