Community structure and co-occurrence network analysis of bacteria and fungi in wheat fields vs fruit orchards

Cui, Xinyu; He, Hongzhou; Zhu, Fengxiao; Liu, Xiaobo; Ma, You; Xie, Wenming; Meng, Han; Zhang, Limin

doi:10.1007/s00203-022-03074-7

Cited by 8 publications

(11 citation statements)

References 56 publications

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“…In the cultivated land of a karst area, Actinobacteria, Proteobacteria, Chloroflexi, and Acidobacteria were the dominant bacterial phyla (Figure 2c), and Ascomycota, Mortierellomycota, and Basidiomycota were the dominant fungal phyla (Figure 2d). Our findings are similar to those of several studies (Chen et al, 2020; Cui et al, 2022; Eo & Park, 2016). We found that the relative abundance of Ascomycota and Actinobacteria showed the following trend: uncultivated > cabbage > cocozelle > maize soils (Figure 2d and Table S7).…”

Section: Discussionsupporting

confidence: 93%

Plant types shape soil microbial composition, diversity, function, and co‐occurrence patterns in cultivated land of a karst area

Wei

et al. 2022

Land Degrad Dev

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Plants can alter microbial communities through root exudates, and change the characteristics of the soil. However, the relationship between soil microbial communities and environmental factors is not well understood. Here, we studied bacterial and fungal communities and their relationships with environmental factors. We integrated data of environmental factors, microbial composition, diversity, functional prediction, and co-occurrence network from uncultivated, maize, cabbage, and cocozelle soils in a karst area of Southwest China. Soil bacterial and fungal community composition differed with plant types. Maize soil had more taxa and greater alpha diversity of bacteria and fungi than other soils. In maize soil, the relative abundance of Actinobacteria and Ascomycota was significantly lower than that in uncultivated soil, while its contents of soil organic matter (OM), alkali-hydrolyzable nitrogen, and total nitrogen (TN) showed the opposite trend. These indicators were not significantly different between cabbage and cocozelle soils. The results of the Mantel test and the RDA analysis indicated that TN and OM were important drivers of bacterial and fungal communities. Functional prediction and network analysis showed that maize soil had a high nitrogen fixation capacity and a complex and stable network. To summarize, maize soil not had a low relative abundance of Ascomycota and high content of TN and OM, nitrogen fixation ability, and a rich microbial community. Therefore, cultivating maize is suitable for improving soil microbial community. These findings might help in formulating a reasonable cultivation management program to prevent land degradation in the karst areas.

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Section: Discussionsupporting

confidence: 93%

Plant types shape soil microbial composition, diversity, function, and co‐occurrence patterns in cultivated land of a karst area

Wei

et al. 2022

Land Degrad Dev

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“…A diverse microbial community contributes to creating favorable growing conditions and enhancing crop productivity [ 56 ]. Consistent with previous studies [ 57 ], our research identified Proteobacteria , Acidobacteriota , Actinobacteriota , and Chloroflexi as the predominant bacterial phyla in the soils of cabbage, kale, cucumber, and tomato (Fig. 2 A and Table S5).…”

Section: Discussionsupporting

confidence: 92%

Types of vegetables shape composition, diversity, and co-occurrence networks of soil bacteria and fungi in karst areas of southwest China

