scholarly journals House fly larval grazing alters dairy cattle manure microbial communities

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Saraswoti Neupane ◽  
Christopher Saski ◽  
Dana Nayduch
Keyword(s):  
Dairy Cattle ◽  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Management Strategies ◽  
House Fly ◽  
Cattle Manure ◽  
Total Carbon ◽  
Food Sources ◽  
Rrna Genes ◽  
Fly Larvae

Abstract Background House fly larvae (Musca domestica L.) require a live microbial community to successfully develop. Cattle manure is rich in organic matter and microorganisms, comprising a suitable substrate for larvae who feed on both the decomposing manure and the prokaryotic and eukaryotic microbes therein. Microbial communities change as manure ages, and when fly larvae are present changes attributable to larval grazing also occur. Here, we used high throughput sequencing of 16S and 18S rRNA genes to characterize microbial communities in dairy cattle manure and evaluated the changes in those communities over time by comparing the communities in fresh manure to aged manure with or without house fly larvae. Results Bacteria, archaea and protist community compositions significantly differed across manure types (e.g. fresh, aged, larval-grazed). Irrespective of manure type, microbial communities were dominated by the following phyla: Euryarchaeota (Archaea); Proteobacteria, Firmicutes and Bacteroidetes (Bacteria); Ciliophora, Metamonanda, Ochrophyta, Apicomplexa, Discoba, Lobosa and Cercozoa (Protists). Larval grazing significantly reduced the abundances of Bacteroidetes, Ciliophora, Cercozoa and increased the abundances of Apicomplexa and Discoba. Manure aging alone significantly altered the abundance bacteria (Acinetobacter, Clostridium, Petrimonas, Succinovibro), protists (Buxtonella, Enteromonas) and archaea (Methanosphaera and Methanomassiliicoccus). Larval grazing also altered the abundance of several bacterial genera (Pseudomonas, Bacteroides, Flavobacterium, Taibaiella, Sphingopyxis, Sphingobacterium), protists (Oxytricha, Cercomonas, Colpodella, Parabodo) and archaea (Methanobrevibacter and Methanocorpusculum). Overall, larval grazing significantly reduced bacterial and archaeal diversities but increased protist diversity. Moreover, total carbon (TC) and nitrogen (TN) decreased in larval grazed manure, and both TC and TN were highly correlated with several of bacterial, archaeal and protist communities. Conclusions House fly larval grazing altered the abundance and diversity of bacterial, archaeal and protist communities differently than manure aging alone. Fly larvae likely alter community composition by directly feeding on and eliminating microbes and by competing with predatory microbes for available nutrients and microbial prey. Our results lend insight into the role house fly larvae play in shaping manure microbial communities and help identify microbes that house fly larvae utilize as food sources in manure. Information extrapolated from this study can be used to develop manure management strategies to interfere with house fly development and reduce house fly populations.

scholarly journals Biofuel Produced from Solid-State Anaerobic Digestion of Dairy Cattle Manure in Coordination with Black Soldier Fly Larvae Decomposition

Energies ◽  
2019 ◽  
Vol 12 (5) ◽  
pp. 911 ◽  
Author(s):  
Choon Wee ◽  
Jung-Jeng Su
Keyword(s):  
Anaerobic Digestion ◽  
Solid State ◽  
Dairy Cattle ◽  
Cattle Manure ◽  
Methane Yield ◽  
Black Soldier Fly ◽  
Combination Process ◽  
Black Soldier Fly Larvae ◽  
Fly Larvae ◽  
Biological Treatment Process

This study was conducted to evaluate the feasibility of applying a two-step biological treatment process, solid-state anaerobic digestion (SSAD) and black soldier fly larvae (BSFL) composting, for the treatment of dairy cattle manure. Biogas from the SSAD of dairy cattle manure, and the digestate of SSAD was fed to BSFL. In turn, BSFL can be fed to animals as a protein supplement. Adjustment of the pH and 30% inoculation ratio (IR30) during SSAD produced the highest theoretical methane yield, 626.1 ± 28.7 L CH4/kg VSdes, with an ultimate methane yield of 96.81 ± 2.0 L CH4/kg VSload. For BSFL composting, the groups with a feeding rate of 75 and 100 mg/day/larvae had the highest body weight change, which was 969.6 ± 28.4% and 984.1 ± 177.6%, respectively. The combination process of SSAD and BSFL composting increases the incentive for dairy cattle manure treatment instead of conventional composting and produced more valuable products.

