Bacterial diversity associated with empty oil palm fruit bunch compost as revealed by cultivation-independent analyses of PCR-amplified 16S rRNA genes

Liew, Pauline Woan Ying; Jong, Bor Chyan; Goh, Chee Meng; Ahmad, Mariam

doi:10.2323/jgam.55.233

Cited by 4 publications

(3 citation statements)

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“…The 16s rRNA clone library analysis was done to clarify specific features of the bacterial community during composting. The microbial community structure shown in this study was consistent with previous reports that used DGGE (Green et al 2004;Baharuddin et al 2009b;Liew et al 2009). The increase in coverage value after the initial stage of the composting process could be the reason that a diverse bacterial community was present in the early stage of composting and decreased toward the end.…”

Section: Efb Compost Clone Library and Bacterial Populationsupporting

confidence: 91%

“…Nevertheless, DGGE still remains a useful method for monitoring shifts in community structure over time. In previous studies on microbial diversity and succession of oil palm EFB compost, DGGE and amplified rDNA restriction analysis (ARDRA) were used to study microbial diversity and succession (Baharuddin et al 2009b;Liew et al 2009). Explanations about the inter-relationship between bacterial community and succession and the change in biochemical properties, especially with respect to the lignocellulosic EFB composting through culture-independent methods, remain less known.…”

Section: Introductionmentioning

confidence: 99%

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Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch

Zainudin¹,

Hassan²,

Shah³

et al. 2013

BioResources

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Bacterial community structure and biochemical changes during the composting of lignocellulosic oil palm empty bunch (EFB) and palm oil mill effluent (POME) anaerobic sludge were studied by examining the succession of the bacterial community and its association with changes in lignocellulosic components by denaturing gradient gel electrophoresis (DGGE) and the 16S rRNA gene clone library. During composting, a major reduction in cellulose after 10 days from 50% to 19% and the carbon content from 44% to 27% towards the end of the 40-day composting period were observed. The C/N ratio also decreased. A drastic change in the bacterial community structure and diversity throughout the composting process was clearly observed using PCR-DGGE banding patterns. The bacterial community drastically shifted between the thermophilic and maturing stages. 16s rRNA clones belonging to the genera Bacillus, Exiguobacterium, Desemzia, and Planococcus were the dominant groups throughout composting. The species closely related to Solibacillus silvestris were found to be major contributors to changes in the lignocellulosic component. Clones identified as Thermobacillus xylanilyticus, Brachybacterium faecium, Cellulosimicrobium cellulans, Cellulomonas sp., and Thermobifida fusca, which are known to be lignocellulosic-degrading bacteria, were also detected and are believed to support the lignocellulose degradation.

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Section: Efb Compost Clone Library and Bacterial Populationsupporting

confidence: 91%

Section: Introductionmentioning

confidence: 99%

Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch

Zainudin¹,

Hassan²,

Shah³

et al. 2013

BioResources

View full text Add to dashboard Cite

show abstract

“…Studies targeting the impact of land use conversion on microbial community composition and diversity in tropical Asia are rare (Tripathi et al, 2012 ; Lee-Cruz et al, 2013 ). The published studies focused on microbial communities associated with deforestation and logging effects, and bacterial diversity in oil palm fruit compost (Liew et al, 2009 ; Tripathi et al, 2012 ; Lee-Cruz et al, 2013 ; McGuire et al, 2015 ). It has been suggested that deforestation for agricultural use alters microbial community composition in tropical regions (Tripathi et al, 2012 , 2013 ; McGuire et al, 2015 ).…”

Section: Introductionmentioning

confidence: 99%

Impact of Lowland Rainforest Transformation on Diversity and Composition of Soil Prokaryotic Communities in Sumatra (Indonesia)

et al. 2015

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Prokaryotes are the most abundant and diverse group of microorganisms in soil and mediate virtually all biogeochemical cycles in terrestrial ecosystems. Thereby, they influence aboveground plant productivity and diversity. In this study, the impact of rainforest transformation to intensively managed cash crop systems on soil prokaryotic communities was investigated. The studied managed land use systems comprised rubber agroforests (jungle rubber), rubber plantations and oil palm plantations within two Indonesian landscapes Bukit Duabelas and Harapan. Soil prokaryotic community composition and diversity were assessed by pyrotag sequencing of bacterial and archaeal 16S rRNA genes. The curated dataset contained 16,413 bacterial and 1679 archaeal operational taxonomic units at species level (97% genetic identity). Analysis revealed changes in indigenous taxon-specific patterns of soil prokaryotic communities accompanying lowland rainforest transformation to jungle rubber, and intensively managed rubber and oil palm plantations. Distinct clustering of the rainforest soil communities indicated that these are different from the communities in the studied managed land use systems. The predominant bacterial taxa in all investigated soils were Acidobacteria, Actinobacteria, Alphaproteobacteria, Betaproteobacteria, and Gammaproteobacteria. Overall, the bacterial community shifted from proteobacterial groups in rainforest soils to Acidobacteria in managed soils. The archaeal soil communities were mainly represented by Thaumarchaeota and Euryarchaeota. Members of the Terrestrial Group and South African Gold Mine Group 1 (Thaumarchaeota) dominated in the rainforest and members of Thermoplasmata in the managed land use systems. The alpha and beta diversity of the soil prokaryotic communities was higher in managed land use systems than in rainforest. In the case of bacteria, this was related to soil characteristics such as pH value, exchangeable Ca and Fe content, C to N ratio, and extractable P content. Archaeal community composition and diversity were correlated to pH value, exchangeable Fe content, water content, and total N. The distribution of bacterial and archaeal taxa involved in biological N cycle indicated functional shifts of the cycle during conversion of rainforest to plantations.

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Identification and cultivation of hydrogenotrophic methanogens from palm oil mill effluent for high methane production

et al. 2020

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By means of biorefinery, biogas production through anaerobic digestion is one of the most common treatments of wastewater in the palm oil industry. After biogas production, the treated palm oil mill effluent (POME) is generally discharged into the environment. However, certain level of hazardous compounds still exists in the treated wastewater, which can lead to the pollution of water bodies. In this study, we have investigated the dynamics of volatile organic acids dwelling in consecutive POME treatment lagoons as well as identified, and categorized, microbial species responsible for the treatment process. Bacteria and methanogens, both hydrogenotrophic and acetoclastic, related to methane production were identified using mcrA and 16S rRNA genes specific primers. Two hydrogenotrophic methanogens, Methanoculleus marisnigri and Methanoculleus chikugoensis, were found abundant in accordance with high formate concentration throughout the process of anaerobic digestion. This study has also isolated eight consortia of microbes that yielded different methane productions by utilizing formate as the substrate in the synthetic medium. The consortia of a group, containing M. marisnigri, M. chikugoensis, uncultured bacteria, Aminobacterium sp., and Ruminobacillus xylanolyticum, produced the highest methane yield of 259 mL/g COD after 25 days of incubation in the laboratory. The findings from this study are contributing to optimize and increase biogas production in POME, which will allow higher efficiency in palm oil mill wastewater treatment.

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Bacterial diversity associated with empty oil palm fruit bunch compost as revealed by cultivation-independent analyses of PCR-amplified 16S rRNA genes

Cited by 4 publications

References 45 publications

Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch

Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch

Impact of Lowland Rainforest Transformation on Diversity and Composition of Soil Prokaryotic Communities in Sumatra (Indonesia)

Identification and cultivation of hydrogenotrophic methanogens from palm oil mill effluent for high methane production

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