ArticlePloS one2014
Systems and evolutionary characterization of microRNAs and their underlying regulatory networks in soybean cotyledons.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 36 citations in OpenAlex.
- Soybean α-Amylase Gene Family: Structure and Expression in Response to Abiotic Stresses.International journal of molecular sciences · 2026Article
- Roles of microRNAs and histone modifications in enhancing stress tolerance in soybean and their applications in molecular breeding.Breeding science · 2025Article
- Multi-Omics Techniques for Soybean Molecular Breeding.International journal of molecular sciences · 2022Review
- Integrative small RNA and transcriptome analysis provides insight into key role of miR408 towards drought tolerance response in cowpea.Plant cell reports · 2022Article
- MicroRNAs Involved in Regulatory Cytoplasmic Male Sterility by Analysis RNA-seq and Small RNA-seq in Soybean.Frontiers in genetics · 2021Article
- Unravelling the MicroRNA-Mediated Gene Regulation in Developing Pongamia Seeds by High-Throughput Small RNA Profiling.International journal of molecular sciences · 2019Article
- Article
- Identification of miRNAs and Their Response to Cold Stress inBiomolecules · 2019Article
- De novo transcriptomic analysis of leaf and fruit tissue of Cornus officinalis using Illumina platform.PloS one · 2018Article
- The MicroRNA319d/TCP10 Node Regulates the Common Bean - Rhizobia Nitrogen-Fixing Symbiosis.Frontiers in plant science · 2018Article
- Dynamic Changes of Genome-Wide DNA Methylation during Soybean Seed Development.Scientific reports · 2017Article
- Systems Identification and Characterization of Cell Wall Reassembly and Degradation Related Genes in Glycine max (L.) Merill, a Bioenergy Legume.Scientific reports · 2017Article
- Genome-wide identification of soybean microRNA responsive to soybean cyst nematodes infection by deep sequencing.BMC genomics · 2017Article
- Integration of omics approaches to understand oil/protein content during seed development in oilseed crops.Plant cell reports · 2017Review
- The legume miR1514a modulates a NAC transcription factor transcript to trigger phasiRNA formation in response to drought.Journal of experimental botany · 2017Article
- Article
- Article
- Computational prediction of miRNAs and their targets in Phaseolus vulgaris using simple sequence repeat signatures.BMC plant biology · 2015Article
- Article
- Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content.BMC genomics · 2014Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MicroRNAs (miRNAs) are an emerging class of small RNAs regulating a wide range of biological processes. Soybean cotyledons evolved as sink tissues to synthesize and store seed reserves which directly affect soybean seed yield and quality. However, little is known about miRNAs and their regulatory networks in soybean cotyledons. We sequenced 292 million small RNA reads expressed in soybean cotyledons, and discovered 130 novel miRNA genes and 72 novel miRNA families. The cotyledon miRNAs arose at various stages of land plant evolution. Evolutionary analysis of the miRNA genes in duplicated genome segments from the recent Glycine whole genome duplication revealed that the majority of novel soybean cotyledon miRNAs were young, and likely arose after the duplication event 13 million years ago. We revealed the evolutionary pathway of a soybean cotyledon miRNA family (soy-miR15/49) that evolved from a neutral invertase gene through an inverted duplication and a series of DNA amplification and deletion events. A total of 304 miRNA genes were expressed in soybean cotyledons. The miRNAs were predicted to target 1910 genes, and form complex miRNA networks regulating a wide range of biological pathways in cotyledons. The comprehensive characterization of the miRNAs and their underlying regulatory networks at gene, pathway and system levels provides a foundation for further studies of miRNAs in cotyledons.
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