scholarly journals Lignocelluloytic activities and composition of bacterial community in the camel rumen

2021 ◽  
Vol 7 (3) ◽  
pp. 354-367
Author(s):  
Alaa Emara Rabee ◽  
◽  
Robert Forster ◽  
Ebrahim A Sabra ◽  
◽  
...  
Keyword(s):  
Bacterial Community ◽  
Wheat Straw ◽  
Archaeal Community ◽  
Illumina Miseq ◽  
Cellulase Production ◽  
Poor Quality ◽  
Xylanase Production ◽  
Alfalfa Hay ◽  
Bacterial And Archaeal Communities ◽  
Fiber Fermentation

<abstract> <p>The camel is well-adapted to utilize the poor-quality forages in the harsh desert conditions as the camel rumen sustains fibrolytic microorganisms, mainly bacteria that are capable of breaking down the lignocellulosic biomass efficiently. Exploring the composition of the bacterial community in the rumen of the camel and quantifying their cellulolytic and xylanolytic activities could lead to understanding and improving fiber fermentation and discovering novel sources of cellulases and xylanases. In this study, Illumina MiSeq sequencing of the V4 region on 16S rRNA was applied to identify the bacterial and archaeal communities in the rumen of three camels fed wheat straw and broom corn. Furthermore, rumen samples were inoculated into bacterial media enriched with xylan and different cellulose sources, including filter paper (FP), wheat straw (WS), and alfalfa hay (AH) to assess the ability of rumen bacteria to produce endo-cellulase and endo-xylanase at different fermentation intervals. The results revealed that the phylum Bacteroidetes dominated the bacterial community and <italic>Candidatus Methanomethylophilus</italic> dominated the archaeal community. Also, most of the bacterial community has fibrolytic potential and the dominant bacterial genera were <italic>Prevotella</italic>, <italic>RC9_gut_group</italic>, <italic>Butyrivibrio</italic>, <italic>Ruminococcus</italic>, <italic>Fibrobacteres</italic>, and <italic>Treponema</italic>. The highest xylanase production (884.8 mU/mL) was observed at 7 days. The highest cellulase production (1049.5 mU/mL) was observed when rumen samples were incubated with Alfalfa hay for 7 days.</p> </abstract>

scholarly journals Identifying Hidden Viable Bacterial Taxa in Tropical Forest Soils Using Amplicon Sequencing of Enrichment Cultures

Biology ◽  
2021 ◽  
Vol 10 (7) ◽  
pp. 569
Author(s):  
Chakriya Sansupa ◽  
Sara Fareed Mohamed Wahdan ◽  
Terd Disayathanoowat ◽  
Witoon Purahong
Keyword(s):  
Bacterial Community ◽  
Forest Soil ◽  
Culture Media ◽  
Enrichment Culture ◽  
Sequence Similarity ◽  
Illumina Miseq ◽  
Amplicon Sequencing ◽  
Soil Samples ◽  
Enrichment Cultures ◽  
Total Community

This study aims to estimate the proportion and diversity of soil bacteria derived from eDNA-based and culture-based methods. Specifically, we used Illumina Miseq to sequence and characterize the bacterial communities from (i) DNA extracted directly from forest soil and (ii) DNA extracted from a mixture of bacterial colonies obtained by enrichment cultures on agar plates of the same forest soil samples. The amplicon sequencing of enrichment cultures allowed us to rapidly screen a culturable community in an environmental sample. In comparison with an eDNA community (based on a 97% sequence similarity threshold), the fact that enrichment cultures could capture both rare and abundant bacterial taxa in forest soil samples was demonstrated. Enrichment culture and eDNA communities shared 2% of OTUs detected in total community, whereas 88% of enrichment cultures community (15% of total community) could not be detected by eDNA. The enrichment culture-based methods observed 17% of the bacteria in total community. FAPROTAX functional prediction showed that the rare and unique taxa, which were detected with the enrichment cultures, have potential to perform important functions in soil systems. We suggest that enrichment culture-based amplicon sequencing could be a beneficial approach to evaluate a cultured bacterial community. Combining this approach together with the eDNA method could provide more comprehensive information of a bacterial community. We expected that more unique cultured taxa could be detected if further studies used both selective and non-selective culture media to enrich bacteria at the first step.

scholarly journals Variation of Bacterial and Archaeal Community Structures in a Full-Scale Constructed Wetlands for Wastewater Treatment

Archaea ◽  
2018 ◽  
Vol 2018 ◽  
pp. 1-12 ◽  
Author(s):  
Xiu-lu Lang ◽  
Xiang Chen ◽  
Ai-ling Xu ◽  
Zhi-wen Song ◽  
Xin Wang ◽  
...  
Keyword(s):  
Microbial Community ◽  
Constructed Wetlands ◽  
Relative Abundance ◽  
Constructed Wetland ◽  
Free Surface Flow ◽  
Archaeal Community ◽  
Illumina Miseq ◽  
Surface Flow ◽  
Community Structures ◽  
Soil And Water

