ArticleBMC genomics2016
Systematic characterization of novel lncRNAs responding to phosphate starvation in Arabidopsis thaliana.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
43 citing papers in PubMed, 100 citations in OpenAlex.
- From genes to traits: maximizing phosphorus utilization efficiency in crop plants.Frontiers in plant science · 2025Review
- Nanopore direct RNA sequencing reveals NBMC plant biology · 2024Article
- Underground communication: Long non-coding RNA signaling in the plant rhizosphere.Plant communications · 2024Review
- Transcriptome Analysis of Sesame (International journal of molecular sciences · 2024Article
- Population-level annotation of lncRNAs in Arabidopsis reveals extensive expression variation associated with transposable element-like silencing.The Plant cell · 2023Article
- Article
- Roles of long non-coding RNAs in plant immunity.PLoS pathogens · 2023Review
- Long non-coding RNA and microRNA landscape of two major domesticated cotton species.Computational and structural biotechnology journal · 2023Article
- A long non-coding RNAPeerJ · 2023Article
- Transcriptome-guided annotation and functional classification of long non-coding RNAs in Arabidopsis thaliana.Scientific reports · 2022Article
- Global Identification of White Lupin lncRNAs Reveals Their Role in Cluster Roots under Phosphorus Deficiency.International journal of molecular sciences · 2022Article
- Integrative mRNA and Long Noncoding RNA Analysis Reveals the Regulatory Network of Floral Bud Induction in Longan (Frontiers in plant science · 2022Article
- Expression rewiring and methylation of non-coding RNAs involved in rhizome phenotypic variations of lotus ecotypes.Computational and structural biotechnology journal · 2022Article
- Non-Coding RNAs in Response to Drought Stress.International journal of molecular sciences · 2021Review
- Functions of long non-coding RNA inPlant signaling & behavior · 2021Review
- Review
- Genome-wide analysis of long non-coding RNAs (lncRNAs) in two contrasting soybean genotypes subjected to phosphate starvation.BMC genomics · 2021Article
- Genome-wide analysis of long non-coding RNAs responsive to multiple nutrient stresses in Arabidopsis thaliana.Functional & integrative genomics · 2021Article
- Long Non-Coding RNAs, the Dark Matter: An Emerging Regulatory Component in Plants.International journal of molecular sciences · 2020Review
- Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses.Planta · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPreviously, several long non-coding RNAs (lncRNAs) were characterized as regulators in phosphate (Pi) starvation responses. However, systematic studies of novel lncRNAs involved in the Pi starvation signaling pathways have not been reported.
resultsHere, we used a genome-wide sequencing and bioinformatics approach to identify both poly(A) + and poly(A)- lncRNAs that responded to Pi starvation in Arabidopsis thaliana. We sequenced shoot and root transcriptomes of the Arabidopsis seedlings grown under Pi-sufficient and Pi-deficient conditions, and predicted 1212 novel lncRNAs, of which 78 were poly(A)- lncRNAs. By employing strand-specific RNA libraries, we discovered many novel antisense lncRNAs for the first time. We further defined 309 lncRNAs that were differentially expressed between P+ and P- conditions in either shoots or roots. Through Gene Ontology enrichment of the associated protein-coding genes (co-expressed or close on the genome), we found that many lncRNAs were adjacent or co-expressed with the genes involved in several Pi starvation related processes, including cell wall organization and photosynthesis. In total, we identified 104 potential lncRNA targets of PHR1, a key regulator for transcriptional response to Pi starvation. Moreover, we identified 16 candidate lncRNAs as potential targets of miR399, another key regulator of plant Pi homeostasis.
conclusionsAltogether, our data provide a rich resource of candidate lncRNAs involved in the Pi starvation regulatory network.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.