scholarly journals Effects of different hydrogen concentrations on rhizosphere bacteria of soybean (Glycine max L.)

2021 ◽  
pp. 775-780
Author(s):  
Lin Wang ◽  
Bei Liu ◽  
Haiyan Li ◽  
Xiaoping Liang ◽  
Lulu Li ◽  
...  
Keyword(s):  
High Throughput Sequencing ◽  
Shannon Index ◽  
Soil Samples ◽  
Series Data ◽  
Hydrogen Treatment ◽  
Sequencing Technology ◽  
Treated Sample ◽  
Bacterial Structure ◽  
Glycine Max L ◽  
And Cluster Analysis

Effects of hydrogen concentrations on the diversity and changes of bacterial community structure, soybean rhizosphere soil samples were investigated. The high-throughput sequencing technology of illumina was adopted to determine the bacterial 16S rRNA V3+V4 region series. Data processing such as splicing, filtering, removing chimeric sequences, and cluster analysis was then performed based on the raw data, and the tax was annotated with OTU. When the air-treated soil samples were compared with the ones treated with hydrogen at a concentration of 1100 ppm and 1300 ppm, the abundance of Proteobacteria increased and Actinobacteria decreased for the later. In addition the Simpson index decreased and the Shannon index increased significantly for both hydrogen-treated samples. However, for the soil sample treated with 1500 ppm of hydrogen, the above-mentioned two indexes didnot vary obviously compared with the air-treated sample. The results demonstrated that the rhizosphere bacterial structure diversity of soybean was significantly increased after hydrogen treatment at the concentration of 1100 and 1300 ppm. Bangladesh J. Bot. 50(3): 775-780, 2021 (September) Special

Analysis of the structure of bacterial and fungal communities in disease suppressive and disease conducive tobacco-planting soils in China

Soil Research ◽  
2020 ◽  
Vol 58 (1) ◽  
pp. 35
Author(s):  
Lin Gao ◽  
Rui Wang ◽  
Jiaming Gao ◽  
Fangming Li ◽  
Guanghua Huang ◽  
...  
Keyword(s):  
Microbial Communities ◽  
High Throughput Sequencing ◽  
Soil Samples ◽  
Fungal Communities ◽  
Sequencing Technology ◽  
Operational Taxonomic Units ◽  
Tobacco Cultivation ◽  
Bacteria And Fungi ◽  
Disease Suppressive Soil ◽  
Conducive Soil

To clarify the differences between microbial communities resident in disease suppressive soil (DSS) and disease conducive soil (DCS) in tobacco cultivation, representative soil samples were collected from tobacco plantations in Shengjiaba, China, and the structure and diversity of the resident bacterial and fungal communities were analysed using high-throughput sequencing technology. Our results showed a greater number of operational taxonomic units associated with bacteria and fungi in DSS than in DCS. At the phylum level, abundances of Chloroflexi, Saccharibacteria, Firmicutes, and Planctomycetes in DSS were lower than in DCS, but abundance of Gemmatimonadetes was significantly higher. Abundances of Zygomycota and Chytridiomycota were higher in DSS than DCS, but abundance of Rozellomycota was significantly lower. At the genus level, abundances of 18 bacterial and nine fungal genera varied significantly between DSS and DCS. Relative abundances of Acidothermus, Microbacterium, Curtobacterium, and Colletotrichum were higher in DCS than DSS. The Shannon and Chao1 indices of DSS microbial communities were higher than those of DCS communities. High microbial diversity reduces the incidence of soil-borne diseases in tobacco plantations and promotes the formation of DSSs.

scholarly journals Identification of sex differentiation-related microRNA and long non-coding RNA in Takifugu rubripes gonads

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Hongwei Yan ◽  
Qi Liu ◽  
Jieming Jiang ◽  
Xufang Shen ◽  
Lei Zhang ◽  
...  
Keyword(s):  
Sex Determination ◽  
High Throughput Sequencing ◽  
Sex Differentiation ◽  
Mature Mirnas ◽  
Takifugu Rubripes ◽  
Sequencing Technology ◽  
Non Coding Rna ◽  
Differentially Expressed Mirnas ◽  
Tiger Pufferfish ◽  
Long Non Coding Rna

AbstractAlthough sex determination and differentiation are key developmental processes in animals, the involvement of non-coding RNA in the regulation of this process is still not clarified. The tiger pufferfish (Takifugu rubripes) is one of the most economically important marine cultured species in Asia, but analyses of miRNA and long non-coding RNA (lncRNA) at early sex differentiation stages have not been conducted yet. In our study, high-throughput sequencing technology was used to sequence transcriptome libraries from undifferentiated gonads of T. rubripes. In total, 231 (107 conserved, and 124 novel) miRNAs were obtained, while 2774 (523 conserved, and 2251 novel) lncRNAs were identified. Of these, several miRNAs and lncRNAs were predicted to be the regulators of the expression of sex-related genes (including fru-miR-15b/foxl2, novel-167, novel-318, and novel-538/dmrt1, novel-548/amh, lnc_000338, lnc_000690, lnc_000370, XLOC_021951, and XR_965485.1/gsdf). Analysis of differentially expressed miRNAs and lncRNAs showed that three mature miRNAs up-regulated and five mature miRNAs were down-regulated in male gonads compared to female gonads, while 79 lncRNAs were up-regulated and 51 were down-regulated. These findings could highlight a group of interesting miRNAs and lncRNAs for future studies and may reveal new insights into the function of miRNAs and lncRNAs in sex determination and differentiation.

