Table · dataset · 2026
Plastid genomes and 45S nuclear rDNA cistrons of six <i>Polyscias </i>species assembled from publicly available SRA data
Listed in figshare and Loughborough Research Repository — shown once because both records carry DOI 10.6084/m9.figshare.33979093.v1
Description
<pre><pre>Twelve annotated nucleotide assemblies for six Polyscias (Araliaceae) species: six complete plastid (chloroplast) genomes (~156 kb each) and six complete 45S nuclear ribosomal DNA cistrons (18S-ITS1-5.8S-ITS2-26S; ~5.8 kb each).<br><br>Every sequence was assembled by the authors from third-party, publicly available SRA reads that were generated by other groups; the source SRA run for each sequence is given in the FASTA header and in sample_metadata.tsv.
Because the underlying reads were not generated by the authors, these derived assemblies are eligible for INSDC deposition only as Third Party Assembly (TPA:assembly) records and INSDC accessions may not be available for them; they are archived here so the results remain openly available, citable and reproducible.<br><br>Files: FASTA sequences; NCBI 5-column feature tables (.tbl) and GenBank flatfiles (.gbf) with full annotation; per-sequence metadata (sample_metadata.tsv); README.<br><br>Assembly programs: plastid genomes - dnaLCW v4.21 (Illumina) and GetOrganelle v1.7.7.1 (PacBio HiFi); 45S nrDNA - dnaLCW v4.21 (Illumina) and hifiasm v0.25.0 (PacBio HiFi).
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The 18S, 5.8S and 26S boundaries of the 45S cistrons were located with Infernal cmscan against the Rfam covariance models SSU_rRNA_eukarya, 5_8S_rRNA and LSU_rRNA_eukarya.<br><br>Primary read data (INSDC Sequence Read Archive): SRR19607894, SRR19607893, SRR19607909, SRR28058088, SRR28058077, SRR28058093.</pre></pre><p></p>
Links
Where it is published
- DOI doi.org/10.6084/m9.figshare.33979093.v1 ↗
DOI / persistent id · from figshare com
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from figshare com
Topics
- From keywords
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Provenance · 2 source records, 34 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| figshare | oai:figshare.com:article/33979093 | 5 d ago | JSON v1 |
| Loughborough Research Repository | oai:figshare.com:article/33979093 | 5 d ago | JSON v1 |
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| concepts[field].anzsrc:field:310410 | mapping · figshare com | vocabulary-mapper@1.0.0 | keywords['Phylogeny and comparative analysis'] |
| concepts[field].anzsrc:field:310509 | mapping · repository lboro ac uk | vocabulary-mapper@1.0.0 | keywords['Genomics'] |
| concepts[field].anzsrc:field:310509 | mapping · figshare com | vocabulary-mapper@1.0.0 | keywords['Genomics'] |
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| concepts[field].local:field:earth-environmental | mapping · figshare com | connector:figshare_com@1.0.0 | |
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| concepts[field].local:field:economics-finance | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:economics-finance | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
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| concepts[field].local:field:life-sciences | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
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| concepts[field].local:field:social-science | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
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| title | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/title |