Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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    We will mail you new results for this query: keywords==Microbial community
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Activated carbon mixed with marine sediment is suitable as bioanode material for Spartina anglica sediment/plant microbial fuel cell: Plant growth, electricity generation, and spatial microbial community diversity
Sudirjo, Emilius ; Buisman, Cees J.N. ; Strik, David P.B.T.B. - \ 2019
Water 11 (2019)9. - ISSN 2073-4441
Activated carbon - Bioanode - Constructed wetlands - Marine sediment - Microbial community - Plant-MFC - Sediment-MFC

Wetlands cover a significant part of the world's land surface area. Wetlands are permanently or temporarily inundated with water and rich in nutrients. Therefore, wetlands equipped with Plant-Microbial Fuel Cells (Plant-MFC) can provide a new source of electricity by converting organic matter with the help of electrochemically active bacteria. In addition, sediments provide a source of electron donors to generate electricity from available (organic) matters. Eight lab-wetlands systems in the shape of flat-plate Plant-MFC were constructed. Here, four wetland compositions with activated carbon and/or marine sediment functioning as anodes were investigated for their suitability as a bioanode in a Plant-MFC system. Results show that Spartina anglica grew in all of the Plant-MFCs, although the growth was less fertile in the 100% activated carbon (AC100) Plant-MFC. Based on long-term performance (2 weeks) under 1000 ohm external load, the 33% activated carbon (AC33) Plant-MFC outperformed the other Plant-MFCs in terms of current density (16.1 mA/m2 plant growth area) and power density (1.04 mW/m2 plant growth area). Results also show a high diversity of microbial communities dominated by Proteobacteria with 42.5-69.7% relative abundance. Principal Coordinates Analysis shows clear different bacterial communities between 100% marine sediment (MS100) Plant-MFC and AC33 Plant-MFC. This result indicates that the bacterial communities were affected by the anode composition. In addition, small worms (Annelida phylum) were found to live around the plant roots within the anode of the wetland with MS100. These findings show that the mixture of activated carbon and marine sediment are suitable material for bioanodes and could be useful for the application of Plant-MFC in a real wetland. Moreover, the usage of activated carbon could provide an additional function like wetland remediation or restoration, and even coastal protection.

Performance and microbial community analysis of Combined Denitrification and Biofloc Technology (CDBFT) system treating nitrogen-rich aquaculture wastewater
Li, Changwei ; Li, Jiawei ; Liu, Gang ; Deng, Yale ; Zhu, Songming ; Ye, Zhangying ; Shao, Yufang ; Liu, Dezhao - \ 2019
Bioresource Technology 288 (2019). - ISSN 0960-8524
Aquaculture wastewater - Biofloc technology - Denitrification - LED light - Microbial community

This study proposed two novel Combined Denitrification and Biofloc Technology (CDBFT) systems (one under blue LED light (L1) and the other without light (C1), each containing a denitrification (DE) reactor and a biofloc-based reactor) for the enhanced total nitrogen (TN) removal. Long-term operation (110 days) suggested that simultaneous nitrification and denitrification was achieved in both C1 and L1. Significantly higher total nitrogen removal efficiency (TNRE) was observed in L1-CDBFT (92.2%) than C1-CDBFT (87.5%, P < 0.05; after day 14). Further 24-hour nitrogen transformation test showed the boosted nitrate removal of L1-BFT than C1-BFT. High-throughput sequencing analysis revealed that phyla Rotifera and Nematoda which were indispensable for aquatic animal larviculture, were only found in L1-BFT. Nevertheless, CDBFT effluent from both systems was suitable for tilapia culture based on water quality, biofloc characteristics and tilapia survival rates. Overall, this study highlights the significance of developing CDBFT for TN removal especially under lights.

