Agriculture-Related Microorganisms and Carbon Cycle

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Environmental Microbiology".

Deadline for manuscript submissions: 31 January 2025 | Viewed by 3624

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The Faculty of Food and Agricultural Science, Fukushima University, Kanayagawa 1, Fukushima 960-1296, Japan
Interests: agricultural microorganisms; biofertilizer; plant-microbial interaction
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Special Issue Information

Dear Colleagues,

The world’s population, which increased from 1.5 billion to 6.1 billion in the 20th century, exceeded 8 billion in November 2022. Sustaining these populations requires increased food production. However, the stable supply of food and the sustainable development of agricultural production must be compatible with the issue of how to reduce the increasing carbon dioxide concentration in the atmosphere which causes global climate change.

Currently, most chemical nitrogen fertilizers are produced by the Haber–Bosch process. This manufacturing process uses a large amount of fossil energy and emits a large amount of carbon dioxide that induces global warming. Additionally, in agriculture, various machines are used from production to transportation, which consume large amounts of fossil fuels and consequently emit large amounts of carbon dioxide.

Is it possible to reduce the carbon dioxide produced by such agriculture using agriculture-related microorganisms, or to use soil microbes to return carbon dioxide released into the atmosphere from fossil fuels, etc., back to the soil as organic matter?

Considering the carbon cycle on a global scale, it is necessary to create a flow that returns carbon dioxide in the atmosphere to agricultural land as organic matter. Cyanobacteria and photosynthetic bacteria are used as quick-acting nitrogen fertilizers in the tropics, but is there any research on returning carbon dioxide from the atmosphere to the soil as organic matter using these highly proliferative microorganisms? Is there any research on returning carbon dioxide from the atmosphere to the soil as organic matter using soil microorganisms other than cyanobacteria and photosynthetic bacteria?

We are seeking research papers on how agricultural microorganisms can reduce carbon dioxide in the atmosphere.

Potential topics include, but are not limited to:

  • Characterization of microorganisms that reduce the use of chemical nitrogen fertilizers or convert atmospheric carbon dioxide to soil organic matter,
  • Technologies for using these microorganisms at agricultural production sites,
  • Evaluation of how much the use of biofertilizer can reduce carbon dioxide generated in the chemical nitrogen fertilizer manufacturing process,
  • Assessment of the amount of atmospheric carbon dioxide converted to soil organic matter by agricultural microorganisms.

Prof. Dr. Tadashi Yokoyama
Guest Editor

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Published Papers (2 papers)

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19 pages, 3467 KiB  
Article
Diversity of Fast-Growth Spore-Forming Microbes and Their Activity as Plant Partners
by María Daniela Artigas Ramírez, Shin-ichiro Agake, Masumi Maeda, Katsuhiro Kojima, Naoko Ohkama-Ohtsu and Tadashi Yokoyama
Microorganisms 2023, 11(2), 232; https://doi.org/10.3390/microorganisms11020232 - 17 Jan 2023
Cited by 1 | Viewed by 2506
Abstract
Biofertilizers are agricultural materials capable of reducing the usage amounts of chemical fertilizers. Spore-forming microorganisms (SFM) could be used for plant growth promotion or to improve plant health. Until now, biofertilizers based on SFM have been applied for rice and other crops. In [...] Read more.
Biofertilizers are agricultural materials capable of reducing the usage amounts of chemical fertilizers. Spore-forming microorganisms (SFM) could be used for plant growth promotion or to improve plant health. Until now, biofertilizers based on SFM have been applied for rice and other crops. In this study, we isolated and characterized SFM, which were colonized on the Oryza sativa L. roots. SFM were analyzed regarding the short-term effects of biofertilization on the nursery growths. Analysis was performed without nitrogen or any inorganic fertilizer and was divided into two groups, including bacteria and fungi. SF-bacteria were dominated by the Firmicutes group, including species from Viridibacillus, Lysinibacillus, Solibacillus, Paenibacillus, Priestia, and mainly Bacillus (50%). The fungi group was classified as Mucoromycota, Basidiomycota, and mainly Ascomycota (80%), with a predominance of Penicillium and Trichoderma species. In plant performance in comparison with B. pumilus TUAT1, some bacteria and fungus isolates significantly improved the early growth of rice, based on 48 h inoculum with 107 CFU mL−1. Furthermore, several SFM showed positive physiological responses under abiotic stress or with limited nutrients such as phosphorous (P). Moreover, the metabolic fingerprint was obtained. The biofertilizer based on SFM could significantly reduce the application of the inorganic fertilizer and improve the lodging resistances of rice, interactively enhancing better plant health and crop production. Full article
(This article belongs to the Special Issue Agriculture-Related Microorganisms and Carbon Cycle)
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17 pages, 4799 KiB  
Brief Report
Whole-Genome Sequencing of Peribacillus frigoritolerans Strain d21.2 Isolated in the Republic of Dagestan, Russia
by Maria N. Romanenko, Anton E. Shikov, Iuliia A. Savina, Anton A. Nizhnikov and Kirill S. Antonets
Microorganisms 2024, 12(12), 2410; https://doi.org/10.3390/microorganisms12122410 - 24 Nov 2024
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Abstract
Pesticide-free agriculture is a fundamental pillar of environmentally friendly agriculture. To this end, there is an active search for new bacterial strains capable of synthesizing secondary metabolites and toxins that protect crops from pathogens and pests. In this study, we isolated a novel [...] Read more.
Pesticide-free agriculture is a fundamental pillar of environmentally friendly agriculture. To this end, there is an active search for new bacterial strains capable of synthesizing secondary metabolites and toxins that protect crops from pathogens and pests. In this study, we isolated a novel strain d21.2 of Peribacillus frigoritolerans from a soil sample collected in the Republic of Dagestan, Russia. Leveraging several bioinformatic approaches on Illumina-based whole-genome assembly, we revealed that the strain harbors certain insecticidal loci (coding for putative homologs of Bmp and Vpa) and also contains multiple BGCs (biosynthetic gene clusters), including paeninodin, koranimine, schizokinen, and fengycin. In total, 21 BGCs were predicted as synthesizing metabolites with bactericidal and/or fungicidal effects. Importantly, by applying a re-scaffolding pipeline, we managed to robustly predict MGEs (mobile genetic elements) associated with BGCs, implying high genetic plasticity. In addition, the d21.2’s genome was free from genes encoding for enteric toxins, implying its safety in use. A comparison with available genomes of the Peribacillus frigoritolerans strain revealed that the strain described here contains more functionally important loci than other members of the species. Therefore, strain d21.2 holds potential for use in agriculture due to the probable manifestation of bactericidal, fungicidal, growth-stimulating, and other useful properties. The assembled genome is available in the NCBI GeneBank under ASM4106054v1. Full article
(This article belongs to the Special Issue Agriculture-Related Microorganisms and Carbon Cycle)
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