Next Generation Sequencing Advances and Applications in the World of Bacterial Diversity

2020 ◽  
pp. 178-209
Author(s):  
T. J. Sushmitha ◽  
Meora Rajeev ◽  
Shunmugiah Karutha Pandian
Keyword(s):  
Next Generation Sequencing ◽  
Bacterial Diversity ◽  
Next Generation ◽  
The World ◽  
Generation Sequencing

scholarly journals Estimating Bacterial Diversity inScirtothrips dorsalis(Thysanoptera: Thripidae) via Next Generation Sequencing

2014 ◽  
Vol 97 (2) ◽  
pp. 362-366 ◽  
Author(s):  
Aaron M. Dickey ◽  
Andrew J. Trease ◽  
Antonella Jara-Cavieres ◽  
Vivek Kumar ◽  
Matthew K. Christenson ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Bacterial Diversity ◽  
Next Generation ◽  
Generation Sequencing

Inferences of gut bacterial diversity from next-generation sequencing of 16S rDNA in deep sea blind ray - Benthobatis moresbyi

2018 ◽  
Vol 9 ◽  
pp. 1-6 ◽  
Author(s):  
Tina Kollannoor Johny ◽  
Bindiya Ellathuparambil Saidumohamed ◽  
Raghul Subin Sasidharan ◽  
Sarita Ganapathy Bhat
Keyword(s):  
Next Generation Sequencing ◽  
Bacterial Diversity ◽  
16S Rdna ◽  
Deep Sea ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals Correction: Next-Generation Sequencing Reveals Significant Bacterial Diversity of Botrytized Wine

PLoS ONE ◽  
2013 ◽  
Vol 8 (10) ◽  
Author(s):  
Nicholas A. Bokulich ◽  
C. M. Lucy Joseph ◽  
Greg Allen ◽  
Andrew K. Benson ◽  
David A. Mills
Keyword(s):  
Next Generation Sequencing ◽  
Bacterial Diversity ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals Unraveling the bacterial diversity of Cangar Hot Spring, Indonesia by Next Generation Sequencing of 16S rRNA gene

2021 ◽  
Vol 22 (9) ◽  
Author(s):  
Almando Geraldi ◽  
Chia Chay Tay ◽  
Ni’matuzahroh Ni’matuzahroh ◽  
Fatimah FATIMAH ◽  
Wan Nurhayati Wan Hanafi
Keyword(s):  
Next Generation Sequencing ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Bacterial Diversity ◽  
Hot Springs ◽  
Hot Spring ◽  
Rrna Gene ◽  
Next Generation ◽  
Acinetobacter Junii ◽  
Generation Sequencing

Abstract. Geraldi A, Tay CC, Ni’matuzahroh, Fatimah, Hanafi WNW. 2021. Unraveling the bacterial diversity of Cangar Hot Spring, Indonesia by Next Generation Sequencing of 16S rRNA gene. Biodiversitas 22: 4060-4066. This study is the first attempt at using the Next Generation Sequencing (NGS) method with 16S rRNA to understand the bacterial community structure in an Indonesian hot spring. This study aims to unravel the bacterial diversity of the Cangar Hot Spring as one of the most explored natural hot springs in East Java, Indonesia. We found Proteobacteria and Bacteroidetes as the two most abundant phyla. We discovered the first occurrence of genera Cloacibacterium and Methylobacillus in the hot spring ecosystem, which was the most dominant genera at Cangar Hot Spring. We also found several potential bacteria for bioindustry and bioremediation, such as Acinetobacter junii and Pseudomonas alcaligenes. Besides that, we also observed opportunistic pathogens from genera Comamonas and Vogesella. This study result will provide valuable information for further bioprospecting of bacteria with commercial potential and the development of health and safety measures in the Cangar Hot Spring, among others. Hopefully, this report would encourage the use of NGS technology for studying other hot springs in Indonesia.

scholarly journals Spatial Modelling of Bacterial Diversity over the Selected Regions in Bangladesh by Next-Generation Sequencing: Role of Water Temperature