Electrochemical and microbiological characterization of single carbon granules in a multi-anode microbial fuel cell
Caizán-Juanarena, Leire ; Servin-Balderas, Ivonne ; Chen, Xuan ; Buisman, Cees J.N. ; Heijne, Annemiek ter - \ 2019
Journal of Power Sources 435 (2019). - ISSN 0378-7753
Capacitive bioanode - Charge storage - Charge/discharge cycles - Granular activated carbon - Microbial community - Total nitrogen

Capacitive microbial fuel cells (MFCs) use bacteria on a capacitive anode to oxidize organics in wastewater and simultaneously charge the electrode. This study aims to gain knowledge on the performance of single activated carbon (AC) granules, which are used as capacitive bioanodes. To this end, a multi-anode MFC that allows the testing of up to 29 granules under the same experimental conditions is used. 2 types of AC granules (PK and GAC) and 3 different size-ranges (n = 8 each) are studied in terms of current production, biomass quantification, microbial community and charge storage. Additionally, charge storage of PK granules (n = 24) is determined for different charging/discharging times. Results show that total produced charge directly relates to biomass amount, which has a linear relation towards granule outer surface area. Small AC granules have higher volumetric current densities, which could be of interest for their application in up-scaled reactors. PK granules show slightly higher biomass and current production than GAC granules, while these latter ones show larger volumetric charge storage capacity. Similarly, it is shown that short charging/discharging times are needed to obtain maximum charge storage and current output. These findings are of importance to design and operate MFCs with capacitive properties.

Effect of stock density on the microbial community in biofloc water and Pacific white shrimp (Litopenaeus vannamei) gut microbiota
Deng, Yale ; Xu, Xiangyang ; Yin, Xuwang ; Lu, Huifeng ; Chen, Guangshuo ; Yu, Jianhai ; Ruan, Yunjie - \ 2019
Applied Microbiology and Biotechnology 103 (2019)10. - ISSN 0175-7598 - p. 4241 - 4252.
Biofloc technology - Gut microbiota - Microbial community - Shrimp - Stock density

Biofloc technology is an efficient approach for intensive shrimp culture. However, the extent to which this process can influence the composition of intestinal microbial community is still unknown. Here, we surveyed the shrimp intestinal bacteria as well as the floc water from three biofloc systems with different stock densities. Our study revealed a similar variation trend in phylum taxonomy level between floc bacteria and gut microbiota. Microbial community varied notably in floc water from different stock densities, while a core genus with dominating relative abundance was detected in gut samples. Extensive variation was discovered in gut microbiota, but still clustered into groups according to stock density. Our results indicated that shrimp intestinal microbiota as well as bacteria aggregated in flocs assembled into distinct communities from different stock densities, and the intestinal communities were more similar with the surrounding environment as the increase of stock density and resulting high floc biomass. The high stock density changed the core gut microbiota by reducing the relative abundance of Paracoccus and increasing that of Nocardioides, which may negatively influence shrimp performance. Therefore, this study helps us to understand further bacteria and host interactions in biofloc system.

Robust sampling and preservation of DNA for microbial community profiling in field experiments
Groenenboom, Anneloes E. ; Smid, Eddy J. ; Schoustra, Sijmen E. - \ 2019
BMC Research Notes 12 (2019)1. - ISSN 1756-0500
DNA stabilisation - Fermentation - Field trial - Filter paper disks - Microbial community - Milk

Objective: Stabilising samples of microbial communities for DNA extraction without access to laboratory equipment can be a challenging task. In this paper we propose a method using filter paper disks for the preservation of DNA from diverse microbial communities which are found in a fermented milk product. Results: Small adaptations to the DNA extraction method used for liquid fermented milk delivered DNA of sufficient amounts and quality to be used for later analyses, e.g. full community 16S amplicon sequencing. The microbial community structure obtained via the filter paper method showed sufficient resemblance to the structure obtain via the traditional DNA extraction from the liquid milk sample. This method can therefore successfully be used to analyse diverse microbial communities from fermented milk products from remote areas.

