Functional Distribution of Bacterial
Community under Different Land Use Patterns
Based on FaProTax Function Prediction

Liang, Shichun; Deng, Jiaojiao; Jiang, Yong; Wu, Shijin; Zhou, Yongbin; Zhu, Wenxu

doi:10.15244/pjoes/108510

Cited by 81 publications

(39 citation statements)

References 66 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In this study, FaProTax software (Louca et al, 2016) was used to predict the ecological functions of the rhizosphere soil bacterial community during continuous cropping of Tibetan barley. The results indicated that chemoheterotrophy and aerobic chemoheterotrophy-related species were dominant in rhizosphere soil (Figure 3), which concurred with previous soil findings (Legrand et al, 2018;Che et al, 2019;Liang et al, 2020). We observed that the relative abundances of 16S rRNA gene sequences assigned to chemoheterotrophy and aerobic chemoheterotrophy increased significantly with continuous cropping duration ( Supplementary Figure S4).…”

Section: Discussionsupporting

confidence: 90%

“…Similar results have also been observed in soil with continuous cropping of cotton and tea (Li Y.C. et al, 2016;Wei and Yu, 2018;Xi et al, 2019;Liang et al, 2020). We inferred that changes in soil chemical properties could have contributed to the distinct variations in bacterial community structures, as soil chemical properties play critical roles in microbial community structures (Kuramae et al, 2012).…”

Section: Discussionsupporting

confidence: 86%

See 1 more Smart Citation

Rhizosphere Bacterial Community Response to Continuous Cropping of Tibetan Barley

Yao

et al. 2020

Front. Microbiol.

View full text Add to dashboard Cite

Long-term continuous cropping influences the nutrient of soil and microbiome of the rhizosphere, resulting in the yield decrease of crops. Tibetan barley is a dominant cereal crop cultivated at high altitudes in Tibet. Its growth and yield are negatively affected by continuous cropping; however, the response of the rhizosphere microbial community to continuous cropping remains poorly understood. To address this question, we investigated the bacterial community structure and conducted predictive functional profiling on rhizosphere soil from Tibetan barley monocropped for 2–6 years. The results revealed that long-term continuous cropping markedly decreased total nitrogen and available nitrogen in rhizosphere soil. Illumina high-throughput sequencing of 16S rRNA genes indicated that the bacterial community was altered by continuous cropping; operational taxonomic units (OTUs), Shannon index, and Faith Phylogenetic Diversity decreased with increasing monocropping duration. Relative abundances of family Pseudomonadaceae, Cytophagaceae, and Nocardioidaceae were significantly increased, while those of Chitinophagaceae and Sphingomonadaceae were significantly decreased (all p < 0.05). Besides, continuous cropping significantly increased the abundance of bacteria associated with chemoheterotrophy, aromatic compound degradation, and nitrate reduction (p < 0.05). Generalized boosted regression model analysis indicated that total nitrogen was the most important contributor to the bacterial community diversity, indicating their roles in shaping the rhizosphere bacterial community during continuous cropping. Overall, continuous cropping had a significant impact on the structure of bacterial communities in rhizosphere soil of Tibetan barley, and these results will improve our understanding of soil bacterial community regulation and soil health maintenance in Tibetan barley farm systems.

show abstract

Section: Discussionsupporting

confidence: 90%

Section: Discussionsupporting

confidence: 86%

Rhizosphere Bacterial Community Response to Continuous Cropping of Tibetan Barley

Yao

et al. 2020

Front. Microbiol.

View full text Add to dashboard Cite

show abstract

“…Our results showed that the group capable of aromatic compound degradation was the main predictors of soil bacteria functional structure, then followed by the groups capable of aerobic chemoheterotrophy and chemoheterotrophy which were the predominant functional groups in soil ( Figures 1C , 2B ). These functional groups were related to the soil carbon cycle process ( Liang et al, 2020 ), and had a significant correlation with the corresponding soil enzyme activity ( Table 4 ), which indicated that changes in soil carbon pools may be the main factor driving soil bacterial functional structure ( O’donnell et al, 2001 ). Soil bacterial functional groups were closely related to the diversity of above-ground plants.…”

