scholarly journals Culture‐independent analysis of hydrocarbonoclastic bacterial communities in environmental samples during oil‐bioremediation

2018 ◽  
Vol 8 (2) ◽  
pp. e00630 ◽  
Author(s):  
Narjes Dashti ◽  
Nedaa Ali ◽  
Samar Salamah ◽  
Majida Khanafer ◽  
Ghada Al‐Shamy ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Environmental Samples ◽  
Independent Analysis ◽  
Culture Independent

scholarly journals Comparison of specific endophytic bacterial communities in different developmental stages of Passiflora incarnata using culture‐dependent and culture‐independent analysis

2019 ◽  
Vol 8 (10) ◽  
Author(s):  
Marcela C. Goulart ◽  
Luis G. Cueva‐Yesquén ◽  
Kelly J. Hidalgo Martinez ◽  
Derlene Attili‐Angelis ◽  
Fabiana Fantinatti‐Garboggini
Keyword(s):  
Bacterial Communities ◽  
Developmental Stages ◽  
Independent Analysis ◽  
Culture Independent ◽  
Passiflora Incarnata ◽  
Culture Dependent

scholarly journals Bias problems in culture-independent analysis of environmental bacterial communities: a representative study on hydrocarbonoclastic bacteria

SpringerPlus ◽  
2013 ◽  
Vol 2 (1) ◽  
pp. 369 ◽  
Author(s):  
Husain Al-Awadhi ◽  
Narjis Dashti ◽  
Majida Khanafer ◽  
Dina Al-Mailem ◽  
Nidaa Ali ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Hydrocarbonoclastic Bacteria ◽  
Representative Study ◽  
Independent Analysis ◽  
Culture Independent

Culture-Independent Analysis of Bacterial Communities in the Gut of Rice Water Weevil (Coleoptera: Curculionidae)

2014 ◽  
Vol 107 (3) ◽  
pp. 592-600 ◽  
Author(s):  
Fang Lu ◽  
Xiaoying Kang ◽  
Gus Lorenz ◽  
Luis Espino ◽  
Mingxing Jiang ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Rice Water Weevil ◽  
Independent Analysis ◽  
Culture Independent ◽  
Rice Water

scholarly journals Culture-independent analysis of endophytic bacterial communities associated with Brazilian sugarcane

2013 ◽  
Vol 12 (4) ◽  
pp. 4549-4558 ◽  
Author(s):  
G.S. Magnani ◽  
L.M. Cruz ◽  
H. Weber ◽  
J.C. Bespalhok ◽  
E. Daros ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Independent Analysis ◽  
Culture Independent

Integration of culture-dependent and independent methods provides a more coherent picture of the pig gut microbiome

2020 ◽  
Vol 96 (3) ◽  
Author(s):  
Gavin J Fenske ◽  
Sudeep Ghimire ◽  
Linto Antony ◽  
Jane Christopher-Hennings ◽  
Joy Scaria
Keyword(s):  
Bacterial Communities ◽  
Bacterial Species ◽  
Shotgun Metagenomics ◽  
Culture Techniques ◽  
Microbiome Composition ◽  
Culture Independent ◽  
Health And Disease ◽  
The Media ◽  
And Function ◽  
Culture Dependent

ABSTRACT Bacterial communities resident in the hindgut of pigs, have profound impacts on health and disease. Investigations into the pig microbiome have utilized either culture-dependent, or far more commonly, culture-independent techniques using next generation sequencing. We contend that a combination of both approaches generates a more coherent view of microbiome composition. In this study, we surveyed the microbiome of Tamworth breed and feral pigs through the integration high throughput culturing and shotgun metagenomics. A single culture medium was used for culturing. Selective screens were added to the media to increase culture diversity. In total, 46 distinct bacterial species were isolated from the Tamworth and feral samples. Selective screens successfully shifted the diversity of bacteria on agar plates. Tamworth pigs are highly dominated by Bacteroidetes primarily composed of the genus Prevotella whereas feral samples were more diverse with almost equal proportions of Firmicutes and Bacteroidetes. The combination of metagenomics and culture techniques facilitated a greater retrieval of annotated genes than either method alone. The single medium based pig microbiota library we report is a resource to better understand pig gut microbial ecology and function. It allows for assemblage of defined bacterial communities for studies in bioreactors or germfree animal models.

scholarly journals Culture-Independent Analysis of Indomethacin-Induced Alterations in the Rat Gastrointestinal Microbiota

2006 ◽  
Vol 72 (10) ◽  
pp. 6707-6715 ◽  
Author(s):  
Andrew B. Dalby ◽  
Daniel N. Frank ◽  
Allison L. St. Amand ◽  
Alison M. Bendele ◽  
Norman R. Pace
Keyword(s):  
Small Intestine ◽  
Lymph Nodes ◽  
Small Subunit ◽  
Rrna Genes ◽  
Small Subunit Rrna ◽  
Mesenteric Lymph Nodes ◽  
Gastrointestinal Microbiota ◽  
Mesenteric Lymph ◽  
Independent Analysis ◽  
Culture Independent

ABSTRACT Nonsteroidal anti-inflammatory drugs (NSAIDs) are commonly prescribed for a variety of inflammatory conditions; however, the benefits of this class of drugs are accompanied by deleterious side effects, most commonly gastric irritation and ulceration. NSAID-induced ulceration is thought to be exacerbated by intestinal microbiota, but previous studies have not identified specific microbes that contribute to these adverse effects. In this study, we conducted a culture-independent analysis of ∼1,400 bacterial small-subunit rRNA genes associated with the small intestines and mesenteric lymph nodes of rats treated with the NSAID indomethacin. This is the first molecular analysis of the microbiota of the rat small intestine. A comparison of clone libraries and species-specific quantitative PCR results from rats treated with indomethacin and untreated rats revealed that organisms closely related to Enterococcus faecalis were heavily enriched in the small intestine and mesenteric lymph nodes of the treated rats. These data suggest that treatment of NSAID-induced ulceration may be facilitated by addressing the microbiological imbalances.

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