Metatranscriptomic Analysis of Plant Viruses in Imported Pear and Kiwifruit Pollen

Lee, Hyo‐Jeong; Jeong, Rae‐Dong

doi:10.5423/ppj.oa.03.2022.0047

Cited by 6 publications

(2 citation statements)

References 54 publications

(60 reference statements)

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“…However, limited research has been conducted on the diversity and abundance of phyllosphere viral communities and their interactions with other microorganisms ( Morella et al., 2018 ). Recently, there has been a growing focus on mining virome information using culture-independent metagenome or metatranscriptome technologies ( Forero-Junco et al., 2022 ; Lauber and Seitz, 2022 ; Lee and Jeong, 2022 ). Understanding the virome in plant-associated environments can provide valuable insights into their potential influence on microbial adaptation to various stresses ( Xu P. et al, 2008 ).…”

Section: Resultsmentioning

confidence: 99%

Pan-metagenome reveals the abiotic stress resistome of cigar tobacco phyllosphere microbiome

Wang,

Peng,

et al. 2023

Front. Plant Sci.

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The important role of microbial associations in mediating plant protection and responses to abiotic stresses has been widely recognized. However, there have been limited studies on the functional profile of the phyllosphere microbiota from tobacco (Nicotiana tabacum), hindering our understanding of the mechanisms underlying stress resilience in this representative and easy-to-cultivate model species from the solanaceous family. To address this knowledge gap, our study employed shotgun metagenomic sequencing for the first time to analyze the genetic catalog and identify putative plant growth promoting bacteria (PGPB) candidates that confer abiotic stress resilience throughout the growth period of cigar tobacco in the phyllosphere. We identified abundant genes from specific bacterial lineages, particularly Pseudomonas, within the cigar tobacco phyllospheric microbiome. These genes were found to confer resilience against a wide range of stressors, including osmotic and drought stress, heavy metal toxicity, temperature perturbation, organic pollutants, oxidative stress, and UV light damage. In addition, we conducted a virome mining analysis on the metagenome to explore the potential roles of viruses in driving microbial adaptation to environmental stresses. Our results identified a total of 3,320 scaffolds predicted to be viral from the cigar tobacco phyllosphere metagenome, with various phages infecting Pseudomonas, Burkholderia, Enterobacteria, Ralstonia, and related viruses. Within the virome, we also annotated genes associated with abiotic stress resilience, such as alkaline phosphatase D (phoD) for nutrient solubilization and glutamate-5-semialdehyde dehydrogenase (proA) for osmolyte synthesis. These findings shed light on the unexplored roles of viruses in facilitating and transferring abiotic stress resilience in the phyllospheric microbiome through beneficial interactions with their hosts. The findings from this study have important implications for agricultural practices, as they offer potential strategies for harnessing the capabilities of the phyllosphere microbiome to enhance stress tolerance in crop plants.

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Section: Resultsmentioning

confidence: 99%

Pan-metagenome reveals the abiotic stress resistome of cigar tobacco phyllosphere microbiome

Wang,

Peng,

et al. 2023

Front. Plant Sci.

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“…The expected transfer is not observed for viral exchange between crops and weed plants, likely as a consequence of unforeseen biological or ecological barriers. Metatranscriptomics approaches have been successfully implemented to discover highly diverse and novel viruses from rice, citrus, sunflower and pear samples [14,[58][59][60][61]. To the best of our knowledge, this is the first comprehensive high-throughput survey of viral sequences associated with weeds.…”

Section: Discussionmentioning

confidence: 99%

Novel RNA Viruses Discovered in Weeds in Rice Fields

Chao

Wang

Zhang

et al. 2022

Viruses

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Weeds often grow alongside crop plants. In addition to competing with crops for nutrients, water and space, weeds host insect vectors or act as reservoirs for viral diversity. However, little is known about viruses infecting rice weeds. In this work, we used metatranscriptomic deep sequencing to identify RNA viruses from 29 weed samples representing 23 weed species. A total of 224 RNA viruses were identified: 39 newly identified viruses are sufficiently divergent to comprise new families and genera. The newly identified RNA viruses clustered within 18 viral families. Of the identified viruses, 196 are positive-sense single-stranded RNA viruses, 24 are negative-sense single-stranded RNA viruses and 4 are double-stranded RNA viruses. We found that some novel RNA viruses clustered within the families or genera of several plant virus species and have the potential to infect plants. Collectively, these results expand our understanding of viral diversity in rice weeds. Our work will contribute to developing effective strategies with which to manage the spread and epidemiology of plant viruses.

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Microbiology of Pollen

Kňazovická,

Kačániová

2023

Pollen Chemistry &Amp; Biotechnology

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Metatranscriptomic Analysis of Plant Viruses in Imported Pear and Kiwifruit Pollen

Cited by 6 publications

References 54 publications

Pan-metagenome reveals the abiotic stress resistome of cigar tobacco phyllosphere microbiome

Pan-metagenome reveals the abiotic stress resistome of cigar tobacco phyllosphere microbiome

Novel RNA Viruses Discovered in Weeds in Rice Fields

Microbiology of Pollen

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