scholarly journals Microbiota variations in Culex nigripalpus disease vector mosquito of West Nile virus and Saint Louis Encephalitis from different geographic origins

PeerJ ◽  
2019 ◽  
Vol 6 ◽  
pp. e6168 ◽  
Author(s):  
Dagne Duguma ◽  
Michael W. Hall ◽  
Chelsea T. Smartt ◽  
Mustapha Debboun ◽  
Josh D. Neufeld
Keyword(s):  
Microbial Communities ◽  
Disease Transmission ◽  
High Throughput Sequencing ◽  
Microbial Community Composition ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
West Nile ◽  
Saint Louis ◽  
Culex Nigripalpus ◽  
Saint Louis Encephalitis

Although mosquito microbiota are known to influence reproduction, nutrition, disease transmission, and pesticide resistance, the relationship between host-associated microbial community composition and geographical location is poorly understood. To begin addressing this knowledge gap, we characterized microbiota associated with adult females of Culex nigripalpus mosquito vectors of Saint Louis Encephalitis and West Nile viruses sampled from three locations in Florida (Vero Beach, Palmetto Inland, and Palmetto Coast). High-throughput sequencing of PCR-amplified 16S rRNA genes demonstrated significant differences among microbial communities of mosquitoes sampled from the three locations. Mosquitoes from Vero Beach (east coast Florida) were dominated by uncultivated Asaia sp. (Alphaproteobacteria), whereas microbiota associated with mosquitoes collected from two mosquito populations at Palmetto (west coast Florida) sites were dominated by uncultured Spironema culicis (Spirochaetes), Salinisphaera hydrothermalis (Gammaproteobacteria), Spiroplasma (Mollicutes), uncultured Enterobacteriaceae, Candidatus Megaira (Alphaproteobacteria; Rickettsiae), and Zymobacter (Gammaproteobacteria). The variation in taxonomic profiles of Cx. nigripalpus gut microbial communities, especially with respect to dominating taxa, is a potentially critical factor in understanding disease transmission and mosquito susceptibility to insecticides among different mosquito populations.

scholarly journals The Composition and Primary Metabolic Potential of Microbial Communities Inhabiting the Surface Water in the Equatorial Eastern Indian Ocean

Biology ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 248
Author(s):  
Changling Ding ◽  
Chao Wu ◽  
Congcong Guo ◽  
Jiang Gui ◽  
Yuqiu Wei ◽  
...  
Keyword(s):  
Indian Ocean ◽  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Carbon Fixation ◽  
Calvin Cycle ◽  
Nitrite Reduction ◽  
16S Rrna Genes ◽  
Eastern Indian Ocean ◽  
Rrna Genes ◽  
Metabolic Potential

Currently, there is scant information about the biodiversity and functional diversity of microbes in the eastern Indian Ocean (EIO). Here, we used a combination of high-throughput sequencing of 16S rRNA genes and a metagenomic approach to investigate the microbial population structure and its metabolic function in the equatorial EIO. Our results show that Cyanobacterial Prochlorococcus made up the majority of the population. Interestingly, there were fewer contributions from clades SAR11 (Alphaproteobacteria) and SAR86 (Gammaproteobacteria) to microbial communities than contributions from Prochlorococcus. Based on functional gene analysis, functional genes rbcL, narB, and nasA were relatively abundant among the relevant genes. The abundance of Prochlorococcus implies its typically ecological adaptation in the local ecosystem. The microbial metabolic potential shows that in addition to the main carbon fixation pathway Calvin cycle, the rTCA cycle and the 3-HP/4-HB cycle have potential alternative carbon fixation contributions to local ecosystems. For the nitrogen cycle, the assimilatory nitrate and nitrite reduction pathway is potentially the crucial form of nitrogen utilization; unexpectedly, nitrogen fixation activity was relatively weak. This study extends our knowledge of the roles of microbes in energy and resource cycling in the EIO and provides a foundation for revealing profound biogeochemical processes driven by the microbial community in the ocean.

scholarly journals Microbiome succession during ammonification in eelgrass bed sediments

