Source 1primary paper2025MED
Toolkit/small RNA-sequencing
small RNA-sequencing
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
small RNA-sequencing identified the downregulation of miR399 and miR827, which are involved in the Pi starvation response.
Usefulness & Problems
Why this is useful
Small RNA-sequencing was used to measure small RNA abundance changes in AtC3H26 overexpression lines. The abstract reports downregulation of miR399 and miR827.; profiling small RNA changes in AtC3H26 overexpression lines; detecting altered abundance of phosphate starvation-associated miRNAs
Source:
Small RNA-sequencing was used to measure small RNA abundance changes in AtC3H26 overexpression lines. The abstract reports downregulation of miR399 and miR827.
Source:
profiling small RNA changes in AtC3H26 overexpression lines
Source:
detecting altered abundance of phosphate starvation-associated miRNAs
Problem solved
It captures small-RNA-level regulatory changes linked to phosphate starvation signaling in the AtC3H26 context.; measures small RNA abundance changes associated with AtC3H26 overexpression
Source:
It captures small-RNA-level regulatory changes linked to phosphate starvation signaling in the AtC3H26 context.
Source:
measures small RNA abundance changes associated with AtC3H26 overexpression
Problem links
measures small RNA abundance changes associated with AtC3H26 overexpression
LiteratureIt captures small-RNA-level regulatory changes linked to phosphate starvation signaling in the AtC3H26 context.
Source:
It captures small-RNA-level regulatory changes linked to phosphate starvation signaling in the AtC3H26 context.
Published Workflows
Objective: Characterize Arabidopsis AtC3H26 and determine how its ribonuclease activity relates to salt tolerance and phosphate homeostasis.
Why it works: The study links biochemical evidence of RNA degradation by AtC3H26 with plant overexpression phenotypes and transcriptome/small-RNA changes, allowing the authors to connect RNase activity to stress and nutrient signaling outcomes.
ribonuclease activityRNA turnoverABA-dependent stress signalingABA-independent stress signalingoverexpression analysisin vitro RNA degradation assaymRNA-sequencingsmall RNA-sequencing
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete measurement method used to characterize an engineered system.
Target processes
No target processes tagged yet.
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationoperating role: sensor
The abstract supports the need for overexpression plant lines as the material analyzed by the sequencing assay.; requires AtC3H26 overexpression lines
The abstract does not show that this assay alone identifies direct cleavage targets or the mechanism producing the miRNA changes.; the abstract does not establish whether the observed miRNA changes are direct or indirect consequences of AtC3H26 activity
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
small RNA-sequencing of AtC3H26 overexpression lines identified downregulation of miR399 and miR827.
small RNA-sequencing identified the downregulation of miR399 and miR827
mRNA-sequencing of AtC3H26 overexpression lines showed upregulation of phosphate starvation-responsive genes including SPX1, PS2/PECP2, and SRG3/GDPD1.
mRNA-sequencing of OX lines revealed substantial upregulation of Pi starvation-responsive genes, including SPX1, PS2/PECP2, and SRG3/GDPD1
Approval Evidence
1 source1 linked approval claimfirst-pass slug small-rna-sequencing
small RNA-sequencing identified the downregulation of miR399 and miR827, which are involved in the Pi starvation response.
Source:
small rna effectsupports
small RNA-sequencing of AtC3H26 overexpression lines identified downregulation of miR399 and miR827.
small RNA-sequencing identified the downregulation of miR399 and miR827
Source:
Comparisons
Source-stated alternatives
The study paired this assay with mRNA-sequencing to profile coding-transcript changes.
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The study paired this assay with mRNA-sequencing to profile coding-transcript changes.
Source-backed strengths
identified downregulation of miR399 and miR827 in the study
Source:
identified downregulation of miR399 and miR827 in the study
Compared with mRNA-sequencing
The study paired this assay with mRNA-sequencing to profile coding-transcript changes.
Shared frame: source-stated alternative in extracted literature
Strengths here: identified downregulation of miR399 and miR827 in the study.
Relative tradeoffs: the abstract does not establish whether the observed miRNA changes are direct or indirect consequences of AtC3H26 activity.
Source:
The study paired this assay with mRNA-sequencing to profile coding-transcript changes.
Ranked Citations
- 1.