Resistance and resilience of the forest soil microbiome to logging-associated compaction

Hartmann, Martin; Niklaus, Pascal A.; Zimmermann, Stephan; Schmutz, Stefan; Kremer, Johannes; Abarenkov, Kessy; Lüscher, Peter; Widmer, Franco; Frey, Beat

doi:10.1038/ismej.2013.141

Cited by 318 publications

(248 citation statements)

References 93 publications

Supporting

Mentioning

226

Contrasting

Unclassified

Order By: Relevance

“…The forests having high proportion of mycorrhizal fungi are also considered better conserved than the forests having low proportion (Ortega and Lorite 2007). Furthermore, silviculture-related disturbances in forests also reduce the proportion of mycorrhizal fungi and corresponding increase in saprotrophic species (Kropp and Albee 1996; Hartmann et al 2014). In CFs managed both for short and long duration, mycorrhizal fungi contributed <40% of the total macrofungi, which has been considered ‘acute’ in terms of forest deterioration by Fellner and Pešková (1995).…”

Section: Discussionmentioning

confidence: 99%

Macrofungal diversity in community-managed sal (Shorea robusta) forests in central Nepal

et al. 2015

View full text Add to dashboard Cite

Macrofungi constitute a group of the high-value forest resources worldwide. In this paper, we report species richness and composition of the macrofungi in sal (Shorea robusta) forests of mid-hill central Nepal, which were managed for 4–29 years by the local communities. The sal forests were rich in macrofungi (115 species) with Polyporaceae being the largest family followed by Clavariaceae. Saprotrophic fungi were more common than mycorrhizal species. The proportion of mycorrhiza was <40% of the total macrofungi species which might have indicated the deteriorated condition of the forests before the initiation of conservation management. However, the proportion of mycorrhizal species was slightly higher in the forests managed for >10 years than in the forests managed for short period. The species richness increased with increasing canopy and litter cover. Since silvicultural activities and resource utilization often have negative impacts to macrofungal diversity, these activities need to be optimized to keep balance between forest management and biodiversity conservation.

show abstract

Section: Discussionmentioning

confidence: 99%

Macrofungal diversity in community-managed sal (Shorea robusta) forests in central Nepal

et al. 2015

View full text Add to dashboard Cite

show abstract

“…All filtrates were collected in acid-cleaned 100 ml PE bottles and pH was determined with a pH-metre (FEP20-FiveEasy Plus, Mettler Toledo GmbH, Switzerland As the ice samples yielded small amounts of DNA, four individually extracted subsamples were pooled, precipitated and resuspended in 50 μl elution solution according to the manufacturer instructions to form three independent replicates. Amplicons were generated using methods similar to those applied by Hartmann et al (2014) and Rime et al (2015). Briefly, DNA was pre-treated with 1 μg bovine serum albumin ml − 1 at 95°C for 5 min before PCR reactions to bind PCR inhibitors.…”

Section: Methodsmentioning

confidence: 99%

“…Bioinformatics quality checks of the pyrotagged reads were performed in MOTHUR v.1.32 (Schloss et al, 2009) according to the established procedure recently described (Hartmann et al, 2014;Rime et al, 2015). A detailed description of the sequence curation procedure is given as Supplementary_Materials and Methods.doc.…”

Section: Sequence Analysesmentioning

confidence: 99%

Potential sources of microbial colonizers in an initial soil ecosystem after retreat of an alpine glacier

