ArticleAnnals of botany2013
Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize.
Article in Annals of botany, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed, 77 citations in OpenAlex.
- Function of floral fragrance-related microRNAs and their targets in Hedychium coronarium.BMC genomics · 2025Article
- MicroRNA gatekeepers: Orchestrating rhizospheric dynamics.Journal of integrative plant biology · 2025Review
- HSF and Hsp Gene Families in sunflower: a comprehensive genome-wide determination survey and expression patterns under abiotic stress conditions.Protoplasma · 2023Article
- Transcriptional multiomics reveals the mechanism of seed deterioration in Nicotiana tabacum L. and Oryza sativa L.Journal of advanced research · 2022Article
- Identification of miRNAs Mediating Seed Storability of Maize during Germination Stage by High-Throughput Sequencing, Transcriptome and Degradome Sequencing.International journal of molecular sciences · 2022Article
- Dosage-sensitive miRNAs trigger modulation of gene expression during genomic imbalance in maize.Nature communications · 2022Article
- Effect of aneuploidy of a non-essential chromosome on gene expression in maize.The Plant journal : for cell and molecular biology · 2022Article
- MicroRNA Mediated Plant Responses to Nutrient Stress.International journal of molecular sciences · 2022Review
- Epigenetics and its role in effecting agronomical traits.Frontiers in plant science · 2022Review
- Adjustment of KInternational journal of molecular sciences · 2021Review
- Nitrate Modulates Lateral Root Formation by Regulating the Auxin Response and Transport in Rice.Genes · 2021Article
- Biochemical and Genetic Approaches Improving Nitrogen Use Efficiency in Cereal Crops: A Review.Frontiers in plant science · 2021Review
- miRNAomic Approach to Plant Nitrogen Starvation.International journal of genomics · 2021Review
- Roles of Non-Coding RNAs in Response to Nitrogen Availability in Plants.International journal of molecular sciences · 2020Review
- Plant Non-Coding RNAs: Origin, Biogenesis, Mode of Action and Their Roles in Abiotic Stress.International journal of molecular sciences · 2020Review
- Multi-Omics Analysis of Small RNA, Transcriptome, and Degradome inInternational journal of molecular sciences · 2020Article
- Integrated Analysis of Small RNA, Transcriptome, and Degradome Sequencing Reveals the Water-Deficit and Heat Stress Response Network in Durum Wheat.International journal of molecular sciences · 2020Article
- Early Drought-Responsive Genes Are Variable and Relevant to Drought Tolerance.G3 (Bethesda, Md.) · 2020Article
- Epigenomic landscape and epigenetic regulation in maize.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Review
- The NIN-like protein 5 (ZmNLP5) transcription factor is involved in modulating the nitrogen response in maize.The Plant journal : for cell and molecular biology · 2020Article
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Authors and funding
7 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
BACKGROUND AND
aimsMicroRNAs (miRNAs) play an important role in the responses and adaptation of plants to many stresses including low nitrogen (LN). Characterizing relevant miRNAs will improve our understanding of nitrogen (N) use efficiency and LN tolerance and thus contribute to sustainable maize production. The objective of this study was to identify novel and known miRNAs and their targets involved in the response and adaptation of maize (Zea mays) to LN stress.
methodsMiRNAs and their targets were identified by combined analysis of deep sequencing of small RNA and degradome libraries. The identity of target genes was confirmed by gene-specific RNA ligase-mediated rapid amplification of 5' cDNA ends (RLM-RACE) and by quantitative expression analysis. KEY
resultsOver 150 million raw reads of small RNA and degradome sequence data were generated. A total of 46 unique mature miRNA sequences belonging to 23 maize miRNA families were sequenced. Eighty-five potentially new miRNAs were identified, with corresponding miRNA* also identified for 65 of them. Twenty-five new miRNAs showed >2-fold relative change in response to LN. In addition to known miR169 species, two novel putative miR169 species were identified. Deep sequencing of miRNAs and the degradome, and RLM-RACE and quantitative polymerase chain reaction (PCR) analyses of their targets showed that miRC10- and miRC68-mediated target cleavage may play a major role among miR169 families in the adaptation to LN by maize seedlings.
conclusionsSmall RNA and degradome sequencing combined with quantitative reverse transcription-PCR and RLM-RACE verification enabled the efficient identification of miRNAs and their target genes. The generated data sets and the two novel miR169 species that were identified will contribute to our understanding of the physiological basis of adaptation to LN stress in maize plants.
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