Local functioning, landscape structuring : Drivers of soil microbial community structure and function in peatlands
Teurlincx, Sven ; Heijboer, Amber ; Veraart, Annelies J. ; Kowalchuk, George A. ; Steven, Steven A. - \ 2018
Frontiers in Microbiology 9 (2018)SEP. - ISSN 1664-302X
Biolog Ecoplates - CLPP - Ditch margins - Landscape ecology - Microbial community - Peatland management - Peatlands - PLFA

Agricultural peatlands are essential for a myriad of ecosystem functions and play an important role in the global carbon (C) cycle through C sequestration. Management of these agricultural peatlands takes place at different spatial scales, ranging from local to landscape management, and drivers of soil microbial community structure and function may be scale-dependent. Effective management for an optimal biogeochemical functioning thus requires knowledge of the drivers on soil microbial community structure and functioning, as well as the spatial scales upon which they are influenced. During two field campaigns, we examined the importance of different drivers (i.e., soil characteristics, nutrient management, vegetation composition) at two spatial scales (local vs. landscape) for, respectively, the soil microbial community structure (determined by PLFA) and soil microbial community functional capacity (as assessed by CLPP) in agricultural peatlands. First, we show by an analysis of PLFA profiles that the total microbial biomass changes with soil moisture and relative C:P nutrient availability. Secondly, we showed that soil communities are controlled by a distinct set of drivers at the local, as opposed to landscape, scale. Community structure was found to be markedly different between areas, in contrast to community function which showed high variability within areas. We further found that microbial structure appears to be controlled more at a landscape scale by nutrient-related variables, whereas microbial functional capacity is driven locally through plant community feedbacks. Optimal management strategies within such peatlands should therefore consider the scale-dependent action of soil microbial community drivers, for example by first optimizing microbial structure at the landscape scale by targeted areal management, and then optimizing soil microbial function by local vegetation management.

Influence of carbon anode properties on performance and microbiome of Microbial Electrolysis Cells operated on urine
Barbosa, Sónia G. ; Peixoto, Luciana ; Soares, Olívia S.G.P. ; Pereira, Manuel Fernando R. ; Heijne, Annemiek Ter ; Kuntke, Philipp ; Alves, Maria Madalena ; Pereira, Maria Alcina - \ 2018
Electrochimica Acta 267 (2018). - ISSN 0013-4686 - p. 122 - 132.
Cellulose-based carbon - Microbial community - Microbial electrolysis cell - Phenolic-based carbon - Polyacrilonitrile-based carbon
Anode performance of Microbial Electrolysis Cells (MECs) fed with urine using different anodes, Keynol (phenolic-based), C-Tex (cellulose-based) and PAN (polyacrylonitrile-based) was compared under cell potential control (1st assay) and anode potential control (2nd assay). In both assays, C-Tex MEC outperformed MECs using Keynol and PAN. C-Tex MEC under anode potential control (−0.300 V vs. Ag/AgCl) generated the highest current density (904 mA m−2), which was almost 3-fold higher than the Keynol MEC and 8-fold higher than the PAN MEC. Analysis of anodes textural, chemical and electrochemical characteristics suggest that the higher external surface area of C-Tex enabled higher current density generation compared to Keynol and PAN. Anodes properties did not influence significantly the microbial diversity of the developed biofilm. Nonetheless, C-Tex had higher relative abundance of bacteria belonging to Lactobacillales and Enterobacteriales suggesting its correlation with the higher current generation.
Anaerobic treatment of raw domestic wastewater in a UASB-digester at 10 °C and microbial community dynamics
Zhang, Lei ; Vrieze, Jo De; Hendrickx, Tim L.G. ; Wei, Wei ; Temmink, Hardy ; Rijnaarts, Huub ; Zeeman, Grietje - \ 2018
Chemical Engineering Journal 334 (2018). - ISSN 1385-8947 - p. 2088 - 2097.
Domestic wastewater treatment - Low temperature - Microbial community - Specific methanogenic activity - UASB-digester

