scholarly journals Mangrove Facies Drives Resistance and Resilience of Sediment Microbes Exposed to Anthropic Disturbance

2019 ◽  
Vol 9 ◽  
Author(s):  
Cécile Capdeville ◽  
Thomas Pommier ◽  
Jonathan Gervaix ◽  
François Fromard ◽  
Jean-Luc Rols ◽  
...  
Keyword(s):  
Sediment Microbes

Sediment microbes mediate the impact of nutrient loading on blue carbon sequestration by mixed seagrass meadows

2017 ◽  
Vol 599-600 ◽  
pp. 1479-1484 ◽  
Author(s):  
Songlin Liu ◽  
Zhijian Jiang ◽  
Jingping Zhang ◽  
Yunchao Wu ◽  
Xiaoping Huang ◽  
...  
Keyword(s):  
Carbon Sequestration ◽  
Nutrient Loading ◽  
Blue Carbon ◽  
Seagrass Meadows ◽  
The Impact ◽  
Sediment Microbes

scholarly journals Climate change negatively impacts dominant microbes in the sediments of a High Arctic lake

2019 ◽  
Author(s):  
Graham A. Colby ◽  
Matti O. Ruuskanen ◽  
Kyra A. St. Pierre ◽  
Vincent L. St. Louis ◽  
Alexandre J. Poulain ◽  
...  
Keyword(s):  
Climate Change ◽  
Community Structure ◽  
Environmental Changes ◽  
High Arctic ◽  
The Arctic ◽  
Large Lake ◽  
Spatial Gradients ◽  
Functional Potential ◽  
High Runoff ◽  
Sediment Microbes

AbstractTemperatures in the Arctic are expected to increase dramatically over the next century, yet little is known about how microbial communities and their underlying metabolic processes will be affected by these environmental changes in freshwater sedimentary systems. To address this knowledge gap, we analyzed sediments from Lake Hazen, NU Canada. Here, we exploit the spatial heterogeneity created by varying runoff regimes across the watershed of this uniquely large lake at these latitudes to test how a transition from low to high runoff, used as one proxy for climate change, affects the community structure and functional potential of dominant microbes. Based on metagenomic analyses of lake sediments along these spatial gradients, we show that increasing runoff leads to a decrease in taxonomic and functional diversity of sediment microbes. Our findings are likely to apply to other, smaller, glacierized watersheds typical of polar or high latitude / high altitudes ecosystems; we can predict that such changes will have far reaching consequences on these ecosystems by affecting nutrient biogeochemical cycling, the direction and magnitude of which are yet to be determined.

scholarly journals 309 metagenome assembled microbial genomes from deep sediment samples in the Gulfs of Kathiawar Peninsula

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Neelam M. Nathani ◽  
Kaushambee J. Dave ◽  
Priyanka P. Vatsa ◽  
Mayur S. Mahajan ◽  
Parth Sharma ◽  
...  
Keyword(s):  
Arabian Sea ◽  
Anthropogenic Activities ◽  
Ecological Niches ◽  
Microbial Genomes ◽  
Deep Sediment ◽  
Bacterial Phyla ◽  
Metagenomics Data ◽  
Deep Sediments ◽  
Sediment Microbes

AbstractProkaryoplankton genomes from the deep marine sediments are less explored compared to shallow shore sediments. The Gulfs of Kathiawar peninsula experience varied currents and inputs from different on-shore activities. Any perturbations would directly influence the microbiome and their normal homeostasis. Advancements in reconstructing genomes from metagenomes allows us to understand the role of individual unculturable microbes in ecological niches like the Gulf sediments. Here, we report 309 bacterial and archaeal genomes assembled from metagenomics data of deep sediments from sites in the Gulf of Khambhat and Gulf of Kutch as well as a sample from the Arabian Sea. Phylogenomics classified them into 5 archaeal and 18 bacterial phyla. The genomes will facilitate understanding of the physiology, adaptation and impact of on-shore anthropogenic activities on the deep sediment microbes.

scholarly journals New Method for Isolation of DNA from River Sediment Microbes of Sungai Kelantan, Malaysia

2017 ◽  
Vol 5 (2) ◽  
pp. 109-112
Author(s):  
Noratikah Kamal Baharin ◽  
Noorkhalilie Che Abd Aziz ◽  
Faisal Mohamad ◽  
Suganthi Appalasamy
Keyword(s):  
Genomic Dna ◽  
River Sediment ◽  
River Sediments ◽  
High Yield ◽  
Laboratory Equipment ◽  
Yield And Quality ◽  
Dna Extraction Method ◽  
Microbial Dna ◽  
Sediment Microbes

