Lignocellulosic fraction-induced niche differentiation within dissimilatory iron reducing bacterial groups in a paddy soil

doi:10.1007/s42832-023-0194-2

Soil Ecology Letters

2024, Vol. 6

Issue (1) : 230194 https://doi.org/10.1007/s42832-023-0194-2

RESEARCH ARTICLE

Lignocellulosic fraction-induced niche differentiation within dissimilatory iron reducing bacterial groups in a paddy soil

Yunbin Jiang^1,², Wenting Hu¹, Kailou Liu³, Shangshu Huang³, Fengwu Zhou¹, Cheng Han^1,², Huan Deng^2,⁴, Wenhui Zhong^1,²(

)

¹. Jiangsu Provincial Key Laboratory of Materials Cycling and Pollution Control, School of Geography, Nanjing Normal University, Nanjing 210023, China
². Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application, Nanjing 210023, China
³. National Engineering and Technology Research Center for Red Soil Improvement, Jiangxi Institute of Red Soil and Germplasm Resources, Nanchang 331717, China
⁴. School of Environment, Nanjing Normal University, Nanjing 210023, China

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Abstract

● Responses of soil DIRB to lignocellulosic fractions during a 6-week microcosm incubation were investigated.

● Anaeromyxobacter , Bacillus , and Clostridium maintained their dominance throughout the incubation.

● Distinct DIRB groups proliferated under specific lignocellulosic fraction amendments.

● Limits of insufficient ferric iron on the proliferation varied by DIRB group.

Dissimilatory iron reducing bacteria (DIRB) are phylogenetically and physiologically diverse in paddy soils, where iron reduction closely couples with the oxidation of rice straw-derived carbon in the straw returning scenarios. However, few studies have addressed the niche differentiation within DIRB groups during the degradation of lignocellulosic fractions of rice straw. This study conducted a 6-week microcosm incubation experiment to reveal the distinct responses of DIRB groups under specific lignocellulosic fraction amendments with and without ferrihydrite (Fh) addition in a flooded paddy Ultisol. Results showed that the total absolute abundance of the 19 detected DIRB groups did not vary significantly during the incubation. Anaeromyxobacter, Bacillus, and Clostridium were the dominant DIRB groups for all lignocellulosic treatments whereas Thermincola was dominant but only under xylan amendment with Fh addition. DIRB-nodes in the co-occurrence networks of bacterial community mainly belonged to Anaeromyxobacter and Bacillus. Clostridium and Thermincola, Alkaliphilus and Anaeromyxobacter, and Alicyclobacillus, Desulfobulbus, and Desulfosporosinus were specifically proliferated under xylan, cellulose, and lignin amendments, respectively. Whether the proliferation was limited by insufficient ferric iron varied by bacterial group. These findings suggested the lignocellulosic fraction-induced niche differentiation within DIRB groups, which advanced our understanding of the ecology of DIRB in paddy soils under straw returning.

Keywords cellulose hemicellulose lignin bacterial community diversity co-occurrence networks

Corresponding Author(s): Wenhui Zhong

Issue Date: 10 December 2023

Cite this article:

Yunbin Jiang,Wenting Hu,Kailou Liu, et al. Lignocellulosic fraction-induced niche differentiation within dissimilatory iron reducing bacterial groups in a paddy soil[J]. Soil Ecology Letters, 2024, 6(1): 230194.

URL:

https://academic.hep.com.cn/sel/EN/10.1007/s42832-023-0194-2
https://academic.hep.com.cn/sel/EN/Y2024/V6/I1/230194

Fig.1 Dynamics of soil pH, total organic carbon (TOC) content, dissolved organic carbon (DOC) content, and ferrous iron [Fe(II)] content during the incubation of lignocellulose-amended soils without (–Fh) or with ferrihydrite (Fh) addition (+Fh). Vertical bars refer to standard deviations (n = 3).

Fig.2 Abundances of total bacteria and DIRB in lignocellulose-amended soils without (–Fh) or with Fh addition (+Fh) after three (3w) and six weeks (6w) of incubation and non-amended control at the beginning of incubation (0w). Vertical bars refer to standard deviations (n = 3). Different letters above vertical bars indicate significant differences between soil samples (P < 0.05).

Fig.3 Diversities and compositions of bacterial community in lignocellulose-amended soils without (–Fh) or with Fh addition (+Fh) after three (3w) and six weeks (6w) of incubation and non-amended control at the beginning of incubation (0w). (A) Shannon index of soil bacterial community at ASV level. (B) Ordination plot of soil bacterial community composition at ASV level. (C) Relative abundance of bacterial genera for those ≥ 2% in at least one soil sample. The specific genera in blue denote that they are DIRB-associated genera. Vertical bars refer to standard deviations (n = 3). Different letters above vertical bars indicate significant differences between soil samples (P < 0.05).

Fig.4 Co-occurrence networks of bacterial ASVs in lignocellulose-amended soils without (–Fh) or with Fh addition (+Fh). Node size indicates the degree of the node. Only the nodes affiliated to DIRB-associated genera are colored. Red edges represent positive correlations, and blue edges represent negative correlations (Spearman’s |R| > 0.8, P < 0.01).

Tab.1 Topological indices of bacterial co-occurrence networks in lignocellulose-amended soils without (–Fh) or with Fh addition (+Fh).

Fig.5 Abundances of DIRB-associated genera detected in lignocellulose-amended soils with (+Fh) and without Fh addition (–Fh) after three (3w) and six weeks (6w) of incubation and their relative changes (RC) to those in non-amended control at the beginning of incubation (Control) and –Fh treatment soils. Unfilled color for relative changes means not applicable. Asterisks denote the genera notably enriched by lignocellulosic fraction amendments with or without Fh addition.

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