2017 ◽  
Author(s):  
Cassandra L Ettinger ◽  
Susan L Williams ◽  
Jessica M Abbott ◽  
John J Stachowicz ◽  
Jonathan A Eisen
Keyword(s):  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Sulfur Metabolism ◽  
Microbial Community Composition ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Ecosystem Functions ◽  
Sediment Samples ◽  
Functional Studies ◽  
Elemental Cycling

Background. Eelgrass (Zostera marina) is a marine angiosperm and foundation species that plays an important ecological role in primary production, food web support, and elemental cycling in coastal ecosystems. As with other plants, the microbial communities living in, on, and near eelgrass are thought to be intimately connected to the ecology and biology of eelgrass. Here we characterized the microbial communities in eelgrass sediments throughout an experiment to quantify the rate of ammonification, the first step in early remineralization of organic matter, or diagenesis, from plots at a field site in Bodega Bay, CA. Methods. Sediment was collected from 72 plots from a 15 month long field experiment in which eelgrass genotypic richness and relatedness were manipulated. In the laboratory, we placed sediment samples (n= 4 per plot) under a N2 atmosphere, incubated them at in situ temperatures (15 oC) and sampled them initially and after 4, 7, 13, and 19 days to determine the ammonification rate. Comparative microbiome analysis using high throughput sequencing of 16S rRNA genes was performed on sediment samples taken initially and at 7, 13 and 19 days to characterize the relative abundances of microbial taxa and how they changed throughout early diagenesis. Results. Within-sample diversity of the sediment microbial communities across all plots decreased after the initial timepoint using both richness based (observed number of OTUs, Chao1) and richness and evenness based diversity metrics (Shannon, Inverse Simpson). Additionally, microbial community composition changed across the different timepoints. Many of the observed changes in relative abundance of taxonomic groups between timepoints appeared driven by sulfur cycling with observed decreases in sulfur reducers (Desulfobacterales) and corresponding increases in sulfide oxidizers (Alteromonadales and Thiotrichales). None of these changes in composition or richness were associated with ammonification rates. Discussion. Overall, our results showed that the microbiome of sediment from different plots followed similar successional patterns, which we surmise to be due to changes related to sulfur metabolism. These large changes likely overwhelmed any potential changes in sediment microbiome related to ammonification rate. We found no relationship between eelgrass presence or genetic composition and the microbiome. This was likely due to our sampling of bulk sediments to measure ammonification rates rather than sampling microbes in sediment directly in contact with the plants and suggests that eelgrass influence on the sediment microbiome may be limited in spatial extent. More in-depth functional studies associated with eelgrass microbiome will be required in order to fully understand the implications of these microbial communities in broader host-plant and ecosystem functions (e.g. elemental cycling and eelgrass-microbe interactions).

Seasonal variation of epiphytic bacteria in the phyllosphere of Gingko biloba, Pinus bungeana and Sabina chinensis

2020 ◽  
Vol 96 (3) ◽  
Author(s):  
Lijun Bao ◽  
Likun Gu ◽  
Bo Sun ◽  
Wenyang Cai ◽  
Shiwei Zhang ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Tree Species ◽  
High Throughput Sequencing ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Pcr Analysis ◽  
Forest Park ◽  
Growing Seasons ◽  
Different Seasons ◽  
Pinus Bungeana

ABSTRACT Phyllosphere harbors diverse microorganisms, which influence plant growth and health. In order to understand the extent to which environmental factors affect epiphytic microbial communities, we characterized microbial communities on leaves of three separate tree species present on the college campus, and also present within a forest park over two seasons. Quantitative PCR analysis showed the quantity of 16S rRNA genes was lower in May compared with October, while the abundances of functional genes (nifH and bacterial amoA genes) were extremely high in May. High-throughput sequencing revealed a large variation in the diversity and composition of bacterial and diazotrophic communities over the two seasons, and showed the abundance of functional genera, such as Nocardioides, Bacillus and Zoogloea were significantly elevated in May. In addition, xenobiotic biodegradation pathways of bacterial communities were clearly elevated in May. Network analysis showed the correlations between phyllospheric bacteria in May were more complex than that in October and showed greater negative correlations. These results were consistent in all tree species in this study. This study showed that phyllospheric bacteria varied greatly in different seasons, which implies that different growing seasons should be considered in the exploitation of the interactions between phyllospheric microorganisms and host plants.