Section: Discussionmentioning

confidence: 99%

Changes in Soil Microbial Activity, Bacterial Community Composition and Function in a Long-Term Continuous Soybean Cropping System After Corn Insertion and Fertilization

et al. 2021

View full text Add to dashboard Cite

Corn-soybean rotation and fertilization are common practices improving soil fertility and crop yield. Their effects on bacterial community have been extensively studied, yet, few comprehensive studies about the microbial activity, bacterial community and functional groups in a long-term continuous soybean cropping system after corn insertion and fertilization. The effects of corn insertions (Sm: no corn insertion, CS: 3 cycles of corn-soybean rotations and CCS: 2 cycles of corn-corn-soybean rotations) with two fertilization regimes (No fertilization and NPK) on bacterial community and microbial activity were investigated in a long-term field experiment. The bacterial communities among treatments were evaluated using high-throughput sequencing then bacterial functions were predicted based on the FaProTax database. Soil respiration and extracellular enzyme activities were used to assess soil microbial activity. Soil bacterial community structure was significantly altered by corn insertions (p < 0.01) and fertilization (p < 0.01), whereas bacterial functional structure was only affected by corn insertion (p < 0.01). The activities of four enzymes (invertase, β-glucosidase, β-xylosidase, and β-D-1,4-cellobiohydrolase) involved in soil C cycling were enhanced by NPK fertilizer, and were also enhanced by corn insertions except for the invertase and β-xylosidase under NPK fertilization. NPK fertilizer significantly improved soil microbial activity except for soil metabolic quotient (qCO2) and the microbial quotient under corn insertions. Corn insertions also significantly improved soil microbial activity except for the ratio of soil induced respiration (SIR) to basal respiration (BR) under fertilization and the qCO2 was decreased by corn insertions. These activity parameters were highly correlated with the soil functional capability of aromatic compound degradation, which was the main predictors of bacterial functional structure. In general, the combination of soil microbial activity, bacterial community and corresponding functional analysis provided comprehensive insights into compositional and functional adaptations to corn insertions and fertilization.

show abstract

“…Statistical calculations and analyses were performed using GraphPad Prism 6.0 software (GraphPad, La Jolla, CA, USA) and SPSS 19 software for Windows (IBM Corporation, Armonk, NY, USA). The bacterial functions of CTLs were predicted using FAPROTAX ( http://www.zoology.ubc.ca/louca/FAPROTAX/lib/php/index.php?section=Instructions ) (Liang et al, 2019 ). The trophic mode of the fungi was annotated using FUNGuild software ( http://www.stbates.org/guilds/app.php ) (Nguyen et al, 2016 ).…”

Section: Methodsmentioning

confidence: 99%

Microbial community and metabolic function analysis of cigar tobacco leaves during fermentation

Liu

Zhu

et al. 2021

MicrobiologyOpen

View full text Add to dashboard Cite

Cigar tobacco leaves (CTLs) contain abundant bacteria and fungi that are vital to leaf quality during fermentation. In this study, artificial fermentation was used for the fermentation of CTLs since it was more controllable and efficient than natural aging. The bacterial and fungal community structure and composition in unfermented and fermented CTLs were determined to understand the effects of microbes on the characteristics of CTLs during artificial fermentation. The relationship between the chemical contents and alterations in the microbial composition was evaluated, and the functions of bacteria and fungi in fermented CTLs were predicted to determine the possible metabolic pathways. After artificial fermentation, the bacterial and fungal community structure significantly changed in CTLs. The total nitrate and nicotine contents were most readily affected by the bacterial and fungal communities, respectively. FAPROTAX software predictions of the bacterial community revealed increases in functions related to compound transformation after fermentation. FUNGuild predictions of the fungal community revealed an increase in the content of saprotrophic fungi after fermentation. These data provide information regarding the artificial fermentation mechanism of CTLs and will inform safety and quality improvements.

show abstract

Functional Distribution of Bacterial Community under Different Land Use Patterns Based on FaProTax Function Prediction

Cited by 81 publications

References 66 publications

Rhizosphere Bacterial Community Response to Continuous Cropping of Tibetan Barley

Rhizosphere Bacterial Community Response to Continuous Cropping of Tibetan Barley

Changes in Soil Microbial Activity, Bacterial Community Composition and Function in a Long-Term Continuous Soybean Cropping System After Corn Insertion and Fertilization

Microbial community and metabolic function analysis of cigar tobacco leaves during fermentation

Contact Info

Product

Resources

About