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Research article
Ping Yan
Lanzhou Institute of Husbandry and Pharmaceutical Sciences of CAAS
Corresponding Author
ORCiD: https://orcid.org/0000-0001-9484-990X
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: Long non-coding RNA (lncRNA) as an important regulator has been demonstrated playing an indispensable role in the biological process of hair follicles (HFs) growth. However, their function and expression profile in the HFs cycle of yak are yet unknown. Only a few functional lncRNAs have been identified, partly due to the low sequence conservation and lack of identified conserved properties in lncRNAs. Here, lncRNA-seq was employed to detect the expression profile of lncRNAs during the HFs cycle of yak, and the sequence conservation of two datasets between yak and cashmere goat during the HFs cycle was analyzed.
Results: A total of 2884 lncRNAs were identified in 5 phases (Jan., Mar., Jun., Aug., and Oct.) during the HFs cycle of yak. Then, differential expression analysis between 3 phases (Jan., Mar., and Oct.) was performed, revealing that 198 differentially expressed lncRNAs (DELs) were obtained in the Oct.-vs-Jan. group, 280 DELs were obtained in the Jan.-vs-Mar. group, and 340 DELs were obtained in the Mar.-vs-Oct. group. Subsequently, the nearest genes of lncRNAs were searched as the potential target genes and used to explore the function of DELs by GO and KEGG enrichment analysis. Several critical pathways involved in HFs development such as Wnt signaling pathway, VEGF signaling pathway, and signaling pathways regulating pluripotency of stem cells, were enriched. To further screen key lncRNAs influencing the HFs cycle, 24 DELs with differ degree of sequence conservation were obtained via a comparative analysis of partial DELs with previously published lncRNA-seq data of cashmere goat in the HFs cycle using NCBI BLAST-2.9.0+, and 3 DELs of them were randomly selected for further detailed analysis of the sequence conservation properties.
Conclusions: This study revealed the expression pattern and potential function of lncRNAs during HFs cycle of yak, which would expand the knowledge about the role of lncRNAs in the HFs cycle. The findings related to sequence conservation properties of lncRNAs in the HFs cycle between the two species may provide valuable insights into the study of lncRNA functionality and mechanism.
Keywords
Hair follicle cycling, lncRNA, NCBI blast-2.9.0+, Yak
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CURRENT STATUS: Published
View the published article at BMC Genomics.
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Submission checks complete
On 16 Sep, 2020
Editorial decision: Accept
On 16 Sep, 2020
Version 3
Posted 22 Jul, 2020
No comments provided
Editorial decision: Minor revision
On 09 Sep, 2020
Review #2 received
Received 28 Jul, 2020
Reviewer #2 agreed
On 23 Jul, 2020
Reviewers invited
Invitations sent on 20 Jul, 2020
Reviewer #1 agreed
On 20 Jul, 2020
Review #1 received
Received 20 Jul, 2020
Editor assigned
On 15 Jul, 2020
Submission checks complete
On 14 Jul, 2020
Editor invited
On 14 Jul, 2020
No comments provided
Review #2 received
Received 25 Jun, 2020
Editorial decision: Major revision
On 25 Jun, 2020
Editor assigned
On 08 Jun, 2020
Reviewers invited
Invitations sent on 08 Jun, 2020
Reviewer #1 agreed
On 08 Jun, 2020
Reviewer #2 agreed
On 08 Jun, 2020
Review #1 received
Received 08 Jun, 2020
Submission checks complete
On 07 Jun, 2020
Editor invited
On 07 Jun, 2020
No comments provided
Review #2 received
Received 01 May, 2020
Editorial decision: Major revision
On 01 May, 2020
Reviewer #2 agreed
On 03 Apr, 2020
Review #1 received
Received 01 Apr, 2020
Reviewers invited
Invitations sent on 13 Mar, 2020
Reviewer #1 agreed
On 13 Mar, 2020
Editor assigned
On 26 Feb, 2020
Submission checks complete
On 25 Feb, 2020
Editor invited
On 25 Feb, 2020
First submitted
On 24 Feb, 2020
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Subject Areas
Epigenetics & Genomics
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A new preprint design is coming!
