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Research article
Zhiyong Wang
Hainan University
Corresponding Author
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Background: Carpet grass [Axonopus compressus (L.)] is an important warm-season perennial grass around the world and is known for its adaptability to varied environmental conditions. However, Carpet grass lacks enough data in public data banks, which confined our comprehension of the mechanisms of environmental adaptations, gene discovery, and development of molecular markers. In current study, the DEGs (differentially expressed genes) in Axonopus compressus under drought stress (DS) were identified and compared with CK (control) by RNA-Seq.
Results: A total of 263,835 unigenes were identified in Axonopus compressus, and 201,303 (also added to the numbers of the remaining 2 databases) a sequence of unigenes significantly matched in at least one of the seven databases. A total of 153697 (58.25%) unigenes classified to 144 KEGG pathways, and 7,444 unigenes were expressed differentially between DS and CK, of which 4,249 were up-regulated and 3,195 were down-regulated unigenes. Of the 50 significantly enriched GO terms, 18, 6, and 14 items were related to BP, CC, and MF respectively. Analysis of KEGG enrichment revealed 2569 DEGs involved in 143 different pathways, under drought stress. 2,747 DEGs were up-regulated and 2,502 DEGs were down-regulated. Moreover, we identified 352 transcription factors (TFs) in Axonopus compressus, of which 270 were differentially expressed between CK and DS. The qRT-PCR validation experiment also supports the transcriptional response of Axonopus compressus against drought. Accuracy of transcriptome unigenes of Axonopus compressus was assessed with BLAST, which showed 3,300 sequences of Axonopus compressus in the NCBI.
Conclusion: The 7,444 unigenes were found to be between DS and CK treatments, which indicate the existence of a strong mechanism of drought tolerance in Axonopus compressus. The current findings provide the first framework for further investigations for the particular roles of these unigenes in Axonopus compressus in response to drought.
Keywords
Drought, Axonopus compressus, qRT-PCR, Enrichment analysis, lncRNAs, miRNAs, Transcriptomics
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View the published article at BMC Plant Biology.
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On 31 Dec, 2020
Editorial decision: Minor revision
On 29 Dec, 2020
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Editorial decision: Minor revision
On 23 Dec, 2020
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Received 02 Dec, 2020
Review #1 received
Received 02 Dec, 2020
Reviewer #2 agreed
On 30 Nov, 2020
Editor assigned
On 30 Nov, 2020
Reviewers invited
Invitations sent on 30 Nov, 2020
Reviewer #1 agreed
On 30 Nov, 2020
Submission checks complete
On 30 Nov, 2020
Editor invited
On 30 Nov, 2020
No comments provided
Editorial decision: Minor revision
On 15 Nov, 2020
Review #1 received
Received 28 Oct, 2020
Review #2 received
Received 27 Oct, 2020
Reviewers invited
Invitations sent on 20 Oct, 2020
Reviewer #1 agreed
On 20 Oct, 2020
Reviewer #2 agreed
On 20 Oct, 2020
Editor assigned
On 13 Oct, 2020
Submission checks complete
On 12 Oct, 2020
Editor invited
On 12 Oct, 2020
No comments provided
Editorial decision: Major revision
On 31 Aug, 2020
Review #1 received
Received 21 Aug, 2020
Review #2 received
Received 21 Aug, 2020
Reviewer #3 agreed
On 04 Aug, 2020
Reviewers invited
Invitations sent on 03 Aug, 2020
Reviewer #1 agreed
On 03 Aug, 2020
Reviewer #2 agreed
On 03 Aug, 2020
Editor assigned
On 15 Jul, 2020
First submitted
On 14 Jul, 2020
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On 14 Jul, 2020
Editor invited
On 14 Jul, 2020
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A new preprint design is coming!
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See the published version of this preprint at BMC Plant Biology.
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
Zhiyong Wang
Hainan University
Corresponding Author
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 Plant Biology.
Version 4
Posted 12 Jan, 2021
No community comments so far
Submission checks complete
On 31 Dec, 2020
Editorial decision: Minor revision
On 29 Dec, 2020
No comments provided
Editorial decision: Minor revision
On 23 Dec, 2020
Review #2 received
Received 02 Dec, 2020
Review #1 received
Received 02 Dec, 2020
Reviewer #2 agreed
On 30 Nov, 2020
Editor assigned
On 30 Nov, 2020
Reviewers invited
Invitations sent on 30 Nov, 2020
Reviewer #1 agreed
On 30 Nov, 2020
Submission checks complete
On 30 Nov, 2020
Editor invited
On 30 Nov, 2020
No comments provided
Editorial decision: Minor revision
On 15 Nov, 2020
Review #1 received
Received 28 Oct, 2020
Review #2 received
Received 27 Oct, 2020
Reviewers invited
Invitations sent on 20 Oct, 2020
Reviewer #1 agreed
On 20 Oct, 2020
Reviewer #2 agreed
On 20 Oct, 2020
Editor assigned
On 13 Oct, 2020
Submission checks complete
On 12 Oct, 2020
Editor invited
On 12 Oct, 2020
No comments provided
Editorial decision: Major revision
On 31 Aug, 2020
Review #1 received
Received 21 Aug, 2020
Review #2 received
Received 21 Aug, 2020
Reviewer #3 agreed
On 04 Aug, 2020
Reviewers invited
Invitations sent on 03 Aug, 2020
Reviewer #1 agreed
On 03 Aug, 2020
Reviewer #2 agreed
On 03 Aug, 2020
Editor assigned
On 15 Jul, 2020
First submitted
On 14 Jul, 2020
Submission checks complete
On 14 Jul, 2020
Editor invited
On 14 Jul, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Plant Biology.
Background: Carpet grass [Axonopus compressus (L.)] is an important warm-season perennial grass around the world and is known for its adaptability to varied environmental conditions. However, Carpet grass lacks enough data in public data banks, which confined our comprehension of the mechanisms of environmental adaptations, gene discovery, and development of molecular markers. In current study, the DEGs (differentially expressed genes) in Axonopus compressus under drought stress (DS) were identified and compared with CK (control) by RNA-Seq.
Results: A total of 263,835 unigenes were identified in Axonopus compressus, and 201,303 (also added to the numbers of the remaining 2 databases) a sequence of unigenes significantly matched in at least one of the seven databases. A total of 153697 (58.25%) unigenes classified to 144 KEGG pathways, and 7,444 unigenes were expressed differentially between DS and CK, of which 4,249 were up-regulated and 3,195 were down-regulated unigenes. Of the 50 significantly enriched GO terms, 18, 6, and 14 items were related to BP, CC, and MF respectively. Analysis of KEGG enrichment revealed 2569 DEGs involved in 143 different pathways, under drought stress. 2,747 DEGs were up-regulated and 2,502 DEGs were down-regulated. Moreover, we identified 352 transcription factors (TFs) in Axonopus compressus, of which 270 were differentially expressed between CK and DS. The qRT-PCR validation experiment also supports the transcriptional response of Axonopus compressus against drought. Accuracy of transcriptome unigenes of Axonopus compressus was assessed with BLAST, which showed 3,300 sequences of Axonopus compressus in the NCBI.
Conclusion: The 7,444 unigenes were found to be between DS and CK treatments, which indicate the existence of a strong mechanism of drought tolerance in Axonopus compressus. The current findings provide the first framework for further investigations for the particular roles of these unigenes in Axonopus compressus in response to drought.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
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