Wei

et al. 2023

BMC Microbiol

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Background Microorganisms are of significant importance in soil. Yet their association with specific vegetable types remains poorly comprehended. This study investigates the composition of bacterial and fungal communities in soil by employing high-throughput sequencing of 16 S rRNA genes and ITS rRNA genes while considering the cultivation of diverse vegetable varieties. Results The findings indicate that the presence of cultivated vegetables influenced the bacterial and fungal communities leading to discernible alterations when compared to uncultivated soil. In particular, the soil of leafy vegetables (such as cabbage and kale) exhibited higher bacterial α-diversity than melon and fruit vegetable (such as cucumber and tomato), while fungal α-diversity showed an inverse pattern. The prevailing bacterial phyla in both leafy vegetable and melon and fruit vegetable soils were Proteobacteria, Acidobacteriota, Actinobacteriota, and Chloroflexi. In leafy vegetable soil, dominant fungal phyla included Ascomycota, Olpidiomycota, Mortierellomycota, and Basidiomycota whereas in melon and fruit vegetable soil. Ascomycota, Mortierellomycota, Basidiomycota, and Rozellomycota held prominence. Notably, the relative abundance of Ascomycota was lower in leafy vegetable soil compared to melon and fruit vegetable soil. Moreover, leafy vegetable soil exhibited a more complex and stable co-occurrence network in comparison to melon and fruit vegetable soil. Conclusion The findings enhance our understanding of how cultivated soil bacteria and fungi respond to human disturbance, thereby providing a valuable theoretical basis for soil health in degraded karst areas of southwest China.

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“…Changes in the composition of the bacterial community may lead to variations in the metabolic capacity, bio-degradation, and disease-suppression abilities. Previous studies have shown that the compositions of bacteria and fungi in the rhizospheres of many plants, such as Arabidopsis [30], sugarcane [31,32], wheat [33,34], sugar beet [35,36], and soybean [37][38][39], can vary with the plant's developmental stage. In actual production, the developmental stages of plants can generally be divided into four periods: seedling, development, flowering, and fruiting.…”

Section: Discussionmentioning

confidence: 99%

The Bacterial and Fungal Compositions in the Rhizosphere of Asarum heterotropoides Fr. Schmidt var. mandshuricum (Maxim.) Kitag. in a Typical Planting Region

Wang,

Zhao,

Han

et al. 2024

Microorganisms

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Asarum is a traditional Chinese medicinal plant, and its dried roots are commonly used as medicinal materials. Research into the traits of the bacteria and fungus in the Asarum rhizosphere and how they relate to the potency of medicinal plants is important. During four cropping years and collecting months, we used ITS rRNA gene amplicon and sequencing to assess the population, diversity, and predominant kinds of bacteria and fungus in the rhizosphere of Asarum. HPLC was used to determine the three bioactive ingredients, namely asarinin, aristolochic acid I, and volatile oil. The mainly secondary metabolites of Asarum, relationships between microbial communities, soil physicochemical parameters, and possible influences on microbial communities owing to various cropping years and collecting months were all statistically examined. The cropping years and collecting months affected the abundance and diversity of rhizosphere bacteria and fungi, but the cropping year had a significant impact on the structures and compositions of the bacterial communities. The rhizosphere microorganisms were influenced by both the soil physicochemical properties and enzyme activities. Additionally, this study revealed that Trichoderma was positively correlated with the three bioactive ingredients of Asarum, while Tausonia showed entirely opposite results. Gibberella and Leptosphaeria demonstrated a significantly negative correlation with asarinin and violate oil, but they were weakly correlated with the aristolochic acid I content. This study revealed variations in the Asarum rhizosphere microorganism population, diversity, and dominant types across four cropping years and collecting months. The relationship between Asarum secondary metabolites, the soil physicochemical properties, enzyme activities, and rhizosphere microorganisms was discussed. Our results will guide the exploration of the soil characteristics and rhizosphere microorganisms’ structures by regulating the microbial community to enhance Asarum quality.

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Community structure and co-occurrence network analysis of bacteria and fungi in wheat fields vs fruit orchards

Cited by 8 publications

References 56 publications

Plant types shape soil microbial composition, diversity, function, and co‐occurrence patterns in cultivated land of a karst area

Plant types shape soil microbial composition, diversity, function, and co‐occurrence patterns in cultivated land of a karst area

Types of vegetables shape composition, diversity, and co-occurrence networks of soil bacteria and fungi in karst areas of southwest China

The Bacterial and Fungal Compositions in the Rhizosphere of Asarum heterotropoides Fr. Schmidt var. mandshuricum (Maxim.) Kitag. in a Typical Planting Region

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