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See the published version of this preprint at BMC Genomics.
This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research article
Ping Yan
Lanzhou Institute of Husbandry and Pharmaceutical Sciences of CAAS
Corresponding Author
ORCiD: https://orcid.org/0000-0001-9484-990X
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
View the published article at BMC Genomics.
No community comments so far
Submission checks complete
On 16 Sep, 2020
Editorial decision: Accept
On 16 Sep, 2020
Version 3
Posted 22 Jul, 2020
No comments provided
Editorial decision: Minor revision
On 09 Sep, 2020
Review #2 received
Received 28 Jul, 2020
Reviewer #2 agreed
On 23 Jul, 2020
Reviewers invited
Invitations sent on 20 Jul, 2020
Reviewer #1 agreed
On 20 Jul, 2020
Review #1 received
Received 20 Jul, 2020
Editor assigned
On 15 Jul, 2020
Submission checks complete
On 14 Jul, 2020
Editor invited
On 14 Jul, 2020
No comments provided
Review #2 received
Received 25 Jun, 2020
Editorial decision: Major revision
On 25 Jun, 2020
Editor assigned
On 08 Jun, 2020
Reviewers invited
Invitations sent on 08 Jun, 2020
Reviewer #1 agreed
On 08 Jun, 2020
Reviewer #2 agreed
On 08 Jun, 2020
Review #1 received
Received 08 Jun, 2020
Submission checks complete
On 07 Jun, 2020
Editor invited
On 07 Jun, 2020
No comments provided
Review #2 received
Received 01 May, 2020
Editorial decision: Major revision
On 01 May, 2020
Reviewer #2 agreed
On 03 Apr, 2020
Review #1 received
Received 01 Apr, 2020
Reviewers invited
Invitations sent on 13 Mar, 2020
Reviewer #1 agreed
On 13 Mar, 2020
Editor assigned
On 26 Feb, 2020
Submission checks complete
On 25 Feb, 2020
Editor invited
On 25 Feb, 2020
First submitted
On 24 Feb, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Genomics.
Background: Long non-coding RNA (lncRNA) as an important regulator has been demonstrated playing an indispensable role in the biological process of hair follicles (HFs) growth. However, their function and expression profile in the HFs cycle of yak are yet unknown. Only a few functional lncRNAs have been identified, partly due to the low sequence conservation and lack of identified conserved properties in lncRNAs. Here, lncRNA-seq was employed to detect the expression profile of lncRNAs during the HFs cycle of yak, and the sequence conservation of two datasets between yak and cashmere goat during the HFs cycle was analyzed.
Results: A total of 2884 lncRNAs were identified in 5 phases (Jan., Mar., Jun., Aug., and Oct.) during the HFs cycle of yak. Then, differential expression analysis between 3 phases (Jan., Mar., and Oct.) was performed, revealing that 198 differentially expressed lncRNAs (DELs) were obtained in the Oct.-vs-Jan. group, 280 DELs were obtained in the Jan.-vs-Mar. group, and 340 DELs were obtained in the Mar.-vs-Oct. group. Subsequently, the nearest genes of lncRNAs were searched as the potential target genes and used to explore the function of DELs by GO and KEGG enrichment analysis. Several critical pathways involved in HFs development such as Wnt signaling pathway, VEGF signaling pathway, and signaling pathways regulating pluripotency of stem cells, were enriched. To further screen key lncRNAs influencing the HFs cycle, 24 DELs with differ degree of sequence conservation were obtained via a comparative analysis of partial DELs with previously published lncRNA-seq data of cashmere goat in the HFs cycle using NCBI BLAST-2.9.0+, and 3 DELs of them were randomly selected for further detailed analysis of the sequence conservation properties.
Conclusions: This study revealed the expression pattern and potential function of lncRNAs during HFs cycle of yak, which would expand the knowledge about the role of lncRNAs in the HFs cycle. The findings related to sequence conservation properties of lncRNAs in the HFs cycle between the two species may provide valuable insights into the study of lncRNA functionality and mechanism.
Figure 1
Figure 2
Figure 3
Figure 4
This is a list of supplementary files associated with this preprint. Click to download.
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