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The poplar-1 RNA motif is a conserved RNA structure that was discovered by bioinformatics.[1] As of 2018, all known examples of the poplar-1 motif are found in metagenomic sequences; no poplar-1 RNA has yet been found in a classified organism. Poplar-1 RNAs were particularly common in a metagenomic sample from decaying yellow poplar tree wood chips.[2]
| poplar-1 | |
|---|---|
 Consensus secondary structure and sequence conservation of poplar-1 RNA | |
| Identifiers | |
| Symbol | poplar-1 |
| Rfam | RF03041 |
| Other data | |
| RNA type | Gene; sRNA |
| SO | SO:0001263 |
| PDB structures | PDBe |
Poplar-1 RNAs generally occur in sequencing contigs that are relatively small. Therefore, there is not enough information on surrounding genes to be able to determine whether poplar-1 RNAs are likely to function as cis-regulatory elements or whether they more likely operate in trans as small RNAs.
References
edit- ^ Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR (October 2017). "Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions". Nucleic Acids Res. 45 (18): 10811–10823. doi:10.1093/nar/gkx699. PMC 5737381. PMID 28977401.
- ^ van der Lelie D, Taghavi S, McCorkle SM, Li LL, Malfatti SA, Monteleone D, Donohoe BS, Ding SY, Adney WS, Himmel ME, Tringe SG (2012). "The metagenome of an anaerobic microbial community decomposing poplar wood chips". PLOS ONE. 7 (5): e36740. Bibcode:2012PLoSO...736740V. doi:10.1371/journal.pone.0036740. PMC 3357426. PMID 22629327.