scholarly journals Fecal Microbiota, Lactic Acid and Short Chain Fatty Levels of Infants Following Rotavirus Infection Revealed by Illumina Miseq High-Throughput Sequencing and HPLC Method

2019 ◽  
Vol 12 (6) ◽  
Author(s):  
Lin Li ◽  
Dongxu Huang ◽  
Austin Nevin ◽  
Peng Fei ◽  
Ling Guo
2018 ◽  
Author(s):  
Bin Chen ◽  
Deliang Wang ◽  
Yinzhuo Yan

AbstractPit mud play a key role in the brewing process of Chinese Strong-flavour liquor. In this study, the organic acids and metal ions was determinated by Ion Chromatograph and Inductively Coupled Plasma Mass Spectrometry, respectively. The diversities and structures in pit mud were analyzed by using high-throughput sequencing based on Illumina Miseq platform. The results showed that the lactic acid in calcified pit mud was about 10 times higher than quality pit mud, and the calcium ions was about 20 times higher than quality pit mud. It could found a strange phenomenon, the calcified pit mud had more pyruvic acid and quality pit mud basically does not had this kind of material. The data analysis shown that the pit mud were detected prokaryotes 908 strains and the eukaryotes 226 strains. It was found that the Lactobacillus and Prevotella in calcified pit mud (the total of both increase 11 times) had a higher percentage. It can be guess that the lactic acid and metal ions would form lactic acid salt compounds and those compounds could affect the growth and reproduction of microbes in pit mud. This study provided a good comparison of physical and chemical properties between the calcified pit mud and the quality pit mud, which was significant for the maintenance of pit mud and the quality of liquor. Because of the first study for pit mud by using high-throughput sequencing, it could provide theoretical basis for improving microbes in pit mud.


PLoS ONE ◽  
2012 ◽  
Vol 7 (10) ◽  
pp. e46953 ◽  
Author(s):  
Ian M. Carroll ◽  
Tamar Ringel-Kulka ◽  
Jennica P. Siddle ◽  
Todd R. Klaenhammer ◽  
Yehuda Ringel

2021 ◽  
pp. 1-10
Author(s):  
Lufen Feng ◽  
Chongmiao Zhu ◽  
Pengke Xia ◽  
Hongyu Wang ◽  
Yong Su ◽  
...  

2019 ◽  
Vol 110 (3) ◽  
pp. 309-320
Author(s):  
Chen Lin ◽  
Zhou Wei ◽  
Zhou Yi ◽  
Tan Tingting ◽  
Du Huamao ◽  
...  

AbstractNanosilver is an environment-friendly, harmless alternative of traditional disinfectants which can be potentially applied in the sericulture industry. However, the effects of nanosilver on the intestinal bacterial community of the silkworms (Bombyx mori L.) are unclear. In this study, Illumina MiSeq high-throughput sequencing technology was used to assess the intestinal bacterial community in both male and female silkworms while treated with different concentrations of nanosilver. We found that nanosilver significantly influenced the composition of silkworm intestinal bacterial community on the different taxonomic levels. Most conspicuously, the abundance of Firmicutes was increased by the treatment of 20 mg L−1 nanosilver but decreased by that of 100 mg L−1 nanosilver at the phylum level. The same trend was observed in Bacilli at the class level and in Enterococcus at the genus level. In some extreme cases, application of nanosilver eliminated the bacterium, e.g., Brevibacillus, but increased the population of several other bacteria in the host intestine, such as Blautia, Terrisporobacter, Faecalibacterium, and some bacteria could only be found in nanosilver treatment groups, e.g., Dialister. In addition, although nanosilver generally showed negative effects on the cocooning rate in a dose-dependent manner, we found that 20 mg L−1 nanosilver treatment significantly increased the body weight of silkworms and did not show negative effects on the survival rate. These results indicated that the intestinal bacteria community of silkworm larvae was significantly changed after nanosilver treatment which might consequently influence host growth and development.


2015 ◽  
Vol 105 (6) ◽  
pp. 717-727 ◽  
Author(s):  
G.-J. Brandon-Mong ◽  
H.-M. Gan ◽  
K.-W. Sing ◽  
P.-S. Lee ◽  
P.-E. Lim ◽  
...  

AbstractMetabarcoding, the coupling of DNA-based species identification and high-throughput sequencing, offers enormous promise for arthropod biodiversity studies but factors such as cost, speed and ease-of-use of bioinformatic pipelines, crucial for making the leapt from demonstration studies to a real-world application, have not yet been adequately addressed. Here, four published and one newly designed primer sets were tested across a diverse set of 80 arthropod species, representing 11 orders, to establish optimal protocols for Illumina-based metabarcoding of tropical Malaise trap samples. Two primer sets which showed the highest amplification success with individual specimen polymerase chain reaction (PCR, 98%) were used for bulk PCR and Illumina MiSeq sequencing. The sequencing outputs were subjected to both manual and simple metagenomics quality control and filtering pipelines. We obtained acceptable detection rates after bulk PCR and high-throughput sequencing (80–90% of input species) but analyses were complicated by putative heteroplasmic sequences and contamination. The manual pipeline produced similar or better outputs to the simple metagenomics pipeline (1.4 compared with 0.5 expected:unexpected Operational Taxonomic Units). Our study suggests that metabarcoding is slowly becoming as cheap, fast and easy as conventional DNA barcoding, and that Malaise trap metabarcoding may soon fulfill its potential, providing a thermometer for biodiversity.


2020 ◽  
Author(s):  
Zongfu Hu ◽  
Deying Ma ◽  
huaxin Niu ◽  
Jie Chang ◽  
Jianhua Yu ◽  
...  

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).


2018 ◽  
Vol 48 (7) ◽  
pp. 519-530 ◽  
Author(s):  
Klára Vlčková ◽  
Jakub Kreisinger ◽  
Barbora Pafčo ◽  
Dagmar Čížková ◽  
Nikki Tagg ◽  
...  

PLoS ONE ◽  
2012 ◽  
Vol 7 (7) ◽  
pp. e41484 ◽  
Author(s):  
Marcio C. Costa ◽  
Luis G. Arroyo ◽  
Emma Allen-Vercoe ◽  
Henry R. Stämpfli ◽  
Peter T. Kim ◽  
...  

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