Identification and profiling of narrow-leafed lupin (Lupinus angustifolius) microRNAs during seed development
Date
2019-02-14
Authors
DeBoer, Kathleen
Melser, Su
Sperschneider, Jana
Kamphuis, Lars G.
Garg, Gagan
Gao, Ling-Ling
Frick, Karen
Singh, Karam B.
Journal Title
Journal ISSN
Volume Title
Publisher
BioMed Central
Abstract
Background: Whilst information regarding small RNAs within agricultural crops is increasing, the miRNA
composition of the nutritionally valuable pulse narrow-leafed lupin (Lupinus angustifolius) remains unknown.
Results: By 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.
Conclusion: This study provides important insights into the miRNA gene regulatory networks during narrow-leafed
lupin seed development.
Description
Keywords
Gene silencing, Legume, Lupin, microRNAs, Seed development, Small RNAs
Citation
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Source
BMC Genomics
Type
Journal article
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Access Statement
Open Access
License Rights
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