Effects of different crops on rhizosphere bacterial diversity under immature soil conditions

ABSTRACT

Setaria italica, Panicum miliaceum

var. compactum, and Chenopodium quinoa have strong stress resistance, allowing adaptation to poor environments. The study of the stress resistance mechanisms of these crops has important significance for humans. The microbial diversity and metabolic pathways in soil collected from the rhizospheres of S. italica, P.miliaceum var. compactum, and C.quinoa were investigated using high-throughput sequencing. The taxonomic composition analysis of the flora indicates that during seedling and flowering stages, compared with immature soil samples, the main differential genera were Brachybacterium (p < 0.05), Pimelobacter (p < 0.05) and Candidatus Nitrososphaera (p < 0.05) for C. quinoa rhizosphere soil samples; Glycomyces for S. italica rhizosphere soil samples (p < 0.05); and Pseudomonas for P.miliaceum var. compactum rhizosphere soil samples (p < 0.05). Functional prediction analysis showed that, in two different samples, the calcium signaling pathway in S. italica soil microbes was enriched. For P.miliaceum var. compactum and C. quinoa, the enriched metabolic pathways were clavulanic acid biosynthesis and biosynthesis of the type II polyketide backbone, respectively (all, p < 0.05). This study indicates that crop species and sampling times have significant effects on the diversity of rhizosphere microorganisms under immature soil conditions.

KEYWORDS:

• Rhizosphere
• high-throughput sequencing
• bacterial diversity
• metabolic pathways

Highlights

1. High-throughput sequencing used to analyze soil from three crop rhizospheres.

2. Sequencing results predicted microbial metabolic pathways from three different rhizospheres.

3. Microbial genera potentially related to stress resistance were identified.

Disclosure statement

The authors declare that they have no competing interests.

Additional information

Funding

This work was supported by Postdoctoral Science Foundation [Program No. YCX2018D2BH3]; Shanxi Academy of Agricultural Sciences special industry key research and development special project [Program No. YCX2018D2T03], the earmarked fund for China Agriculture Research System [Program No. CARS-06-13.5-A16]; Shanxi Provincial Key Research and Development Program [Program No. 201803D221020-6] and Shanxi Academy of Agricultural Sciences Characteristic agricultural technology research [Program No. Nos. YGG17064].