Succession Law of Cultivable Desulfuration Microorganism during Domestication

2013 ◽  
Vol 726-731 ◽  
pp. 209-216
Author(s):  
Huai Yuan Zhao ◽  
Bing Huang ◽  
Dong Ggou Sun ◽  
Wen Gang Zuo
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
High Efficiency ◽  
Dynamic Change ◽  
Rhodococcus Erythropolis ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Microbial Resources ◽  
Domestication Process ◽  
Rrna Gene Sequencing

A desulfuration bacterial community with high efficiency of removing SO2were obtained with inductive domestication method. The isolated cultures technique and 16S rRNA gene sequencing technique were used to investigate the bacterial community structure and dynamic change in domestication process. The results showed that 13 species were identified from 45 isolated strains from bacterial community after 7d ,14d and 21d domestication, they were the first find associated with removing SO2.The community structure varied significantly in domestication process during which some species kept stable while others were replaced by new species gradually. The results confirmedRhodococcus erythropolishad good desulfurization ability and stability , might be the key microorganism involved in removing SO2, were preliminarily confirmed dominate species. Other dominant bacteria werePseudomonas putidaandMicrobacterium oxydans.Isolated strains and their gene imformation provided a lot of microbial resources for development microbial desulphurization technology of contained SO2tail gas.

Characterization of bacterial community structure dynamics in a rat burn wound model using 16S rRNA gene sequencing

2022 ◽  
Author(s):  
Chen Zheng-li ◽  
Peng Yu ◽  
Wu Guo-sheng ◽  
Hong Xu-Dong ◽  
Fan Hao ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Bacterial Community Structure ◽  
Bacterial Species ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Sprague Dawley ◽  
Rrna Gene Sequencing

Abstract Burns destroy the skin barrier and alter the resident bacterial community, thereby facilitating bacterial infection. To treat a wound infection, it is necessary to understand the changes in the wound bacterial community structure. However, traditional bacterial cultures allow the identification of only readily growing or purposely cultured bacterial species and lack the capacity to detect changes in the bacterial community. In this study, 16S rRNA gene sequencing was used to detect alterations in the bacterial community structure in deep partial-thickness burn wounds on the back of Sprague-Dawley rats. These results were then compared with those obtained from the bacterial culture. Bacterial samples were collected prior to wounding and 1, 7, 14, and 21 days after wounding. The 16S rRNA gene sequence analysis showed that the number of resident bacterial species decreased after the burn. Both resident bacterial richness and diversity, which were significantly reduced after the burn, recovered following wound healing. The dominant resident strains also changed, but the inhibition of bacterial community structure was in a non-volatile equilibrium state, even in the early stage after healing. Furthermore, the correlation between wound and environmental bacteria increased with the occurrence of burns. Hence, the 16S rRNA gene sequence analysis reflected the bacterial condition of the wounds better than the bacterial culture. 16S rRNA sequencing in the Sprague-Dawley rat burn model can provide more information for the prevention and treatment of burn infections in clinical settings and promote further development in this field.

scholarly journals Comparative analysis of bacterial community diversity between soil and water of Dongzhai Harbor Mangrove reserve using 16S rRNA gene sequencing and shotgun metagenomic sequencing

2020 ◽  
Author(s):  
Xianzi Rong ◽  
Wenfei Zhang ◽  
Bo Xu ◽  
Peng Li ◽  
Hongping Wu ◽  
...  
Keyword(s):  
Bacterial Community ◽  
16S Rrna Gene Sequencing ◽  
Abundant Species ◽  
Community Diversity ◽  
Rrna Gene ◽  
Metagenomic Sequencing ◽  
Shotgun Metagenomic Sequencing ◽  
Microbial Resources ◽  
Rrna Gene Sequencing ◽  
Soil And Water