Direct anaerobic treatment of domestic wastewater is becoming attractive as it can change a wastewater treatment plant from energy consuming to energy producing. A pilot scale UASB-digester was studied to treat domestic wastewater at temperatures of 10–20 °C and an HRT of 6 h. The results show a stable chemical oxygen demand (COD) removal efficiency of 60 ± 4.6% during the operation at 12.5–20 °C. COD removal efficiency decreased to 51.5 ± 5.5% at 10 °C as a result of insufficient methanogenic capacity caused by low temperature and increased influent COD load (from 2.0 g/(L·d) to 3.0 g/(L·d)). Suspended COD removal was 76.0 ± 9.1% at 10–20 °C. Soluble COD removal fluctuated due to variation of the influent COD concentration, but the effluent COD concentration remained 90 ± 23 mg/L at temperatures between 12.5 and 20 °C. The methane production was 39.7 ± 4.4% of the influent COD, which was 80% of influent biological methane potential. The specific methanogenic activity of the UASB sludge and the digester sludge was 0.26 ± 0.03 and 0.29 ± 0.03 g CH4 COD/(g VSS d), respectively. The methanogenic community analysis revealed an overall dominance of the acetoclastic Methanosaetaceae and the hydrogenotrophic Methanomicrobiales during the operation between 10–20 °C. The results of the UASB-digester treating domestic wastewater at 10–20 °C as reported in this paper provide support for application of anaerobic domestic wastewater treatment in moderate climate zones.

Suppression of soil-borne Fusarium pathogens of peanut by intercropping with the medicinal herb Atractylodes lancea
Li, Xiaogang ; Boer, Wietse de; Zhang, Y. ; Ding, Changfeng ; Zhang, Taolin ; Wang, Xingxiang - \ 2018
Soil Biology and Biochemistry 116 (2018). - ISSN 0038-0717 - p. 120 - 130.
Intercropping - Microbial community - Root exudates - Soil-borne diseases - Volatiles

Intercropping has historically been employed as an efficient management strategy to prevent disease outbreaks. Our previous studies indicated that intercropping of peanut with the Chinese medicinal herb, Atractylodes lancea effectively suppressed soil-borne peanut diseases, resulting in increased peanut yields. However, the underlying mechanism is unknown. In this study, the below ground effects of A. lancea on both fungal and bacterial communities in the peanut rhizosphere were investigated using pyrosequencing of the internal transcribed spacer (ITS1) and16S rRNA gene amplicons, respectively. Closed cultivation systems were constructed to investigate the role of volatiles and exudates originating from rhizomes and roots of A. lancea on fungal and bacterial communities. Intercropping with A. lancea significantly altered fungal community composition in the peanut rhizosphere, coinciding with decline of Fusarium root rot and improvement of peanut growth. Volatiles originating from A. lancea rhizome material had more effects on fungal communities than on bacterial communities, and significantly suppressed F. oxysporum growth. Root exudates of A. lancea had no apparent inhibitory effect on F. oxysporum. Gas chromatography–mass spectrometry (GC-MS) analysis revealed 21 volatiles originating from A. lancea rhizome material and terpenes and aromatic hydrocarbons were the most common types. Our results suggest that A. lancea suppressed pathogenic Fusarium populations by means of volatiles from the rhizome. Our results support the idea that intercropping with A. lancea or use of its effective components has a strong potential for managing soil-borne fungal diseases.

Monitoring soil bacteria with community-level physiological profiles using Biolog™ ECO-plates in the Netherlands and Europe
Rutgers, Michiel ; Wouterse, Marja ; Drost, Sytske M. ; Breure, Anton M. ; Mulder, Christian ; Stone, Dorothy ; Creamer, Rachel E. ; Winding, Anne ; Bloem, Jaap - \ 2016
Applied Soil Ecology 97 (2016). - ISSN 0929-1393 - p. 23 - 35.
Biolog - Indicator - Method - Microbial community - MicroResp - Soil

Soil samples were analyzed with community-level physiological profiles (CLPP) using Biolog™ ECO-plates in the Netherlands Soil Monitoring Network (NSMN; 704 samples) and in a European-wide transect (73 samples). The selection of sites was based on a representative sample of major soil texture types, land uses and climate zones. This method for determination of CLPP was specifically designed to be applied in large and long-term monitoring activities. It encompassed a solution for the inoculum-density dependence of colour formation patterns in ECO-plates, through stepwise dilution to extinction of the bacterial inoculum. The CLPP in Dutch and European soil samples appeared to be reproducible and sensitive to land use and/or soil texture. Although the method is selective, CLPP based parameters correlated well with other microbial parameters and soil characteristics. Consistent patterns in CLPP and soil habitat characteristics are emerging, as brought about by environmental disturbances, land management and soil texture. The applicability of CLPP analysis in monitoring systems is discussed.

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