Topsoil microbial community structure responds to land cover type and environmental zone in the Western Pacific region

Lin, Yu‐Pin; Wunderlich, Rainer Ferdinand; Lin, Chiao-Ming; Uphoff, Norman; Schmeller, Dirk S.; Shipin, Oleg V.; Watanabe, Teiji; Ngadisih,; Mukhtar, Hussnain

doi:10.1016/j.scitotenv.2020.144349

Cited by 8 publications

(5 citation statements)

References 48 publications

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“…The dominance of bacterial (Proteobacteria, Firmicutes, and Bacteroidetes) and fungal (Ascomycota and Basidiomycota) phyla detected in our CHS was the same as that observed in a hydroponic system [21] and soil ecosystems [13,14,40] analyzed in previous studies. This similarity in results can be associated with the (1) high dispersion rate of the aforementioned phyla, which successfully colonized our CHS, or (2) the phyla s behavior, which is typical of generalists, in relation to nutrient availability and their habitat.…”

Section: Discussionsupporting

confidence: 86%

“…The complete procedure for 16S rRNA and ITS gene amplification was the same as that used by Mukhtar et al and Lin et al [13,14].…”

Section: Dna Extraction and Molecular Analysismentioning

confidence: 99%

“…Microbes play various direct or indirect roles in carbon and nitrogen dynamics [13,14], and plant morphogenesis [15,16] at different stages of plant growth. Microbes are capable of detecting the plant host and colonizing the rhizosphere, and plants are capable of recognizing microbe-derived compounds and initiating their defense and growth strategies depending on the type of microorganisms encountered [17,18].…”

Section: Introductionmentioning

confidence: 99%

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Temporal Variability in the Rhizosphere Bacterial and Fungal Community Structure in the Melon Crop Grown in a Closed Hydroponic System

Lin

Mukhtar

et al. 2021

Agronomy

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Microbes can establish a pathogenetic or symbiotic relationship with plants in soil and aquatic ecosystems. Although change in bacterial and fungal community in soil and their interaction with plants have been widely studied, little is known about their community structure in hydroponic systems across plant growth stages under different nutrient treatments. This study used next-generation sequencing analysis to assess the temporal changes in melon rhizosphere bacterial and fungal community structure across six different nutrient treatments. We found significant changes in the microbial community composition (especially for bacteria) between growth stages (R = 0.25–0.63, p < 0.01) than nutrient treatments. Proteobacteria dominated the bacterial community at the phylum level across melon growth stages (59.8% ± 16.1%). The genera Chryseobacterium, Pseudomonas, and Massilia dominated the rhizosphere in the flowering and pollination stage, while Brevibacillius showed the highest relative abundance in the harvesting stage. However, the rhizosphere was dominated by uncultured fungal taxa, likely due to the application of fungicides (Ridomil MZ). Further, linear regression analysis revealed a weak influence of bacterial community structure on melon yield and quality, while fruit weight and quality moderately responded to Mg and K deficiency. Nevertheless, the relative abundance of bacterial genus Chryseobacterium in the vegetative stage showed a strong correlation with fruit weight (R2 = 0.75, p < 0.05), while genera Brevibacillus, Lysobacter, and Bosea in late growth stages strongly correlated with fruit sweetness. Overall, temporal variability in the microbial (especially bacterial) community structure exceeds the variability between nutrient treatments for the given range of nutrient gradient while having little influence on melon yield.

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Section: Discussionsupporting

confidence: 86%

“…The complete procedure for 16S rRNA and ITS gene amplification was the same as that used by Mukhtar et al and Lin et al [13,14].…”

Section: Dna Extraction and Molecular Analysismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Temporal Variability in the Rhizosphere Bacterial and Fungal Community Structure in the Melon Crop Grown in a Closed Hydroponic System

Lin

Mukhtar

et al. 2021

Agronomy

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“…Despite their small size, microbial communities drive major processes in and on animals, plants, as well as in ecosystems (Bates et al, 2022;Bernardo-Cravo et al, 2020;Lin et al, 2021). In a nutrient poor environment such as mountains, microbial communities likely play an important role in synthesizing vital nutrients, thereby increasing energy uptake and growth of plants and animals (Bernardo-Cravo et al, 2020;Schmeller et al, 2020;Sentenac et al, 2022).…”

Section: Threats To and From Mountain Micro-biodiversitymentioning

confidence: 99%

Scientists' warning of threats to mountains

Schmeller

Urbach

Bates

et al. 2022

Science of The Total Environment

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“…[65] proposed the following sequence of factors influencing soil microbial biodiversity: pH > land management > soil texture > soil nutrients > climate. Other studies, however, suggest the existence of true biogeographic patterns for different types of prokaryotes [66,67]. Moreover, fungal diversity follows biogeographic patterns, with some species being ecologically specialized and geographically restricted [51].…”

Section: Genetic Resources and Biodiversitymentioning

confidence: 99%

The role of soils in provision of genetic, medicinal and biochemical resources

Thiele‐Bruhn

2021

Phil. Trans. R. Soc. B

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Intact, ‘healthy’ soils provide indispensable ecosystem services that largely depend on the biotic activity. Soil health is connected with human health, yet, knowledge of the underlying soil functioning remains incomplete. This review highlights selected services, i.e. (i) soil as a genetic resource and hotspot of biodiversity, forming the basis for providing (ii) biochemical resources and (iii) medicinal services and goods. Soils harbour an unrivalled biodiversity of organisms, especially microorganisms. Some of the abilities of autochthonous microorganisms and their relevant enzymes serve (i) to improve natural soil functions and in particular plant growth, e.g. through beneficial plant growth-promoting, symbiotic and mycorrhizal microorganisms, (ii) to act as biopesticides, (iii) to facilitate biodegradation of pollutants for soil bioremediation and (iv) to yield enzymes or chemicals for industrial use. Soils also exert direct effects on human health. Contact with soil enriches the human microbiome, affords protection against allergies and promotes emotional well-being. Medicinally relevant are soil substrates such as loams, clays and various minerals with curative effects as well as pharmaceutically active organic chemicals like antibiotics that are formed by soil microorganisms. By contrast, irritating minerals, soil dust inhalation and misguided soil ingestion may adversely affect humans. This article is part of the theme issue ‘The role of soils in delivering Nature’s Contributions to People.

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Topsoil microbial community structure responds to land cover type and environmental zone in the Western Pacific region

Cited by 8 publications

References 48 publications

Temporal Variability in the Rhizosphere Bacterial and Fungal Community Structure in the Melon Crop Grown in a Closed Hydroponic System

Temporal Variability in the Rhizosphere Bacterial and Fungal Community Structure in the Melon Crop Grown in a Closed Hydroponic System

Scientists' warning of threats to mountains

The role of soils in provision of genetic, medicinal and biochemical resources

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