Abstract The mangrove ecosystem has rich biological resources and is the fourth highest service value ecosystem in the world. The Dongzhai Harbor Mangroves (DHM) reserve is located in the intertidal zone where the freshwater and seawater are dynamically interlaced, and its unique habitat may hide special microbial resources. In this study, we analyzed and compared bacterial community composition and diversity between the DHM soil and water by 16S rRNA gene sequencing and shotgun metagenomic sequencing. We found that the dominant species in both soil and water of DHM were Proteobacteria and Actinobacteria, while the most differentially abundant species were Chloroflexi and Bacteroidetes. However, shotgun metagenomic sequencing analysis identified more highly abundant species in the water than in the soil, and identified more species with significant differences between the soil and the water (P ≤ 0.0001). Network analysis identified more co-occurring species in the soil and water. Kyoto Encyclopedia of Genes and Genomes (KEGG) functional analysis identified three relatively abundant pathways: metabolism (accounting for more than 50%), genetic information processing, and environment information processing. Our results increase our understanding of bacterial community diversity in the water and soil of the DHM. Additional information that is hidden in the environment may be obtained by shotgun metagenomic sequencing; this technique can be used to mine more microbial resources from various environments.

Community structure of microbes in natural environments

2018 ◽  
Author(s):  
David L. Kirchman
Keyword(s):  
Community Structure ◽  
16S Rrna ◽  
Deep Ocean ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Natural Environments ◽  
Viral Lysis ◽  
Structure Information ◽  
Rrna Gene Sequencing ◽  
Biochemical Testing

Community structure refers to the taxonomic types of microbes and their relative abundance in an environment. This chapter focuses on bacteria with a few words about fungi; protists and viruses are discussed in Chapters 9 and 10. Traditional methods for identifying microbes rely on biochemical testing of phenotype observable in the laboratory. Even for cultivated microbes and larger organisms, the traditional, phenotype approach has been replaced by comparing sequences of specific genes, those for 16S rRNA (archaea and bacteria) or 18S rRNA (microbial eukaryotes). Cultivation-independent approaches based on 16S rRNA gene sequencing have revealed that natural microbial communities have a few abundant types and many rare ones. These organisms differ substantially from those that can be grown in the laboratory using cultivation-dependent approaches. The abundant types of microbes found in soils, freshwater lakes, and oceans all differ. Once thought to be confined to extreme habitats, Archaea are now known to occur everywhere, but are particularly abundant in the deep ocean, where they make up as much as 50% of the total microbial abundance. Dispersal of bacteria and other small microbes is thought to be easy, leading to the Bass Becking hypothesis that “everything is everywhere, but the environment selects.” Among several factors known to affect community structure, salinity and temperature are very important, as is pH especially in soils. In addition to bottom-up factors, both top-down factors, grazing and viral lysis, also shape community structure. According to the Kill the Winner hypothesis, viruses select for fast-growing types, allowing slower growing defensive specialists to survive. Cultivation-independent approaches indicate that fungi are more diverse than previously appreciated, but they are less diverse than bacteria, especially in aquatic habitats. The community structure of fungi is affected by many of the same factors shaping bacterial community structure, but the dispersal of fungi is more limited than that of bacteria. The chapter ends with a discussion about the relationship between community structure and biogeochemical processes. The value of community structure information varies with the process and the degree of metabolic redundancy among the community members for the process.

scholarly journals Rhodococcus erythropolis septicaemia in a patient with acute lymphocytic leukaemia

2011 ◽  
Vol 60 (2) ◽  
pp. 252-255 ◽  
Author(s):  
Soon Deok Park ◽  
Young Uh ◽  
In Ho Jang ◽  
Kap Jun Yoon ◽  
Hwang Min Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
Lymphocytic Leukaemia ◽  
Rhodococcus Erythropolis ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Acute Lymphocytic Leukaemia ◽  
First Case ◽  
Rrna Gene Sequencing ◽  
Human Infections

Rhodococcus erythropolis rarely causes infection in humans. We report the second case of R. erythropolis septicaemia in a 7-year-old child. However, to our knowledge it is the first case in a patient with acute lymphocytic leukaemia who had been undergoing chemotherapy. The identification was performed using 16S rRNA gene sequencing. Even though R. erythropolis is rarely associated with human infections, it should be considered as a potential causative agent of bacteraemia, rather than overlooked as a contaminant.

