Biodegradation of phenanthrene at high concentrations by Acidovorax sp. JG5 and its functional genomic analysis

2021 ◽  
Author(s):  
Xiaoyong Liao ◽  
Junpeng Luo ◽  
Daniel P. Cassidy ◽  
You Li ◽  
Huan Tao ◽  
...  
Keyword(s):  
Genomic Analysis ◽  
Functional Genomic ◽  
Functional Genomic Analysis ◽  
High Concentrations

BMC322- A RATIONALLY-DESIGNED LIVE BACTERIAL CONSORTIUM BASED ON MICROBIOME FUNCTIONAL GENOMIC ANALYSIS FOR TREATMENT OF IBD

2021 ◽  
Vol 160 (3) ◽  
pp. S51-S52
Author(s):  
Omri Polonsky ◽  
Shiri Meshner ◽  
Shiri Eshar ◽  
Sheerli Kruger Ben-Shabat ◽  
Osnat Tirosh ◽  
...  
Keyword(s):  
Genomic Analysis ◽  
Bacterial Consortium ◽  
Functional Genomic ◽  
Functional Genomic Analysis

scholarly journals Functional genomic analysis of an uncultured δ-proteobacterium in the sponge Cymbastela concentrica

2010 ◽  
Vol 5 (3) ◽  
pp. 427-435 ◽  
Author(s):  
Michael Yizhe Liu ◽  
Staffan Kjelleberg ◽  
Torsten Thomas
Keyword(s):  
Genomic Analysis ◽  
Functional Genomic ◽  
Functional Genomic Analysis

scholarly journals Rationally designed mariner vectors for functional genomic analysis of Actinobacillus pleuropneumoniae and other Pasteurellaceae species by transposon-directed insertion-site sequencing (TraDIS)

2021 ◽  
Vol 1 (1) ◽  
Author(s):  
Janine T. Bossé ◽  
Yanwen Li ◽  
Leon G. Leanse ◽  
Liqing Zhou ◽  
Roy R. Chaudhuri ◽  
...  
Keyword(s):  
High Throughput Screening ◽  
Pasteurella Multocida ◽  
Insertion Site ◽  
Genomic Analysis ◽  
Actinobacillus Pleuropneumoniae ◽  
Functional Genomic ◽  
Transposase Gene ◽  
Functional Genomic Analysis ◽  
Veterinary Importance

AbstractComprehensive identification of conditionally essential genes requires efficient tools for generating high-density transposon libraries that, ideally, can be analysed using next-generation sequencing methods such as Transposon Directed Insertion-site Sequencing (TraDIS). The Himar1 (mariner) transposon is ideal for generating near-saturating mutant libraries, especially in AT-rich chromosomes, as the requirement for integration is a TA dinucleotide, and this transposon has been used for mutagenesis of a wide variety of bacteria. However, plasmids for mariner delivery do not necessarily work well in all bacteria. In particular, there are limited tools for functional genomic analysis of Pasteurellaceae species of major veterinary importance, such as swine and cattle pathogens, Actinobacillus pleuropneumoniae and Pasteurella multocida, respectively. Here, we developed plasmids, pTsodCPC9 and pTlacPC9 (differing only in the promoter driving expression of the transposase gene), that allow delivery of mariner into both these pathogens, but which should also be applicable to a wider range of bacteria. Using the pTlacPC9 vector, we have generated, for the first time, saturating mariner mutant libraries in both A. pleuropneumoniae and P. multocida that showed a near random distribution of insertions around the respective chromosomes as detected by TraDIS. A preliminary screen of 5000 mutants each identified 8 and 14 genes, respectively, that are required for growth under anaerobic conditions. Future high-throughput screening of the generated libraries will facilitate identification of mutants required for growth under different conditions, including in vivo, highlighting key virulence factors and pathways that can be exploited for development of novel therapeutics and vaccines.

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