Ecology of Alkane‐Degrading Bacteria and Their Interaction with the Plant

Afzal, Muhammad; Yousaf, Sohail; Reichenauer, Thomas G.; Sessitsch, Angela

doi:10.1002/9781118297674.ch92

Cited by 29 publications

(16 citation statements)

References 150 publications

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“…The mechanisms underlying the role of plant associated bacteria in phytoremediation of environments contaminated with HMs or organic xenobiotics, in general (Germaine et al, 2013), and alkanes, in particular (Afzal et al, 2013), have recently been analyzed. These mechanisms include improvement of plant growth, nutrient (P and N) supply, production of Fe-binding siderophores, plant hormones production, enhanced ACC-deaminase activity (ethylene reductions), organic xenobiotic degradation, etc.…”

Section: Improving the Ability Of Soil Microorganisms For The Phytorementioning

confidence: 99%

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Barea

2015

J. Soil Sci. Plant Nutr.

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An intensive agricultural production is necessary to satisfy food requirements for the growing world population. However, its realization is associated with the mass consumption of non-renewable natural resources and with the emission of greenhouse gases causing climate changes. The research challenge is to meet sustainable environmental and economical issues without compromising yields. In this context, exploiting the agroecosystem services of soil microbial communities appears as a promising effective approach. This chapter reviews the research efforts aimed at improving a sustainable and healthy agricultural production through the appropriate management of soil microorganisms. First, the plant-associated microbiome is briefly described. Then, the current research technologies for formulation and application of inocula based on specific beneficial plant-associated microbes are summarized. Finally, the perspectives and opportunities to manage naturally existing microbial populations, including those non-culturable, are analyzed. This analysis concerns: (i) a description of the already available, culture-independent, molecular techniques addressed at increasing our understanding of root-microbiome interactions; (ii) how to improve the ability of soil microbes for alleviating the negative impacts of stress factors on crop productivity; and (iii) whether plants can structure their rootassociated microbial communities and, leading on from this, whether the rhizosphere can be engineered (biased) to encourage beneficial organisms, while prevent presence of pathogens.

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Section: Improving the Ability Of Soil Microorganisms For The Phytorementioning

confidence: 99%

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Barea

2015

J. Soil Sci. Plant Nutr.

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“…Studies have showed that the level of alkB bacteria are highly dynamic in response to the fluctuation of environmental alkanes. In soil or water environments when polluted with oil, the alkanedegrading bacteria were up-regulated (Afzal et al, 2013). Besides, in oil and gas reservoirs, it has been showed that the 15 abundance of alkB bacteria increased substantially in the surface soils with no significant detection of soil alkane (Xu et al, 2013).…”

Section: Introductionmentioning

confidence: 96%

“…soils and sediments, which made them useful as biomarkers in paleoecology (Sachse et al, 2012). Since alkanes are the major component in petroleum, nature gas, and diesel fuel, the existence of alkanes in environmental was also served as an index of oil contamination (Afzal et al, 2013). Although alkanes are very inactive, most of them can be degraded by several microorganisms.…”

Section: Introductionmentioning

confidence: 99%

Plant n-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

Huang¹,

Hsu²,

Chao³

et al. 2017

Preprint

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Abstract. n-Alkane and alkane-degrading bacteria have long been used as important biological indicators in paleoecology, 10 petroleum pollution and oil and gas prospecting. However, their relationships in natural forests are still poorly understood. In this study, long chain n-alkane (C 14 -C 35 ) levels of plants in litterfall, litter layer and topsoil and the diversity and abundance of n-alkane-degrading bacterial community in litter layer were investigated in 3 habitats across a lowland subtropical rainforest in southern Taiwan, i.e. the ravine habitat, the windward habitat and leeward habitat in Nanjenshan. Our results demonstrated that the litterfall production and flux of long chain n-alkane in ravine area were highest among all habitats. 15However, long chain n-alkane concentration formed a steep gradient to a similar level from the litterfall to the bulk soil in all habitats, suggesting a higher degrading rate of long chain n-alkane in ravine habitat. The operational taxonomic unit (OTU) analysis from next generation sequencing data revealed that the relative abundance of microbial communities in windward and leeward habitats were similar to each other and different from ravine habitat. Metagenomic data mining by NCBI database revealed that alkB gene associated bacterial (95% similarity to alkB contained bacteria in DNA sequence) were 20 highest in ravine area compared to other habitats. Empirical testing of litter-layer samples by semi-quantitative PCR in alkB gene levels confirmed that ravine habitat had higher alkB gene levels than windward and leeward habitats. Heat map analysis revealed a parallel in the color pattern between plant vegetation and microbial species-composition of habitats, suggesting a causal relationship between the plant n-alkane production and the diversity of microbial communities. This finding indicated that the diversity and relative abundance of microbial communities in litter layer were affected by the n-25 alkane composition in litterfall derived by plant vegetation.