scholarly journals Biofuel Produced from Solid-State Anaerobic Digestion of Dairy Cattle Manure in Coordination with Black Soldier Fly Larvae Decomposition

2018 ◽  
Author(s):  
Choon Yong Wee ◽  
Jung-Jeng Su
Keyword(s):  
Anaerobic Digestion ◽  
Solid State ◽  
Dairy Cattle ◽  
Cattle Manure ◽  
Methane Yield ◽  
Black Soldier Fly ◽  
Combination Process ◽  
Black Soldier Fly Larvae ◽  
Fly Larvae ◽  
Biological Treatment Process

This study was conducted to evaluate the feasibility of applying a two-step biological treatment process, solid-state anaerobic digestion (SSAD) and black soldier fly larvae (BSFL) composting, for treating dairy cattle manure. Biogas from SSAD of dairy cattle manure, and the digestate of SSAD was fed to BSFL. In turn, BSFL can be fed to animals as a protein supplement. Adjustment of pH and 30% inoculation ratio (IR30) during SSAD produced the highest theoretical methane yield, 626.1±28.7 L CH4/kg VSdes, with an ultimate methane yield of 96.81±2.0 L CH4/kg VSload. For BSFL composting, the groups with a feeding rate of 75 and 100 mg/day/larvae had the highest body weight change, which was 969.6±28.4 and 984.1±177.6%, respectively. The combination process of SSAD and BSFL composting increases the incentive for dairy cattle manure treatment enabled higher waste removal efficiency, and produced more valuable products.

scholarly journals Microbiome succession during ammonification in eelgrass bed sediments

2017 ◽  
Author(s):  
Cassandra L Ettinger ◽  
Susan L Williams ◽  
Jessica M Abbott ◽  
John J Stachowicz ◽  
Jonathan A Eisen
Keyword(s):  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Sulfur Metabolism ◽  
Microbial Community Composition ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Ecosystem Functions ◽  
Sediment Samples ◽  
Functional Studies ◽  
Elemental Cycling

Background. Eelgrass (Zostera marina) is a marine angiosperm and foundation species that plays an important ecological role in primary production, food web support, and elemental cycling in coastal ecosystems. As with other plants, the microbial communities living in, on, and near eelgrass are thought to be intimately connected to the ecology and biology of eelgrass. Here we characterized the microbial communities in eelgrass sediments throughout an experiment to quantify the rate of ammonification, the first step in early remineralization of organic matter, or diagenesis, from plots at a field site in Bodega Bay, CA. Methods. Sediment was collected from 72 plots from a 15 month long field experiment in which eelgrass genotypic richness and relatedness were manipulated. In the laboratory, we placed sediment samples (n= 4 per plot) under a N2 atmosphere, incubated them at in situ temperatures (15 oC) and sampled them initially and after 4, 7, 13, and 19 days to determine the ammonification rate. Comparative microbiome analysis using high throughput sequencing of 16S rRNA genes was performed on sediment samples taken initially and at 7, 13 and 19 days to characterize the relative abundances of microbial taxa and how they changed throughout early diagenesis. Results. Within-sample diversity of the sediment microbial communities across all plots decreased after the initial timepoint using both richness based (observed number of OTUs, Chao1) and richness and evenness based diversity metrics (Shannon, Inverse Simpson). Additionally, microbial community composition changed across the different timepoints. Many of the observed changes in relative abundance of taxonomic groups between timepoints appeared driven by sulfur cycling with observed decreases in sulfur reducers (Desulfobacterales) and corresponding increases in sulfide oxidizers (Alteromonadales and Thiotrichales). None of these changes in composition or richness were associated with ammonification rates. Discussion. Overall, our results showed that the microbiome of sediment from different plots followed similar successional patterns, which we surmise to be due to changes related to sulfur metabolism. These large changes likely overwhelmed any potential changes in sediment microbiome related to ammonification rate. We found no relationship between eelgrass presence or genetic composition and the microbiome. This was likely due to our sampling of bulk sediments to measure ammonification rates rather than sampling microbes in sediment directly in contact with the plants and suggests that eelgrass influence on the sediment microbiome may be limited in spatial extent. More in-depth functional studies associated with eelgrass microbiome will be required in order to fully understand the implications of these microbial communities in broader host-plant and ecosystem functions (e.g. elemental cycling and eelgrass-microbe interactions).

Bioinformatics Analysis of The Rhizosphere Microbiota of Dangshan Su Pear in Different Soil Types

2020 ◽  
Vol 15 (5) ◽  
pp. 503-514
Author(s):  
Xiaojing Ma ◽  
Sambhaji Balaso Thakar ◽  
Huimin Zhang ◽  
Zequan Yu ◽  
Li Meng ◽  
...  
Keyword(s):  
Microbial Communities ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Terrestrial Ecosystems ◽  
Amplicon Sequencing ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Soil Types ◽  
Plant Materials ◽  
Microbial Structures

Background: The rhizosphere microbiota are of vital importance for plant growth and health in terrestrial ecosystems. There have been extensive studies aiming to identify the microbial communities as well as their relationship with host plants in different soil types. Objective: In the present study, we have employed the high-throughput sequencing technology to investigate the composition and structure of rhizosphere microbiota prosperous at the root of Dangshan Su pear growing in sandy soil and clay soil. Methods: A high-throughput amplicon sequencing survey of the bacterial 16S rRNA genes and fungal ITS regions from rhizosphere microbiota was firstly performed. Subsequently, several common bacterial and fungal communities were found to be essential to Dangshan Su pear by using a series of bioinformatics and statistics tools. Finally, the soil-preferred microbiota were identified through variance analysis and further characterized in the genus level. Result: Dangshan Su pears host rich and diverse microbial communities in thin layer of soil adhering to their roots. The composition of dominant microbial phyla is similar across different soil types, but the quantity of each microbial community varies significantly. Specially, the relative abundance of Firmicutes increases from 9.69% to 61.66% as the soil ecosystem changes from clay to sandy, which can be not only conducive to the degradation of complex plant materials, but also responsible for the disinfestation of pathogens. Conclusion: Our results have a symbolic significance for the potential efforts of rhizosphere microbiota on the soil bioavailability and plant health. Through selecting soil types and altering microbial structures, the improvement of fruit quality of Dangshan Su pear is expected to be achieved.

scholarly journals Gut Structure and Microbial Communities in Sirex noctilio (Hymenoptera: Siricidae) and Their Predicted Contribution to Larval Nutrition

2021 ◽  
Vol 12 ◽  
Author(s):  
Jiale Li ◽  
Chengcheng Li ◽  
Ming Wang ◽  
Lixiang Wang ◽  
Xiaobo Liu ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Developmental Stages ◽  
Larval Survival ◽  
Extensive Study ◽  
Fungal Communities ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Sirex Noctilio

The European woodwasp, Sirex noctilio Fabricius, is a major invasive quarantine pest that attacks and kills pine trees outside of its native range. Insect gut structure and gut microbiota play crucial roles in various life activities. Despite a few reports in nutrition and survival, an extensive study on the S. noctilio larval gut microbiome is lacking. We studied the gut structure using a stereo microscope and used high throughput sequencing of the bacterial 16S rRNA genes and fungal internal transcribed spacer 2 (ITS2) regions to investigate gut microbiota in different developmental stages of S. noctilio, including larvae, adults, and larval frass. We used PICRUSt2 to predict the functional profiles. The larval gut was thin and thread-like from the oral cavity to the anus, carrying few xylem particles in the crop. Pseudomonas, Ralstonia, and Burkholderia s.l were the dominant bacteria in the guts of larvae, adults, and frass, respectively. Even though Pseudomonas was the most abundant among all bacteria, Zoogloea, Ruminobacter, and Nitrosospira, which might be involved in degrading organic matter and fixing nitrogen occurred exclusively in the larval gut indicating their possible role in the growth and development of larvae in pine tree xylem. Fungal communities did not change significantly across different developmental stages or the frass. Amylostereum was dominant in the woodwasp’s larval gut. Functional prediction of bacterial and fungal communities revealed that they may encod enzymes involved in degrading lignocellulose and fixing nitrogen. Ours is the first study that compares gut microbial communities present in S. noctilio larvae, adults, and frass. This study could provide an understanding of larval nutrient acquisition in nutrient-deficient host xylem to some extent. Our study may unlock novel strategies for the development of pest management approaches based on interfering with the gut microbiota and restricting their role in larval survival and development.

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