Abstract
Switchgrass (Panicum virgatum L.) is a cellulosic biofuel feedstock and their effects on bacterial communities in deep soils remain poorly understood. To reveal the responses of bacterial communities to long-term switchgrass cultivation through the soil profile, we examined the shift of soil microbial communities with depth profiles of 0–60 cm in five-year switchgrass cultivation and fallow plots. The Illumina sequencing of the 16S rRNA gene showed that switchgrass cultivation significantly increased microbial OTU richness, rather than microbial Shannon diversity; however, there was no significant difference in the structure of microbial communities between switchgrass cultivation and fallow soils. Both switchgrass cultivation and fallow soils exhibited significant negative vertical spatial decay of microbial similarity, indicating that more vertical depth distant soils had more dissimilar communities. Specifically, switchgrass cultivation soils showed more beta-diversity variations across soil depth profile. Through network analysis, more connections and closer relationships of microbial taxa were observed in soils under switchgrass cultivation, suggesting that microbial co-occurrence patterns were substantially influenced by switchgrass cultivation. Overall, our study suggested that five-year switchgrass cultivation could generated more beta-diversity variations across soil depth and more complex inter-relationships of microbial taxa, although did not significantly shape the structure of soil microbial community.
Highlights
Switchgrass (Panicum virgatum L.) is a perennial C-4 grass with high photosynthetic efficiency and biomass production potential[1]
Most of the previous studies on the microbial community structures have been conducted based on the technologies of clone library analysis, community-level physiological profiles, phospholipid fatty acids (PLFAs), terminal restriction fragment length polymorphism (T-RFLP) and denaturing gradient gel electrophoresis (DGGE)
We addressed the following detailed questions: (i) Do switchgrass cultivations change the structure of bacterial community throughout the depth of soil profile? (ii) How the bacterial communities shift with the soil depths? (iii) What are the co-occurrence patterns between bacterial taxa responding to switchgrass cultivation?
Summary
Switchgrass (Panicum virgatum L.) is a perennial C-4 grass with high photosynthetic efficiency and biomass production potential[1]. Most of the previous studies on the microbial community structures have been conducted based on the technologies of clone library analysis, community-level physiological profiles, phospholipid fatty acids (PLFAs), terminal restriction fragment length polymorphism (T-RFLP) and denaturing gradient gel electrophoresis (DGGE). These methods provided limited information to comprehensively resolve the phylogenetic responses of microbial communities to environmental changes due to the small number of sequences analyzed[23]. We conducted a metagenomic analysis of soil microbial communities via high-throughput sequencing of the 16S rRNA gene to examine their shifts with depth profiles and switchgrass cultivation. We addressed the following detailed questions: (i) Do switchgrass cultivations change the structure of bacterial community throughout the depth of soil profile? (ii) How the bacterial communities shift with the soil depths? (iii) What are the co-occurrence patterns between bacterial taxa responding to switchgrass cultivation?
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