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“…Evidence has revealed that the number of alkB bacteria dynamically changes in response to a fluctuation in environmental alkanes. In soil or water environments, when polluted with crude oil, the alkane-degrading bacteria were upregulated (Afzal et al, 2013). For example, a 10-fold increase in the relative abundance of oil degraders in contaminated versus clean sand was estimated for a Gulf of Mexico beach (Kostka et al, 2011).…”

Section: Introductionmentioning

confidence: 99%

“…Alkanes are exceptionally stable molecules that can survive in soil and sediment, which make them useful as biomarkers in paleoecology (Sachse et al, 2012). Because alkanes are the major components in petroleum, natural gas, and diesel fuel, the presence of environmental alkanes also serves as an index of oil contamination (Afzal et al, 2013). Although alkanes are very stable, most can be degraded by several microorganisms.…”

Section: Introductionmentioning

confidence: 99%

Plant <i>n</i>-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

et al. 2018

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Abstract. n-Alkane and alkane-degrading bacteria have long been used as crucial biological indicators of paleoecology, petroleum pollution, and oil and gas prospecting. However, the relationship between n-alkane and alkane-degrading bacteria in natural forests is still poorly understood. In this study, long-chain n-alkane (C 14 -C 35 ) concentrations in litterfall, litter layer, and topsoil as well as the diversity and abundance of n-alkane-degrading bacterial communities in litter layers were investigated in three habitats across a lowland subtropical rainforest in southern Taiwan: ravine, windward, and leeward habitats in Nanjenshan. Our results demonstrate that the litterfall yield and productivity of long-chain n-alkane were highest in the ravine habitats. However, long-chain n-alkane concentrations in all habitats were decreased drastically to a similar low level from the litterfall to the bulk soil, suggesting a higher rate of long-chain n-alkane degradation in the ravine habitat. Operational taxonomic unit (OTU) analysis using next-generation sequencing data revealed that the relative abundances of microbial communities in the windward and leeward habitats were similar and different from that in the ravine habitat. Data mining of community amplicon sequencing using the NCBI database revealed that alkBgene-associated bacteria (95 % DNA sequence similarity to alkB-containing bacteria) were most abundant in the ravine habitat. Empirical testing of litter layer samples using semiquantitative polymerase chain reaction for determining alkB gene levels confirmed that the ravine habitat had higher alkB gene levels than the windward and leeward habitats. Heat map analysis revealed parallels in pattern color between the plant and microbial species compositions of the habitats, suggesting a causal relationship between the plant n-alkane production and microbial community diversity. This finding indicates that the diversity and relative abundance of microbial communities in the litter layer are affected by n-alkane plant composition in the litterfall.

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Ecology of Alkane‐Degrading Bacteria and Their Interaction with the Plant

Cited by 29 publications

References 150 publications

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Plant n-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

Plant <i>n</i>-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

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Ecology of Alkane‐Degrading Bacteria and Their Interaction with the Plant

Cited by 29 publications

References 150 publications

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Future challenges and perspectives for applying microbial biotechnology in sustainable agriculture based on a better understanding of plant-microbiome interactions

Plant n-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

Plant &lt;i&gt;n&lt;/i&gt;-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan

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Plant <i>n</i>-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan