Excel · study · 2026
Screening Genes related to Bur Lignification Development in field sandbur (Cenchrus pauciflorus Benth.) Based on Full-Length Transcriptome Sequencing
Listed in NCBI GEO
Full-length transcriptome of field sandbur (Cenchrus pauciflorus Benth.) was constructed, and high-throughput sequencing was conducted on mixed samples from four stages (BS1-BS4) of bur development and the root, stem, and leaf organs using the PacBio platform.
Description
After quality control and redundancy removal, 266,986 isoforms were obtained, of which 245,910 were annotated to seven major functional databases, accounting for 92.11%.
This result showed the highest similarity with other grass species in the Trib. Paniceae R. Br., such as Setaria viridis. A total of 155,474 coding sequences (CDS) with coding capability were predicted, including 3,957 isoforms that have the ability to code for transcription factors.
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KEGG functional distribution analysis indicated that the number of genes involved in cellular anatomical entities reached 125,020; KOG annotation identified 4,889 genes involved in the synthesis, transport, and metabolism of secondary metabolites. Within the phenylpropanoid biosynthesis pathway, 1,900 isoforms were identified as participating in the lignin biosynthesis pathway of bur, and these genes may be candidate genes for lignification development in the bur.
This study lays the foundation for elucidating the molecular mechanisms underlying the lignification development of the invasive plant field sandbur in the Horqin grassland.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE279nnn/GSE279112 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE279112 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1170890 ncbi.nlm.nih.gov/bioproject/PRJNA1170890 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing
- From keywords
- Life Sciences
- Inferred from text
- Evolutionary biology 70% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE279112 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3104 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (70%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |