Rhizobium Inoculation Drives the Shifting of Rhizosphere Fungal Community in a Host Genotype Dependent Manner

Hanyu Xu; Yongqing Yang; Yingzhe Tian; Ruineng Xu; Yongjia Zhong; Hong Liao

doi:10.3389/fmicb.2019.03135

Rhizobium Inoculation Drives the Shifting of Rhizosphere Fungal Community in a Host Genotype Dependent Manner

Front Microbiol. 2020 Jan 21:10:3135. doi: 10.3389/fmicb.2019.03135. eCollection 2019.

Authors

Hanyu Xu¹, Yongqing Yang¹, Yingzhe Tian¹, Ruineng Xu¹, Yongjia Zhong¹, Hong Liao¹

Affiliation

¹ Root Biology Center, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China.

Abstract

Rhizosphere microorganisms play important roles in plant health and nutrition, and interactions among plants and microorganisms are important for establishment of root microbiomes. As yet, plant-microbe and microbe-microbe interactions in the rhizosphere remain largely mysterious. In this study, rhizosphere fungal community structure was first studied in a field experiment with two soybean cultivars contrasting in nodulation grown in two rhizobium inoculation treatments. Following this, recombinant inbred lines (RILs) contrasting in markers across three QTLs for biological nitrogen fixation (BNF) were evaluated for effects of genotype and rhizobium inoculation to the rhizosphere fungal community as assessed using ITS1 amplicon sequencing. The soybean plants tested herein not only hosted rhizosphere fungal communities that were distinct from bulk soils, but also specifically recruited and enriched Cladosporium from bulk soils. The resulting rhizosphere fungal communities varied among soybean genotypes, as well as, between rhizobium inoculation treatments. Besides, Cladosporium were mostly enriched in the rhizospheres of soybean genotypes carrying two or three favorable BNF QTLs, suggesting a close association between soybean traits associated with nodulation and those affecting the rhizosphere fungal community. This inference was bolstered by the observation that introduction of exogenous rhizobia significantly altered rhizosphere fungal communities to the point that these communities could be distinguished based on the combination of soybean genotype and whether exogenous rhizobia was applied. Interestingly, grouping of host plants by BNF QTLs also distinguished fungal community responses to rhizobium inoculation. Taken together, these results reveal that complex cross-kingdom interactions exist among host plants, symbiotic N₂ fixing bacteria and fungal communities in the soybean rhizosphere.

Keywords: fungal community; microbiome; rhizobium inoculation; rhizosphere; soybean.