High‐throughput sequencing‐based analysis of bacterial communities associated with Barbour’s seahorses ( Hippocampus barbouri ) from Surigao del Norte, Philippines

2021 ◽  
Author(s):  
Rose Chinly Mae H. Ortega ◽  
Sharon Rose M. Tabugo ◽  
Joey Genevieve T. Martinez ◽  
Chinee S. Padasas ◽  
Marilen P. Balolong ◽  
...  
Keyword(s):  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing

Application of high-throughput sequencing techniques for analyzing bacterial communities in pond-raised mud crab (Scylla paramamosain) intestine and its aquaculture environment

2017 ◽  
Vol 24 (6) ◽  
pp. 1245
Author(s):  
Xianfeng WANG ◽  
Yanfei ZHAO ◽  
Zhifei SONG ◽  
Shengping ZHONG ◽  
Guoqiang HUANG ◽  
...  
Keyword(s):  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Scylla Paramamosain ◽  
Mud Crab

Long-term inorganic fertilizer use influences bacterial communities in Mollisols of Northeast China based on high-throughput sequencing and network analyses

2019 ◽  
Vol 65 (10) ◽  
pp. 1331-1340 ◽  
Author(s):  
Zhenhua Yu ◽  
Xiaojing Hu ◽  
Dan Wei ◽  
Junjie Liu ◽  
Baoku Zhou ◽  
...  
Keyword(s):  
High Throughput ◽  
Bacterial Communities ◽  
Northeast China ◽  
High Throughput Sequencing ◽  
Inorganic Fertilizer ◽  
Fertilizer Use ◽  
Network Analyses

scholarly journals High-throughput sequencing data of soil bacterial communities from Tweefontein indigenous and commercial forests, South Africa

Data in Brief ◽  
2020 ◽  
Vol 28 ◽  
pp. 104916
Author(s):  
Adenike Eunice Amoo ◽  
Ben Jesuorsemwen Enagbonma ◽  
Olubukola Oluranti Babalola
Keyword(s):  
South Africa ◽  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Sequencing Data ◽  
Soil Bacterial Communities ◽  
High Throughput Sequencing Data ◽  
Soil Bacterial

scholarly journals Bacterial Community Shift and Coexisting/Coexcluding Patterns Revealed by Network Analysis in a Uranium-Contaminated Site after Bioreduction Followed by Reoxidation

2018 ◽  
Vol 84 (9) ◽  
Author(s):  
Bing Li ◽  
Wei-Min Wu ◽  
David B. Watson ◽  
Erick Cardenas ◽  
Yuanqing Chao ◽  
...  
Keyword(s):  
Network Analysis ◽  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Ecological Niches ◽  
Content Type ◽  
Oak Ridge ◽  
Α Diversity ◽  
Before And After

ABSTRACTA site in Oak Ridge, TN, USA, has sediments that contain >3% iron oxides and is contaminated with uranium (U). The U(VI) was bioreduced to U(IV) and immobilizedin situthrough intermittent injections of ethanol. It then was allowed to reoxidize via the invasion of low-pH (3.6 to 4.0), high-nitrate (up to 200 mM) groundwater back into the reduced zone for 1,383 days. To examine the biogeochemical response, high-throughput sequencing and network analysis were applied to characterize bacterial population shifts, as well as cooccurrence and coexclusion patterns among microbial communities. A pairedttest indicated no significant changes of α-diversity for the bioactive wells. However, both nonmetric multidimensional scaling and analysis of similarity confirmed a significant distinction in the overall composition of the bacterial communities between the bioreduced and the reoxidized sediments. The top 20 major genera accounted for >70% of the cumulative contribution to the dissimilarity in the bacterial communities before and after the groundwater invasion.Castellaniellahad the largest dissimilarity contribution (17.7%). For the bioactive wells, the abundance of the U(VI)-reducing generaGeothrix,Desulfovibrio,Ferribacterium, andGeobacterdecreased significantly, whereas the denitrifyingAcidovoraxabundance increased significantly after groundwater invasion. Additionally, seven genera, i.e.,Castellaniella,Ignavibacterium,Simplicispira,Rhizomicrobium,AcidobacteriaGp1,AcidobacteriaGp14, andAcidobacteriaGp23, were significant indicators of bioactive wells in the reoxidation stage. Canonical correspondence analysis indicated that nitrate, manganese, and pH affected mostly the U(VI)-reducing genera and indicator genera. Cooccurrence patterns among microbial taxa suggested the presence of taxa sharing similar ecological niches or mutualism/commensalism/synergism interactions.IMPORTANCEHigh-throughput sequencing technology in combination with a network analysis approach were used to investigate the stabilization of uranium and the corresponding dynamics of bacterial communities under field conditions with regard to the heterogeneity and complexity of the subsurface over the long term. The study also examined diversity and microbial community composition shift, the common genera, and indicator genera before and after long-term contaminated-groundwater invasion and the relationship between the target functional community structure and environmental factors. Additionally, deciphering cooccurrence and coexclusion patterns among microbial taxa and environmental parameters could help predict potential biotic interactions (cooperation/competition), shared physiologies, or habitat affinities, thus, improving our understanding of ecological niches occupied by certain specific species. These findings offer new insights into compositions of and associations among bacterial communities and serve as a foundation for future bioreduction implementation and monitoring efforts applied to uranium-contaminated sites.

