Soil Drying As a Model for the Action of Stress Factors on Natural Bacterial Populations

Rokitko, P. V.; Romanovskaya, V. A.; Malashenko, Yu. R.; Chernaya, N. A.; Gushcha, N. I.; Mikheev, А. N.

doi:10.1023/b:mici.0000008381.16848.8b

Cited by 8 publications

(9 citation statements)

References 10 publications

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“…Indicator species analysis identified bacterial taxa with consistently increased relative abundance in soils from harvested plots across all pyrotag libraries (Figure 5 ; Supplementary Data 3 ). All of these taxa have members who are reported to be tolerant of heat, radiation and desiccation: Geodermatophilus (Montero-Calasanz et al, 2014 ; Sghaier et al, 2016 ), Sporichthya (Eppard et al, 1996 ; Babalola et al, 2009 ), Ramlibacter (De Luca et al, 2011 ), Flavisolibacter (Joo et al, 2015 ), Methylobacterium (Nogueira et al, 1998 ; Rokitko et al, 2003 ) and Segetibacter (Liu et al, 2014 ). The relative abundance of these groups (except Flavisolibacter and Sporichthyaceae) was also substantially increased in harvested plots from LTSP field sites in British Columbia (Figure S5 ).…”

Section: Resultsmentioning

confidence: 99%

Long-Term Enrichment of Stress-Tolerant Cellulolytic Soil Populations following Timber Harvesting Evidenced by Multi-Omic Stable Isotope Probing

et al. 2017

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Soil management is vital for maintaining the productivity of commercial forests, yet the long-term impact of timber harvesting on soil microbial communities remains largely a matter of conjecture. Decomposition of plant biomass, comprised mainly of lignocellulose, has a broad impact on nutrient cycling, microbial activity and physicochemical characteristics of soil. At “Long-term Soil Productivity Study” sites in California dominated by Ponderosa pine, we tested whether clear-cut timber harvesting, accompanied by varying degrees of organic matter (OM) removal, affected the activity and structure of the cellulose-degrading microbial populations 16 years after harvesting. Using a variety of experimental approaches, including stable isotope probing with 13C-labeled cellulose in soil microcosms, we demonstrated that harvesting led to a decrease in net respiration and cellulolytic activity. The decrease in cellulolytic activity was associated with an increased relative abundance of thermophilic, cellulolytic fungi (Chaetomiaceae), coupled with a decreased relative abundance of cellulolytic bacteria, particularly members of Opitutaceae, Caulobacter, and Streptomycetaceae. In general, harvesting led to an increase in stress-tolerant taxa (i.e., also non-cellulolytic taxa), though our results indicated that OM retention mitigated population shifts via buffering against abiotic changes. Stable-isotope probing improved shotgun metagenome assembly by 20-fold and enabled the recovery of 10 metagenome-assembled genomes of cellulolytic bacteria and fungi. Our study demonstrates the putative cellulolytic activity of a number of uncultured taxa and highlights the mineral soil layer as a reservoir of uncharacterized diversity of cellulose-degraders. It also and contributes to a growing body of research showing persistent changes in microbial community structure in the decades following forest harvesting.

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Section: Resultsmentioning

confidence: 99%

Long-Term Enrichment of Stress-Tolerant Cellulolytic Soil Populations following Timber Harvesting Evidenced by Multi-Omic Stable Isotope Probing

et al. 2017

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“…It has been previously shown that bacteria on soil surfaces decline more rapidly than those incorporated into soils (Hutchison et al. 2004) as a consequence of elevated UV light exposure, diurnal temperature cycles and drying (Rokitko et al. 2003, 2004).…”

Section: Discussionmentioning

confidence: 99%

Distribution and decline of human pathogenic bacteria in soil after application in irrigation water and the potential for soil-splash-mediated dispersal onto fresh produce

Monaghan

Hutchison

2012

Journal of Applied Microbiology

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Aims: To improve our understanding of the survival and splash‐mediated transfer of zoonotic agents and faecal indicator bacteria introduced into soils used for crop cultivation via contaminated irrigation waters. Methods and Results: Zoonotic agents and an Escherichia coli marker bacterium were inoculated into borehole water, which was applied to two different soil types in early‐, mid‐ and late summer. Decline of the zoonotic agents was influenced by soil type. Marker bacteria applied to columns of two soil types in irrigation water did not concentrate at the surface of the soils. Decline of zoonotic agents at the surface was influenced by soil type and environmental conditions. Typically, declines were rapid and bacteria were not detectable after 5 weeks. Selective agar strips were used to determine that the impact of water drops 24–87 μl could splash marker bacteria from soil surfaces horizontal distances of at least 25 cm and heights of 20 cm. Conclusions: Soil splash created by rain‐sized water droplets can transfer enteric bacteria from soil to ready‐to‐eat crops. Persistence of zoonotic agents was reduced at the hottest part of the growing season when irrigation is most likely. Significance and Impact of the Study: Soil splash can cause crop contamination. We report the penetration depths and seasonally influenced declines of bacteria applied in irrigation water into two soil types.

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“…Identification of a novel genetic element required for desiccation tolerance, and proper biofilm formation. An increased tolerance to desiccation can enhance the survival of rhizobacteria within the soil considerably (Rokitko et al 2003). This is of particular interest with nitrogenfixing rhizobia because desiccation is a major cause of the poor on-seed survival rates of commercial inoculants and the subsequent poor performance of rhizobial inoculants in the field (Deaker et al 2004).…”

Section: Survival Of Rhizobiamentioning

confidence: 99%

Impact of Harsh Environmental Conditions on Nodule Formation and Dinitrogen Fixation of Legumes

Abd‐Alla¹,

Issa²,

Ohyama³

2014

Advances in Biology and Ecology of Nitrogen Fixation

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Soil Drying As a Model for the Action of Stress Factors on Natural Bacterial Populations

Cited by 8 publications

References 10 publications

Long-Term Enrichment of Stress-Tolerant Cellulolytic Soil Populations following Timber Harvesting Evidenced by Multi-Omic Stable Isotope Probing

Long-Term Enrichment of Stress-Tolerant Cellulolytic Soil Populations following Timber Harvesting Evidenced by Multi-Omic Stable Isotope Probing

Distribution and decline of human pathogenic bacteria in soil after application in irrigation water and the potential for soil-splash-mediated dispersal onto fresh produce

Impact of Harsh Environmental Conditions on Nodule Formation and Dinitrogen Fixation of Legumes

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