2016

Self Cite

View full text Add to dashboard Cite

Rapid disintegration of alpine glaciers has led to the formation of new terrain consisting of mineral debris colonized by microorganisms. Despite the importance of microbial pioneers in triggering the formation of terrestrial ecosystems, their sources (endogenous versus exogenous) and identities remain elusive. We used 454-pyrosequencing to characterize the bacterial and fungal communities in endogenous glacier habitats (ice, sub-, supraglacial sediments and glacier stream leaving the glacier forefront) and in atmospheric deposition (snow, rain and aeolian dust). We compared these microbial communities with those occurring in recently deglaciated barren soils before and after snow melt (snow-covered soil and barren soil). Atmospheric bacteria and fungi were dominated by plant-epiphytic organisms and differed from endogenous glacier habitats and soils indicating that atmospheric input of microorganisms is not a major source of microbial pioneers in newly formed soils. We found, however, that bacterial communities in newly exposed soils resembled those of endogenous habitats, which suggests that bacterial pioneers originating from sub-and supraglacial sediments contributed to the colonization of newly exposed soils. Conversely, fungal communities differed between habitats suggesting a lower dispersal capability than bacteria. Yeasts putatively adapted to cold habitats characteristic of snow and supraglacial sediments were similar, despite the fact that these habitats were not spatially connected. These findings suggest that environmental filtering selects particular fungi in cold habitats. Atmospheric deposition provided important sources of dissolved organic C, nitrate and ammonium. Overall, microbial colonizers triggering soil development in alpine environments mainly originate from endogenous glacier habitats, whereas atmospheric deposition contributes to the establishment of microbial communities by providing sources of C and N.

show abstract

“…In addition, the majority of related studies focus on large, charismatic organisms, whereas soil microbes, the most diverse and abundant taxa in these systems, have received far less attention, despite their critical roles in ecosystem function and recovery from forest disturbance [9][10][11]. Since a variety of biotic and abiotic factors known to structure soil microbial communities are significantly altered in degraded forests that have been logged or converted to agricultural production areas [12,13], it is likely that microbial taxa will be dramatically different in these humandominated systems with important consequences for altered plant-soil-atmosphere feedbacks [14,15].…”

Section: Introductionmentioning

confidence: 99%

Responses of Soil Fungi to Logging and Oil Palm Agriculture in Southeast Asian Tropical Forests

et al. 2014

View full text Add to dashboard Cite

Human land use alters soil microbial composition and function in a variety of systems, although few comparable studies have been done in tropical forests and tropical agricultural production areas. Logging and the expansion of oil palm agriculture are two of the most significant drivers of tropical deforestation, and the latter is most prevalent in Southeast Asia. The aim of this study was to compare soil fungal communities from three sites in Malaysia that represent three of the most dominant land-use types in the Southeast Asia tropics: a primary forest, a regenerating forest that had been selectively logged 50 years previously, and a 25-year-old oil palm plantation. Soil cores were collected from three replicate plots at each site, and fungal communities were sequenced using the Illumina platform. Extracellular enzyme assays were assessed as a proxy for soil microbial function. We found that fungal communities were distinct across all sites, although fungal composition in the regenerating forest was more similar to the primary forest than either forest community was to the oil palm site. Ectomycorrhizal fungi, which are important associates of the dominant Dipterocarpaceae tree family in this region, were compositionally distinct across forests, but were nearly absent from oil palm soils. Extracellular enzyme assays indicated that the soil ecosystem in oil palm plantations experienced altered nutrient cycling dynamics, but there were few differences between regenerating and primary forest soils. Together, these results show that logging and the replacement of primary forest with oil palm plantations alter fungal community and function, although forests regenerating from logging had more similarities with primary forests in terms of fungal composition and nutrient cycling potential. Since oil palm agriculture is currently the mostly rapidly expanding equatorial crop and logging is pervasive across tropical ecosystems, these findings may have broad applicability.

show abstract

Resistance and resilience of the forest soil microbiome to logging-associated compaction

Cited by 318 publications

References 93 publications

Macrofungal diversity in community-managed sal (Shorea robusta) forests in central Nepal

Macrofungal diversity in community-managed sal (Shorea robusta) forests in central Nepal

Potential sources of microbial colonizers in an initial soil ecosystem after retreat of an alpine glacier

Responses of Soil Fungi to Logging and Oil Palm Agriculture in Southeast Asian Tropical Forests

Contact Info

Product

Resources

About