Using null models to decipher bacterial assembly mechanisms in oat silages harvested from southern China

Abstract

Abstract Background Deciphering the assembly rules of microbial communities is vital for a mechanistic understanding of the general principles driving microbiome structures and functions. In this study, a null modeling-based framework was implemented to infer the assembly rules of bacterial community in oat silages harvested in southern China starting from the grain-filling stage through to full ripening. Results Most silages displayed “inferior” or “very inferior” fermentation quality. The fermentation qualities of silages tended to further decrease with the delay of harvest. Lactobacillus, Pediococcus, unclassified_f_Enterobacteriaceae, and Hafnia–Obesumbacterium constituted the predominated genera in silages. Delaying harvest increased the proportions of Hafnia–Obesumbacterium. Null model analysis revealed that stochastic processes were the primary contributor to the assembly of rare subcommunity during silage fermentation. The succession of abundant subcommunity was controlled both by stochastic and deterministic processes. Deterministic processes, more specifically, heterogeneous selection, were more prominent in the assembly of abundant bacteria in silages with the delay of harvest. Linear regression analysis indicated the important roles of DM, WSC and pH in the assembly of abundant subcommunity. Conclusion This study, from the ecological perspectives, revealed the ecological processes controlling the bacterial community assembly in silage, providing new insights into the mechanisms underlying the construction of silage bacterial community. Graphical Abstract

Keywords

• Bacterial assembly
• Null models
• Oat silage
• Southern China