Extraction of pure genomic DNA from microbes isolated from river sediments often hindered byco-isolated carryovers from the reagents used which reduces the yield and quality of DNA.Existing methods were lengthy, expensive and does not result in high yield of genomic DNA inshort time. This study describes a rapid and inexpensive DNA extraction method that involvedminimal purification step without phenol or other carcinogenic reagents. The microbial DNAextraction steps also does not require the use of special laboratory equipment. This method usesCetyltrimethylammonium bromide (CTAB) followed by ethanol based purification steps andwithin one hour the extraction of microbial DNA could be completed. The extracted genomicDNA from microbes isolated from river sediment of Sungai Kelantan, Malaysia using the methoddescribed in this study is of quality suitable for other downstream researches such asmetagenomics sequencing.

scholarly journals The Distribution Pattern of Sediment Archaea Community of the Poyang Lake, the Largest Freshwater Lake in China

Archaea ◽  
2016 ◽  
Vol 2016 ◽  
pp. 1-12 ◽  
Author(s):  
Yantian Ma ◽  
Fangpeng Liu ◽  
Zhaoyu Kong ◽  
Jianhua Yin ◽  
Wenbo Kou ◽  
...  
Keyword(s):  
Poyang Lake ◽  
Freshwater Lake ◽  
Considerable Influence ◽  
Freshwater Lakes ◽  
Community Structures ◽  
Lake Ecosystems ◽  
Main Lake ◽  
Sediment Microbes ◽  
Archaea Community

Archaea plays an important role in the global geobiochemical circulation of various environments. However, much less is known about the ecological role of archaea in freshwater lake sediments. Thus, investigating the structure and diversity of archaea community is vital to understand the metabolic processes in freshwater lake ecosystems. In this study, sediment physicochemical properties were combined with the results from 16S rRNA clone library-sequencing to examine the sediment archaea diversity and the environmental factors driving the sediment archaea community structures. Seven sites were chosen from Poyang Lake, including two sites from the main lake body and five sites from the inflow river estuaries. Our results revealed high diverse archaea community in the sediment of Poyang Lake, including Bathyarchaeota (45.5%), Euryarchaeota (43.1%), Woesearchaeota (3.6%), Pacearchaeota (1.7%), Thaumarchaeota (1.4%), suspended Lokiarchaeota (0.7%), Aigarchaeota (0.2%), and Unclassified Archaea (3.8%). The archaea community compositions differed among sites, and sediment property had considerable influence on archaea community structures and distribution, especially total organic carbon (TOC) and metal lead (Pb) (p<0.05). This study provides primary profile of sediment archaea distribution in freshwater lakes and helps to deepen our understanding of lake sediment microbes.

Sediment Microbes of Deep-Sea Bioherms on the Northwest Shelf of Australia

2003 ◽  
Vol 46 (1) ◽  
pp. 55-61 ◽  
Author(s):  
J. E. Johnson ◽  
R. T. Hill
Keyword(s):  
Deep Sea ◽  
Sediment Microbes

scholarly journals Responses of Bacterial Taxonomical Diversity Indicators to Pollutant Loadings in Experimental Wetland Microcosms

Water ◽  
2022 ◽  
Vol 14 (2) ◽  
pp. 251
Author(s):  
Subhomita Ghosh Ghosh Roy ◽  
Charles F. Wimpee ◽  
S. Andrew McGuire ◽  
Timothy J. Ehlinger
Keyword(s):  
Risk Assessment ◽  
Bacterial Communities ◽  
Assessment Tool ◽  
Diversity Indices ◽  
Nutrient Pollution ◽  
Rrna Gene ◽  
Bacterial Dna ◽  
Wetland Ecosystems ◽  
The Face ◽  
Sediment Microbes

Urbanization results in higher stormwater loadings of pollutants such as metals and nutrients into surface waters. This directly impacts organisms in aquatic ecosystems, including microbes. Sediment microbes are known for pollution reduction in the face of contamination, making bacterial communities an important area for bioindicator research. This study explores the pattern of bacterial responses to metal and nutrient pollution loading and seeks to evaluate whether bacterial indicators can be effective as a biomonitoring risk assessment tool for wetland ecosystems. Microcosms were built containing sediments collected from wetlands in the urbanizing Pike River watershed in southeastern Wisconsin, USA, with metals and nutrients added at 7 day intervals. Bacterial DNA was extracted from the microcosm sediments, and taxonomical profiles of bacterial communities were identified up to the genera level by sequencing 16S bacterial rRNA gene (V3–V4 region). Reduction of metals (example: 90% for Pb) and nutrients (example: 98% for NO3−) added in water were observed. The study found correlations between diversity indices of genera with metal and nutrient pollution as well as identified specific genera (including Fusibacter, Aeromonas, Arthrobacter, Bacillus, Bdellovibrio, and Chlorobium) as predictive bioindicators for ecological risk assessment for metal pollution.

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