scholarly journals Distinctly different bacterial communities in surface and oxygen minimum layers in the Arabian Sea

2016 ◽  
Author(s):  
Mandar Bandekar ◽  
Nagappa Ramaiah ◽  
Anand Jain ◽  
Ram Murti Meena
Keyword(s):  
Bacterial Community ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Arabian Sea ◽  
16S Rrna Gene Sequencing ◽  
Molecular Techniques ◽  
Rrna Gene ◽  
Northeast Monsoon ◽  
Rrna Gene Sequencing ◽  
Oxygen Minimum

Abstract. Contributions of microbial communities to biogeochemical processes in oxygen minimum oceanic zones are being realized through the applications of molecular techniques. To understand seasonal and depth-wise variations in bacterial community structure (BCS) in the Arabian Sea oxygen minimum region, extensive sampling and molecular analyses were carried out. 16S rRNA gene sequencing was done to profile the BCS from five depths, surface (5 m), deep chorophyll maximum (43–50 m, DCM), 250 m, 500 m and 1000 m during Spring intermonsoon (SIM), Fall intermonsoon (FIM), and Northeast monsoon (NEM) seasons. Sequencing of 743 chimera-free clones revealed a clear vertical partitioning of BCS between the surface (surface + DCM) and OMZ (250 + 500 + 1000 m) layers. There was no distinct seasonal difference in the BCS. Most 16S rRNA gene sequences were affiliated to Gammaproteobacteria (39.31 %), Alphaproteobacteria (23.56 %) and Cyanobacteria (20.2 %). Higher diversity and OTUs in OMZ predominantly consisting of Alteromonodales, Sphinogomonadales, Rhodobacterales, Burkholderales, and Acidimicrobiales we observed might be due to their microaerophilic metabolism, ability to degrade recalcitrant substrates and assimilate sinking particulate matter. Further hitherto undescribed diversity both in surface and OMZ layers was evidenced. Implicit role of extant bacterial community in denitrification and anammox and in sulphur oxidation is highlighted.

scholarly journals Sex Results in Divergence in Gut Bacterial Community between Female and Male Pardosa astrigera (Araneae: Lycosidae)

2021 ◽  
Author(s):  
Ying Gao ◽  
Pengfeng Wu ◽  
Shuyan Cui ◽  
Abid Ali ◽  
Guo Zheng
Keyword(s):  
Bacterial Community ◽  
Gut Microbiota ◽  
Relative Abundance ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Factors Affecting ◽  
Β Diversity ◽  
Pardosa Astrigera ◽  
Rrna Gene Sequencing ◽  
Agro Forestry

Sex is one of the important factors affecting gut microbiota. As key predators in agro-forestry ecosystem, many spider species show dramatically different activity habits and nutritional requirements between female and male. However, how sex affects gut microbiota of spiders is still unclear. Therefore, in this study, the compositions and diversities of gut bacteria, based on bacterial 16S rRNA gene sequencing, were compared between female and male Pardosa astrigera. We found that bacterial richness indices (P < 0.05) in female were significantly lower than male, meanwhile, β-diversity showed significantly different between female and male (P < 0.05). The relative abundance of Actinobacteriota and Rhodococcus (belongs to Actinobacteria) were significantly higher in female than male (P < 0.05). Whereas, the relative abundance of Firmicutes and Acinetobacter (belongs to Proteobacteria), Ruminococcus and Fusicatenibacter (all belong to Firmicutes), were significantly higher in male than female (P < 0.05). The results of PICRUSt2 showed that amino acid and lipid metabolisms were significantly higher in female than male (P < 0.05), whereas glycan biosynthesis and metabolism was significantly higher in male than female (P < 0.05). Our results imply that sexual variation is a crucial factor in shaping gut bacterial community in P. astrigera. Male P. astrigera dispersed more widely than the female hence the male had a higher bacterial diversity. While the distinct differences of bacterial composition mainly due to their different nutritional and energy requirements.

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