Evidence map›Paper›PMID 30764773›Full record

ArticleBMC genomics2019

Identification and profiling of narrow-leafed lupin (Lupinus angustifolius) microRNAs during seed development.

Kathleen DeBoer, Su Melser, Jana Sperschneider, Lars G Kamphuis, Gagan Garg, Ling-Ling Gao, Karen Frick, Karam B Singh

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed.

  1. Review
  2. Article
  3. MicroRNA Mediated Plant Responses to Nutrient Stress.International journal of molecular sciences · 2022
    Review
  4. Review
  5. Review
  6. Article
  7. Article
  8. Article
  9. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Kathleen DeBoerThe UWA Institute of Agriculture, University of Western Australia, Crawley, WA, 6009, Australia.
Su MelserCSIRO Agriculture and Food, Private Bag 5, Wembley, WA, 6913, Australia.
Jana SperschneiderCentre for Genomics, Metabolomics and Bioinformatics (CGMB), The Australian National University, Canberra, ACT 2601, Australia.
Lars G KamphuisThe UWA Institute of Agriculture, University of Western Australia, Crawley, WA, 6009, Australia.
Gagan GargCSIRO Agriculture and Food, Private Bag 5, Wembley, WA, 6913, Australia.
Ling-Ling GaoCSIRO Agriculture and Food, Private Bag 5, Wembley, WA, 6913, Australia.
Karen FrickThe UWA Institute of Agriculture, University of Western Australia, Crawley, WA, 6009, Australia.
Karam B SinghThe UWA Institute of Agriculture, University of Western Australia, Crawley, WA, 6009, Australia. karam.singh@csiro.au.ORCID http://orcid.org/0000-0002-2777-7448

Funding

Australian Research Council LE110100188Grains Research and Development Corporation GRS10935
6 · The paper itself

Abstract

backgroundWhilst information regarding small RNAs within agricultural crops is increasing, the miRNA composition of the nutritionally valuable pulse narrow-leafed lupin (Lupinus angustifolius) remains unknown.

resultsBy conducting a genome- and transcriptome-wide survey we identified 7 Dicer-like and 16 Argonaute narrow-leafed lupin genes, which were highly homologous to their legume counterparts. We identified 43 conserved miRNAs belonging to 16 families, and 13 novel narrow-leafed lupin-specific miRNAs using high-throughput sequencing of small RNAs from foliar and root and five seed development stages. We observed up-regulation of members of the miRNA families miR167, miR399, miR156, miR319 and miR164 in narrow-leafed lupin seeds, and confirmed expression of miR156, miR166, miR164, miR1507 and miR396 using quantitative RT-PCR during five narrow-leafed lupin seed development stages. We identified potential targets for the conserved and novel miRNAs and were able to validate targets of miR399 and miR159 using 5' RLM-RACE. The conserved miRNAs are predicted to predominately target transcription factors and 93% of the conserved miRNAs originate from intergenic regions. In contrast, only 43% of the novel miRNAs originate from intergenic regions and their predicted targets were more functionally diverse.

conclusionThis study provides important insights into the miRNA gene regulatory networks during narrow-leafed lupin seed development.

Indexed as

Gene Expression Regulation, DevelopmentalGene Expression Regulation, PlantArgonaute ProteinsBiological Variation, PopulationComputational BiologyDatabases, GeneticGene DuplicationGene Regulatory NetworksGene SilencingGenome, PlantGerminationHigh-Throughput Nucleotide SequencingLupinusMicroRNAsPhylogenyPlant LeavesArgonaute ProteinsMicroRNAsTranscription FactorsGene silencingLegumeLupinmicroRNAsSeed developmentSmall RNAs

Identifiers

PMID30764773
PMCPMC6376761

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.