Soil-Derived Microbial Consortia Enriched with Different Plant Biomass Reveal Distinct Players Acting in Lignocellulose Degradation

• Published in: Microbial ecology 2016-04, Vol.71 (3), p.616-627
• Main Authors: de Lima Brossi, Maria Julia, Jiménez, Diego Javier, Cortes-Tolalpa, Larisa, van Elsas, Jan Dirk
• Format: Article
• Language: English
• Subjects: Acremonium; bacteria; Bacteria - classification; Bacteria - genetics; Bacteria - isolation & purification; Bacteria - metabolism; Biomass; Biomedical and Life Sciences; carbon; Carbon sources; Cellulose; Comamonas; Coniochaeta; Coniochaeta ligniaria; corn stover; Delftia; DNA; Ecology; ENVIRONMENTAL MICROBIOLOGY; Forest soils; fungi; Fungi - classification; Fungi - genetics; Fungi - isolation & purification; Fungi - metabolism; Geoecology/Natural Processes; Life Sciences; lignin; Lignin - metabolism; lignocellulose; Microbial Consortia; Microbial Ecology; Microbiology; Nature Conservation; Paenibacillus; Panicum virgatum; Phylogeny; Plant biomass; Plants - classification; Plants - microbiology; Pseudomonas putida; Raoultella terrigena; Sanguibacter; Soil Microbiology; Sphingobacterium; Stenotrophomonas; Stenotrophomonas rhizophila; Stover; Triticum aestivum; Water Quality/Water Pollution; Wheat straw; xylan
• ISSN: 0095-3628; 1432-184X
• DOI: 10.1007/s00248-015-0683-7

Here, we investigated how different plant biomass, and—for one substrate—pH, drive the composition of degrader microbial consortia. We bred such consortia from forest soil, incubated along nine aerobic sequential - batch enrichments with wheat straw (WS1, pH 7.2; WS2, pH 9.0), switchgrass (SG, pH 7.2), and corn stover (CS, pH 7.2) as carbon sources. Lignocellulosic compounds (lignin, cellulose and xylan) were best degraded in treatment SG, followed by CS, WS1 and WS2. In terms of composition, the consortia became relatively stable after transfers 4 to 6, as evidenced by PCR-DGGE profiles obtained from each consortium DNA. The final consortia differed by ~40 % (bacteria) and ~60 % (fungi) across treatments. A ‘core’ community represented by 5/16 (bacteria) and 3/14 (fungi) bands was discerned, next to a variable part. The composition of the final microbial consortia was strongly driven by the substrate, as taxonomically-diverse consortia appeared in the different substrate treatments, but not in the (WS) different pH one. Biodegradative strains affiliated to Sphingobacterium kitahiroshimense, Raoultella terrigena, Pseudomonas putida, Stenotrophomonas rhizophila (bacteria), Coniochaeta ligniaria and Acremonium sp. (fungi) were recovered in at least three treatments, whereas strains affiliated to Delftia tsuruhatensis, Paenibacillus xylanexedens, Sanguibacter inulus and Comamonas jiangduensis were treatment-specific.