2020 ◽  
Vol 10 (7) ◽  
pp. 2537
Author(s):  
Nabila Akter ◽  
Md Wahiduzzaman ◽  
Alea Yeasmin ◽  
Kazi Saiful Islam ◽  
Jing-Jia Luo
Keyword(s):  
Next Generation Sequencing ◽  
Water Temperature ◽  
Bacterial Diversity ◽  
Bay Of Bengal ◽  
Spatial Model ◽  
Spatial Modelling ◽  
Next Generation ◽  
Chain Reactions ◽  
Generation Sequencing

In this study, a spatial model has been developed to investigate the role of water temperature to the distribution of bacteria over the selected regions in the Bay of Bengal, located in the southern region of Bangladesh using next-generation sequencing. Bacterial concentration, quantitative polymerase chain reactions, and sequencing were performed on water samples and identified Acidobacteria, Actinobacteria, Bacteroidetes, Chlorobi, Chloroflexi, Cyanobacteria, Firmicutes, Nitrospirae, Planctomycetes, Proteobacteria, and Verrucomicrobia. The spatial model tessellated the parts of the Bay of Bengal with hexagons and analyzed the relationship between the distribution of bacteria and water temperature. A geographically weighted regression was used to observe whether water temperature contributed strongly or weakly to the distribution of bacteria. The residuals were examined to assess the model’s fitness. The spatial model has the potential to predict the bacterial diversity in the selected regions of Bangladesh.

scholarly journals Chlamydiae – what’s new?

2020 ◽  
Vol 64 (4) ◽  
pp. 461-467
Author(s):  
Kinga Zaręba-Marchewka ◽  
Monika Szymańska-Czerwińska ◽  
Krzysztof Niemczuk
Keyword(s):  
New Species ◽  
Next Generation Sequencing ◽  
New Taxa ◽  
Current Knowledge ◽  
Wild Animals ◽  
Next Generation ◽  
Microbial Genomes ◽  
The World ◽  
Culture Independent ◽  
Generation Sequencing

AbstractThis paper provides an overview of the current knowledge of chlamydiae. These intracellular microorganisms belonging to the Chlamydiaceae family are widely distributed throughout the world. Constant development of culture-independent approaches for characterisation of microbial genomes enables new discoveries in the field of Chlamydia. The number of new taxa is continuously increasing as well as the range of hosts. New species and genotypes are constantly being discovered, particularly new avian and reptilian agents, which are discussed in this article. Interestingly, wild animals are the main hosts for new Chlamydia species including different species of bird, turtle and snake. The availability of next-generation sequencing opens up a new prospect for research and leads to deeper knowledge of these interesting microorganisms about which much is still to discover.

scholarly journals Next-Generation Sequencing for Characterizing Drug Resistance-ConferringMycobacterium tuberculosisGenes from Clinical Isolates in the Ukraine

2018 ◽  
Vol 56 (6) ◽  
Author(s):  
L. T. Daum ◽  
O. S. Konstantynovska ◽  
O. S. Solodiankin ◽  
O. O. Liashenko ◽  
P. I. Poteiko ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Next Generation Sequencing ◽  
Gene Promoter ◽  
Genomic Analysis ◽  
Clinical Isolates ◽  
Next Generation ◽  
Crimean Peninsula ◽  
Content Type ◽  
The World ◽  
Generation Sequencing

ABSTRACTThe Ukraine ranks among the top 20 countries with the highest number of multidrug-resistant (MDR) and extensively drug resistant (XDR)Mycobacterium tuberculosiscases in the world. However, little is known of the genetic diversity, i.e., resistance signatures, in clinical isolates from this region. We analyzed seven of most prevalent MDR/XDR antibiotic resistance-conferring genes from clinical isolates (n= 75) collected from geographically diverse Ukrainian oblasts and the southern Crimean peninsula. Genomic analysis revealed that 6 (8%) were sensitive, 3 (4%) were resistant to at least one antibiotic but were not MDR, 40 (53%) were MDR, and 26 (35%) were XDR. The majority of isolates (81%) were of the Beijing-like lineage. This is the first study to use next-generation sequencing (NGS) of clinical isolates from the Ukraine to characterize mutations in genes conferringM. tuberculosisdrug resistance. Several isolates harbored drug resistance signatures that have not been observed in other countries with high-burden tuberculosis. Most notably, the absence ofinhAgene promoter mutations, a diversity of mutation types in therpoBresistance-determining region, and detection of heteroresistance provide a broader understanding of MDR/XDR from this area of the world.

Sign in / Sign up

Export Citation Format

Share Document