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Stress-responsive miRNAome of Glycine max (L.) Merrill: molecular insights and way forward

Planta volume 249, pages 1267–1284 (2019)Cite this article

Abstract

Main conclusion

Analysis of stress-associated miRNAs of Glycine max (L.) Merrill reveals wider ramifications of small RNA-mediated (conserved and legume-specific miRNAs) gene regulatory foot prints in molecular adaptive responses.

MicroRNAs (miRNAs) are indispensable components of gene regulatory mechanism of plants. Soybean is a crop of immense commercial potential grown worldwide for its edible oil and soy meal. Intensive research efforts, using the next generation sequencing and bioinformatics techniques, have led to the identification and characterization of numerous small RNAs, especially microRNAs (miRNAs), in soybean. Furthermore, studies have unequivocally demonstrated the significance of miRNAs during the developmental processes and various stresses in soybean. In this review, we summarize the current state of understanding of miRNA-based abiotic and biotic stress responses in soybean. In addition, the molecular insights gained from the stress-related soybean miRNAs have been compared to the miRNAs of other crops, especially legumes, and the core commonalities have been highlighted, though differences among them were not ignored. Nature of response of soybean-derived conserved miRNAs during various stresses was also analyzed to gain deeper insights regarding sRNAome-based defense responses. This review further provides way forward in legume small RNA transcriptomics based on the adaptive responses of soybean and other legume-derived miRNAs.

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Abbreviations

AGO:

Argonaute

AM:

Arbuscular mycorrhiza

AP2:

APETALA 2

ARF:

Auxin response factor

ASR:

Asian soybean rust

DCL-1:

Dicer-like-1

DRE:

Dehydration responsive element

ENOD93:

Early nodulin 93

GSS:

Genome survey sequence

hc-siRNAs:

Heterochromatic siRNAs

HEN 1:

HUA enhancer 1

HESO1:

HEN1 SUPPRESSOR1

HST1:

HASTY 1

HYL1:

HYPONASTIC LEAVES1

miRNAs:

MicroRNAs

nat-siRNAs:

Natural antisense transcript siRNAs

NGS:

Next generation sequencing

PEGs:

Protein encoding genes

PTGS:

Post transcriptional gene silencing

RBPs:

dsRNA-binding proteins

RdDM:

RNA-dependent DNA methylation

RISC:

RNA-induced silencing complex

SCN:

Soybean cyst nematode

SE:

SERRATE

siRNAs:

Small interfering RNAs

SMV:

Soybean mosaic virus

sncRNAs:

Small non-coding RNAs

SNF:

Symbiotic nitrogen fixation

TFs:

Transcriptional factors

TGS:

Transcriptional gene silencing

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Acknowledgements

This study was funded by Indian Council of Agricultural Research (ICAR)-Indian Institute of Soybean Research (ICAR-IISR) sponsored project (Grant no.: 1.24/12).

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Affiliations

  1. ICAR-Indian Institute of Soybean Research (ICAR-IISR), Indore, Madhya Pradesh, 452001, India

    S. V. Ramesh

  2. ICAR-Central Plantation Crops Research Institute (ICAR-CPCRI), Kasaragod, Kerala, 671124, India

    S. V. Ramesh, M. K. Rajesh & A. A. Sabana

  3. ICAR-Indian Agricultural Research Institute (ICAR-IARI), New Delhi, 110012, India

    V. Govindasamy & Shelly Praveen

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  1. S. V. Ramesh
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  2. V. Govindasamy
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  3. M. K. Rajesh
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Ramesh, S.V., Govindasamy, V., Rajesh, M.K. et al. Stress-responsive miRNAome of Glycine max (L.) Merrill: molecular insights and way forward. Planta 249, 1267–1284 (2019). https://doi.org/10.1007/s00425-019-03114-5

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Keywords

  • Conserved miRNAs
  • Gene regulation
  • Legumes
  • miRNA evolution
  • Non-coding RNAs
  • Soybean
  • Stressors