Microorganisms play important roles in the reduction of organic and inorganic pollutants in constructed wetlands used for the treatment of wastewater. However, the diversity and structure of microbial community in constructed wetland system remain poorly known. In this study, the Illumina MiSeq Sequencing of 16S rDNA was used to analyze the bacterial and archaeal microbial community structures of soil and water in a free surface flow constructed wetland, and the differences of bacterial communities and archaeal compositions between soil and water were compared. The results showed that the Proteobacteria were the dominant bacteria, making up 35.38%~48.66% relative abundance. Euryarchaeotic were the absolute dominant archaea in the influent sample with the relative abundance of 93.29%, while Thaumarchaeota showed dominance in the other three samples, making up 50.58%~75.70%. The relative abundances of different species showed great changes in bacteria and archaea, and the number of dominant species in bacteria was much higher than that in archaea. Compared to archaea, the community compositions of bacteria were more abundant and the changes were more significant. Meanwhile, bacteria and archaea had large differences in compositions between water and soil. The microbial richness in water was significantly higher than that in soil. Simultaneously, soil had a significant enrichment effect on some microbial flora.

Analysis of the effects of nanosilver on bacterial community in the intestinal fluid of silkworms using high-throughput sequencing

2019 ◽  
Vol 110 (3) ◽  
pp. 309-320
Author(s):  
Chen Lin ◽  
Zhou Wei ◽  
Zhou Yi ◽  
Tan Tingting ◽  
Du Huamao ◽  
...  
Keyword(s):  
Bacterial Community ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Intestinal Bacteria ◽  
Illumina Miseq ◽  
The Body ◽  
Dependent Manner ◽  
Negative Effects ◽  
Silkworm Larvae ◽  
Intestinal Bacterial Community

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.

scholarly journals Exploring possible associations of the intestine bacterial microbiome with the pre-weaned weight gaining performance of piglets in intensive pig production

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Xinghua Ding ◽  
Wensheng Lan ◽  
Gang Liu ◽  
Hengjia Ni ◽  
Ji-Dong Gu
Keyword(s):  
Weight Gain ◽  
Bacterial Community ◽  
16S Rrna ◽  
Illumina Miseq ◽  
Microbial Interactions ◽  
Intestinal Microbiome ◽  
Weaned Piglets ◽  
Pig Production ◽  
Host Health ◽  
Bacterial Microbiome

Abstract The pre-weaned weight gain is an important performance trait of pigs in intensive pig production. The bacterial microbiome inside the host is vital to host health and growth performance. The purpose of this study was to explore the possible associations of the intestinal microbiome with the pre-weaned weight gain in intensive pig production. In this study, several anatomical sites (jejunum, ileum, cecum, and colon) were examined for bacterial microbiome structure using 16S rRNA V4-V5 region sequencing with Illumina Miseq. The results showed that the microbial richness (estimated by Chao1 index) in jejunum was positively correlated with the pre-weaned weight gain. This study also revealed that the Firmicutes and Bacteroidetes in colon were the weight gaining-related phyla; while the Selenomonas and Moraxella in ileum and the Lactobacillus in both cecum and colon were the weight gaining-related genera for the pre-weaned piglets in intensive pig prodution. Several intra-microbial interactions within commensal microbiome correlated with the pre-weaned weight gain were excavated, as well. Overall, this study provides an expanded view of the commensal bacterial community inside four anatomical intestinal sites of the commercial piglets and the associations of the intestinal microbiome with the pre-weaned weight gaining performance in intensive pig production.

Wheat straw, a potential substrate for cellulase production usingTrichoderma reesei

1993 ◽  
Vol 9 (1) ◽  
pp. 120-121 ◽  
Author(s):  
D. K. Maheswari ◽  
H. Jahan ◽  
J. Paul ◽  
A. Varma
Keyword(s):  
Wheat Straw ◽  
Cellulase Production ◽  
Potential Substrate

Chemical composition of some feedstuffs in East Azerbaijan

2003 ◽  
Vol 2003 ◽  
pp. 174-174
Author(s):  
H. Janmohammady ◽  
P. Yasan ◽  
A. Taghizadeh ◽  
D J. Shoja ◽  
A. Nikkhah
Keyword(s):  
Organic Matter ◽  
Chemical Composition ◽  
Wheat Straw ◽  
Growth Stage ◽  
Barley Grain ◽  
Fertilizer Treatment ◽  
Macro Elements ◽  
Alfalfa Hay ◽  
Production Area ◽  
East Azerbaijan

In Iran, East Azerbaijan province is the most important farm animal production area and alfalfa hay, barley grain, wheat straw are the most common ingredients of animal rations. Organic matter and minerals content of forages and grains can be influenced markedly by climate, soil and fertilizer treatment, growth stage and agronomic factors in a given area. Therefore, it is necessary that the chemical composition of forages and grains, which are produced under climate and agronomic condition of Azerbaijan, for using in formulating balance rations, were determined. The objectives of present study were to determine chemical composition and some macro elements of alfalfa hay, barley grain and wheat straw in Azerbijan.

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