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Soil bacterial community structures in relation to different oil palm management practices.

ABSTRACT: We provide soil bacterial 16?S rRNA gene amplicon and geochemical data derived from an oil palm plantation management experiment. The experimental design covered two different intensities of fertilizer application and weeding practices. We sampled the topsoil of 80 plots in total and extracted DNA and RNA. 16?S rRNA gene-derived and transcript-derived amplicons were generated and sequenced to analyse community composition and beta-diversity. One year after establishing the experiment, statistically significant differences of bacterial diversity or community composition between different treatments at entire (DNA-derived) and active (RNA-derived) community level were not detected. The dominant taxa belonged to Acidobacteriota and Actinobacteriota and were more abundant in the active community compared to the entire community. Similarly, the abundant genera Candidatus Solibacter and Haliangium were more abundant at active community level. Furthermore, clustering corresponding to the different sampling site locations was detected. Beta-diversity did not change among the treatments at DNA and RNA level. This dataset is of interest for related studies on the effect of altered management practices on soilborne communities.

SUBMITTER: Berkelmann D

PROVIDER: S-EPMC7705008 | biostudies-literature | 2020 Nov

REPOSITORIES: biostudies-literature

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Soil bacterial community structures in relation to different oil palm management practices.

Berkelmann Dirk D Schneider Dominik D Hennings Nina N Meryandini Anja A Daniel Rolf R

Scientific data 20201130 1

We provide soil bacterial 16 S rRNA gene amplicon and geochemical data derived from an oil palm plantation management experiment. The experimental design covered two different intensities of fertilizer application and weeding practices. We sampled the topsoil of 80 plots in total and extracted DNA and RNA. 16 S rRNA gene-derived and transcript-derived amplicons were generated and sequenced to analyse community composition and beta-diversity. One year after establishing the experiment, statistica ...[more]

PMID: 33257691

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Project description:BackgroundThe soil quality and health of the tea plantations are dependent on agriculture management practices, and long-term chemical fertilizer use is implicated in soil decline. Hence, several sustainable practices are used to improve and maintain the soil quality. Here, in this study, changes in soil properties, enzymatic activity, and dysbiosis in bacterial community composition were compared using three agricultural management practices, namely conventional (CA), sustainable (SA), and transformational agriculture (TA) in the tea plantation during 2016 and 2017 period. Soil samples at two-months intervals were collected and analyzed.ResultsThe results of the enzyme activities revealed that acid phosphatase, arylsulfatase, β-glucosidase, and urease activities differed considerably among the soils representing the three management practices. Combining the redundancy and multiple regression analysis, the change in the arylsulfatase activity was explained by soil pH as a significant predictor in the SA soils. The soil bacterial community was predominated by the phyla Proteobacteria, Acidobacteria, Actinobacteria, Chloroflexi, and Bacteroidetes in the soil throughout the sampling period. Higher Alpha diversity scores indicated increased bacterial abundance and diversity in the SA soils. A significant relationship between bacterial richness indices (SOBS, Chao and ACE) and soil pH, K and, P was observed in the SA soils. The diversity indices namely Shannon and Simpson also showed variations, suggesting the shift in the diversity of less abundant and more common species. Furthermore, the agricultural management practices, soil pH fluctuation, and the extractable elements had a greater influence on bacterial structure than that of temporal change.ConclusionsBased on the cross-over analysis of the bacterial composition, enzymatic activity, and soil properties, the relationship between bacterial composition and biologically-driven ecological processes can be identified as indicators of sustainability for the tea plantation.

Project description:We compared patterns of soil bacterial community diversity and structure in six secondary forests (JM, Juglans mandshurica; QM, Quercus mongolica; MB, mixed Broadleaf forest; BE, Betula ermanii; CB, conifer-broadleaf forest; PT, Pinus tabuliformis) and two plantation forests (LG, Larix gmelinii; PK, Pinus koraiensis) of the Baishilazi Nature Reserve, China, based on the 16S rRNA high-throughput Illumina sequencing data. The correlations between the bacterial community and soil environmental factors were also examined. The results showed that the broadleaf forests (JM, QM, MB) had higher levels of total C (TC), total N (TN), available N (AN), and available K (AK) compared to the coniferous forests (PT, LG, PK) and conifer-broadleaf forest (CB). Different revegetation pathways had different effects on the soil bacterial community diversity and structure. For the ?-diversity, the highest Shannon index and Simpson index were found in JM. The Simpson index was significantly positively correlated with the available P (AP) (P < 0.05), and the Shannon index was significantly positively correlated with AK (P < 0.05). Compared with others, the increased ACE index and Chao1 index were observed in the CB and MB, and both of these ?-diversity were significantly negative with AK (P < 0.05). The relative abundances of bacterial phyla and genera differed among different revegetation types. At the phylum level, the dominant phylum groups in all soils were Proteobacteria, Acidobacteria, Actinobacteria, Verrucomicrobia, Chloroflexi, Bacteroidetes, Gemmatimonadetes, and Planctomycetes. Significant differences in relative abundance of bacteria phyla were found for Acidobacteria, Actinobacteria, Chloroflexi, Gemmatimonadetes, and Proteobacteria. Correlation analysis showed that Soil pH, TC, TN, AP, and AK were the main abiotic factors structuring the bacterial communities. As revealed by the clear differentiation of bacterial communities and the clustering in the heatmap and in the PCA plots, broadleaf forests and coniferous forests harbored distinct bacterial communities, indicating a significant impact of the respective reforestation pathway on soil bacterial communities in the Baishilazi Nature Reserve.

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Soil bacterial community structures in relation to different oil palm management practices.

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Soil bacterial community structures in relation to different oil palm management practices.

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