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

Shi, Ruijun; Li, Shuwei; Liu, Penggang; Zhang, Shuhui; Wu, Zhenhui; Wu, Tsan-Ming; Gong, Shujuan; Wan, Yu

doi:10.1371/journal.pone.0265989

“…It affects hair follicle cell proliferation and the hair growth cycle [35]. Shi R et al showed that KIT may affect the growth and density of wool [36]. In this study, the expression levels of LncRNA MSTRG.98769.1 andMSTRG.84658.1 and the target genes FGF1, IGF1, and KIT in STH skin tissues were also significantly higher than those of SM.…”

Section: Discussionsupporting

confidence: 54%

Analysis of LncRNA and mRNA Expression Profiles in Skin Tissues of Super Merino Sheep and Small-Tailed Han Sheep

Fu,

Hao,

Zhang

et al. 2023

Preprint

0

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Wool quality and yield are important economic traits of livestock. In this study, the skin tissues of the upper scapula of Super Merino sheep (SM) and Small-Tailed Han sheep (STH) during the growing period were studied. Differentially expressed (DE) long non-coding RNAs (lncRNAs) and messenger RNAs (mRNA) were identified via histopathological observation and high-throughput RNA sequencing. Gene ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) were used to analyze differentially expressed genes. Reverse transcription quantitative Polymerase Chain Reaction (RT-qPCR) was used to verify nine selected DE lncRNAs and five DE mRNAs. Significant differences were found in the expression levels of LOC114113396 (KRTAP15-1), CRABP1, KRT10, KRTAP1-3, KRTAP4.3, KRT2, FGF1, IGF-1, and KIT in SM and STH skin tissues. These results indicate that these mRNAs may play an important role in the growth and development of hair follicles and the regulation of hair fiber traits. Differentially expressed lncRNA target genes and mRNAs were mainly enriched in biological processes and pathways related to skin development and fiber traits, which is consistent with previous studies. LncRNA MSTRG.9225.1, MSTRG.124320.1, MSTRG.96951.1, MSTRG.91685.1, MSTRG.122229.1, MSTRG.89255.1, MSTRG.98769.1, and MSTRG.84658.1 may indirectly participate in the growth and development of sheep hair follicles and the regulation of hair fiber diameter by regulating the expression of their respective target genes. These candidate lncRNAs and mRNAs may provide a basis for the study of sheep hair follicle growth and development and hair fiber traits.

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“…Of the two genes shown above to be expressed in Dani o, KRTAP4-12 is expressed in human hair follicles (see Additional file 3 : Table S1 and also Marquardt et al 2015) [ 23 ], while KRTAP16-1 is expressed in human skin and hair (Tissue expression of KRTAP16-1—Summary—The Human Protein Atlas), and is noted also as being expressed in the wool of Hetian sheep [ 24 ].…”

Section: Resultsmentioning

confidence: 99%

Ancient lineages of the keratin-associated protein (KRTAP) genes and their co-option in the evolution of the hair follicle

Litman

¹

,

Stein

²

2023

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BLAST searches against the human genome showed that of the 93 keratin-associated proteins (KRTAPs) of Homo sapiens, 53 can be linked by sequence similarity to an H. sapiens metallothionein and 16 others can be linked similarly to occludin, while the remaining KRTAPs can themselves be linked to one or other of those 69 directly-linked proteins. The metallothionein-linked KRTAPs comprise the high-sulphur and ultrahigh-sulphur KRTAPs and are larger than the occludin-linked set, which includes the tyrosine- and glycine-containing KRTAPs. KRTAPs linked to metallothionein appeared in increasing numbers as evolution advanced from the deuterostomia, where KRTAP-like proteins with strong sequence similarity to their mammalian congeners were found in a sea anemone and a starfish. Those linked to occludins arose only with the later-evolved mollusca, where a KRTAP homologous with its mammalian congener was found in snails. The presence of antecedents of the mammalian KRTAPs in a starfish, a sea anemone, snails, fish, amphibia, reptiles and birds, all of them animals that lack hair, suggests that some KRTAPs may have a physiological role beyond that of determining the characteristics of hair fibres. We suggest that homologues of these KRTAPs found in non-hairy animals were co-opted by placodes, formed by the ectodysplasin pathway, to produce the first hair-producing cells, the trichocytes of the hair follicles.

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“…Of the two genes shown above to be expressed in Danio, KRTAP4-12 is expressed in human hair follicles (see File F2 of the Supplementary Materials and also Marquardt et al 2015) 22 , while KRTAP16-1 is expressed in human skin and hair (Tissue expression of KRTAP16-1 -Summary -The Human Protein Atlas), and is noted also as being expressed in the wool of Hetian sheep (Shi et al 2022) 23 .…”

Section: Expression Of Krtap Proteins In Non-mammalian Organismsmentioning

confidence: 99%

Ancient lineages of the keratin-associated protein (KRTAP) genes and their co- option in the evolution of the hair follicle

Litman

¹

,

Stein

²

2022

Preprint

View full text Add to dashboard Cite

BLAST searches against the human genome showed that of the 93 keratin-associated proteins (KRTAPs) of Homo sapiens, 53 can be linked by sequence similarity to an H. sapiens metallothionein and 16 others can be linked similarly to occludin, while the remaining KRTAPs can themselves be linked to one or other of those 69 directly-linked proteins. The metallothionein-linked KRTAPs comprise the high-sulphur and ultrahigh-sulphur KRTAPs and are larger than the occludin-linked set, which includes the tyrosine- and glycine-containing KRTAPs. KRTAPs linked to metallothionein appeared in increasing numbers as evolution advanced from the deuterostomia, where KRTAP-like proteins with strong sequence similarity to their mammalian congeners were found in a sea anemone and a starfish. Those linked to occludins arose only with the later-evolved mollusca, where a KRTAP homologous with its mammalian congener was found in snails. The presence of antecedents of the mammalian KRTAPs in a starfish, a sea anemone, snails, fish, amphibia, reptiles and birds, all of them animals that lack hair, suggests that some KRTAPs may have a physiological role beyond that of determining the characteristics of hair fibres. We suggest that homologues of these KRTAPs found in non-hairy animals were co-opted by placodes, formed by the ectodysplasin pathway, to produce the first hair-producing cells, the trichocytes of the hair follicles.

show abstract

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

Cited by 13 publications

References 60 publications

Analysis of LncRNA and mRNA Expression Profiles in Skin Tissues of Super Merino Sheep and Small-Tailed Han Sheep

Analysis of LncRNA and mRNA Expression Profiles in Skin Tissues of Super Merino Sheep and Small-Tailed Han Sheep

Ancient lineages of the keratin-associated protein (KRTAP) genes and their co-option in the evolution of the hair follicle

Ancient lineages of the keratin-associated protein (KRTAP) genes and their co- option in the evolution of the hair follicle

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