scholarly journals Enzyme additives influence bacterial communities of Medicago sativa silage as determined by Illumina sequencing

2020 ◽  
Author(s):  
Zongfu Hu ◽  
Deying Ma ◽  
huaxin Niu ◽  
Jie Chang ◽  
Jianhua Yu ◽  
...  
Keyword(s):  
Lactic Acid ◽  
Bacterial Community ◽  
High Throughput ◽  
Bacterial Communities ◽  
Crude Protein ◽  
High Throughput Sequencing ◽  
Ammonium N ◽  
Enzyme Combination ◽  
Fermentation Quality ◽  
Dominant Bacteria

Abstract This study aimed to evaluate the effects of enzymes (cellulase combined with galactosidase),, and the combination of these enzymes with Lactobacillus plantarum (LP) on bacterial diversity using high-throughput sequencing. Alfalfa forages were treated without or with cellulase + ɑ-galactosidase (CEGA), cellulase + LP (CELP), ɑ-galactosidase + LP (GALP). After 56 days of ensiling, All the treated silages exhibited improved fermentation quality as reflecting by decreased pH, ammonium-N and increased lactic acid levels compared to the control silage. Enzymatic treatment improved nutrients value by increased the level of crude protein and decreased the neutral detergent fibre (NDF) level. Treatment of the silage significantly changed the bacterial community, as determined by the PCoA test. LAB dominated the bacterial community of the treated silage after ensiling. The dominant bacteria from Garciella, Enterococcus, Lactobacillus and Pediococcus in control silage changed to Lactobacillus and Pediococcus in CEGA silage, and Lactobacillus in CELP and GALP silages. Collectively, enzymes and enzyme in combination with inoculants both greatly increased the abundance of LAB, with Enterococcus, Lactobacillus and Pediococcus in enzymes only silge (CEGA) and Lactobacillus in enzyme combination with inoculants silage (CELP and GALP).

scholarly journals Potential use of high-throughput sequencing of bacterial communities for postmortem submersion interval estimation

2019 ◽  
Vol 50 (4) ◽  
pp. 999-1010
Author(s):  
Jing He ◽  
Juanjuan Guo ◽  
Xiaoliang Fu ◽  
Jifeng Cai
Keyword(s):  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Interval Estimation ◽  
Potential Use

scholarly journals Dissecting the effect of continuous cropping of potato on soil bacterial communities as revealed by high-throughput sequencing

PLoS ONE ◽  
2020 ◽  
Vol 15 (5) ◽  
pp. e0233356 ◽  
Author(s):  
Jing Zhao ◽  
Dai Zhang ◽  
Yiqing Yang ◽  
Yang Pan ◽  
Dongmei Zhao ◽  
...  
Keyword(s):  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Continuous Cropping ◽  
Soil Bacterial Communities ◽  
Soil Bacterial
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