scholarly journals Research Progress of Soil Microorganism Application Based on High-Throughput Sequencing Technology

2021 ◽  
Vol 692 (4) ◽  
pp. 042059
Author(s):  
Yujun Zhang ◽  
Puchang Wang ◽  
Zhongfu Long ◽  
Leilei Ding ◽  
Wen Zhang ◽  
...  
Keyword(s):  
High Throughput ◽  
High Throughput Sequencing ◽  
Soil Microorganism ◽  
Research Progress ◽  
Sequencing Technology

Periphyton diversity in two different Antarctic lakes assessed using metabarcoding

2021 ◽  
pp. 1-9
Author(s):  
Paulo E.A.S. Câmara ◽  
Láuren M.D. De Souza ◽  
Otávio Henrique Bezerra Pinto ◽  
Peter Convey ◽  
Eduardo T. Amorim ◽  
...  
Keyword(s):  
Dna Sequences ◽  
High Throughput Sequencing ◽  
Shannon Index ◽  
South Shetland Islands ◽  
King George Island ◽  
Deception Island ◽  
Maritime Antarctic ◽  
Shetland Islands ◽  
Antarctic Lakes ◽  
Significant Difference

Abstract Antarctic lakes have generally simple periphyton communities when compared with those of lower latitudes. To date, assessment of microbial diversity in Antarctica has relied heavily on traditional direct observation and cultivation methods. In this study, sterilized cotton baits were left submerged for two years in two lakes on King George Island and Deception Island, South Shetland Islands (Maritime Antarctic), followed by assessment of diversity by metabarcoding using high-throughput sequencing. DNA sequences of 44 taxa belonging to four kingdoms and seven phyla were found. Thirty-six taxa were detected in Hennequin Lake on King George Island and 20 taxa were detected in Soto Lake on Deception Island. However, no significant difference in species composition was detected between the two assemblages (Shannon index). Our data suggest that metabarcoding provides a suitable method for the assessment of periphyton biodiversity in oligotrophic Antarctic lakes.

scholarly journals Moderate-Intensity Physical Exercise Affects the Exercise Performance and Gut Microbiota of Mice

2021 ◽  
Vol 11 ◽  
Author(s):  
Wenqian Yang ◽  
Yuqian Liu ◽  
Guang Yang ◽  
Binglin Meng ◽  
Zhicheng Yi ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Exercise Performance ◽  
Exercise Intervention ◽  
Time Series Data ◽  
Shannon Index ◽  
Series Data ◽  
Moderate Intensity ◽  
Rrna Gene ◽  
Exercise Tests ◽  
Significant Difference

The gut microbiota is closely associated with the health of the host and is affected by many factors, including exercise. In this study, we compared the gut microbial changes and exercise performance over a 14-week period in mice that performed exercise (NE; n = 15) and mice that did not perform exercise (NC; n = 15). Mice were subjected to stool collection and exercise tests one week prior to adaptive training and after 2, 6, 10, and 14 weeks of exercise. Bacteria associated with the stool samples were assessed via Illumina-based 16S rRNA gene sequencing. While there was no significant difference in body weight between the groups (p > 0.05), the NE group had a significantly higher exercise performance from weeks 2–14 (p < 0.01) and lower fat coefficient (p < 0.01) compared with the NC group. The Shannon index of the gut microbiota in the NC group was higher than that in the NE group at weeks 6 and 10, and the Chao1 index was higher than that in the NE group at week 14. Exercise performance positively correlated with the relative abundance of Phascolarctobacterium. Grouped time series data analysis demonstrated that Bifidobacteria, Coprococcus, and one unnamed genus in the Clostridiales order were significantly increased in the NE group, which correlated with increased glucose, flavonoid, arginine, and proline metabolism. In conclusion, moderate-intensity treadmill exercise significantly increased the exercise performance of mice and changed the core bacteria and bacterial metabolic activity. These results provide a reference for studying the effects of exercise intervention and exercise performance on the gut microbiota of mice.

scholarly journals Microbial Eukaryotes: a Missing Link in Gut Microbiome Studies

mSystems ◽  
2018 ◽  
Vol 3 (2) ◽  
Author(s):  
Isabelle Laforest-Lapointe ◽  
Marie-Claire Arrieta
Keyword(s):  
Microbial Communities ◽  
Microbial Ecology ◽  
High Throughput Sequencing ◽  
Sequencing Technology ◽  
Human Gut ◽  
Microbial Eukaryotes ◽  
Host Health ◽  
High Level ◽  
Eukaryotic Organisms ◽  
New Evidence

ABSTRACTHuman-associated microbial communities include prokaryotic and eukaryotic organisms across high-level clades of the tree of life. While advances in high-throughput sequencing technology allow for the study of diverse lineages, the vast majority of studies are limited to bacteria, and very little is known on how eukaryote microbes fit in the overall microbial ecology of the human gut. As recent studies consider eukaryotes in their surveys, it is becoming increasingly clear that eukaryotes play important ecological roles in the microbiome as well as in host health. In this perspective, we discuss new evidence on eukaryotes as fundamental species of the human gut and emphasize that future microbiome studies should characterize the multitrophic interactions between microeukaryotes, other microorganisms, and the host.

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