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Protocols

HGT specifications

Information


Unique identifier OMICS_33050
Name HGT
Alternative name Horizontal Gene Transfer
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, C++, Perl
Computer skills Advanced
Stability Beta
Maintained Yes

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Maintainers


  • person_outline Arndt von Haeseler
  • person_outline Simone Linz

Publication for Horizontal Gene Transfer

HGT citations

 (5)
library_books

Conserved features in TamA enable interaction with TamB to drive the activity of the translocation and assembly module

2015
Sci Rep
PMCID: 4525385
PMID: 26243377
DOI: 10.1038/srep12905

[…] ins (; ). We conclude that while the barrel domains of BamA and TamA proteins are homologous; the POTRA domains are homologues which have undergone very strong sequence divergence, or were derived by horizontal gene transfer from unknown donors. […]

library_books

Progenitor “Mycobacterium canettii” Clone Responsible for Lymph Node Tuberculosis Epidemic, Djibouti

2014
PMCID: 3884719
PMID: 24520560
DOI: 10.3201/eid2001.130652

[…] successful thus far, efforts in this direction should clearly be reinforced.Fifty-five SNPs were identified by comparison among the sequenced clone A strains, 18 of which could be linked to a single horizontal gene transfer event with an unknown closely related mycobacterium. It was recently shown in M. smegmatis that distributive conjugal transfer could induce multiple genetic transfer events in […]

library_books

Influence of Humans on Evolution and Mobilization of Environmental Antibiotic Resistome

2013
PMCID: 3713965
PMID: 23764294
DOI: 10.3201/eid1907.120871

[…] nt of genes vertically through populations by cell division, and horizontally across species and genera. This movement is enabled by the “mobilome,” the genetic elements that enable and contribute to horizontal gene transfer (HGT) (). Furthermore, antimicrobial drugs—themselves, toxins—and other compounds can favor genetic exchange and increase genetic diversity, thus offering grist for the natura […]

call_split

Towards an accurate identification of mosaic genes and partial horizontal gene transfers

2011
Nucleic Acids Res
PMCID: 3241670
PMID: 21917854
DOI: 10.1093/nar/gkr735
call_split See protocol

[…] ize w (w = j − i + 1) and the progress step size s. Infer the species phylogenetic tree, denoted T. Usually a morphology-based tree or a molecular tree based on a molecule assumed to be refractory to horizontal gene transfer plays the role of the species tree. For instance, 16S rRNA or 23S rRNA genes may also undergo HGT, but they seem to do it at a relatively low rate (). The tree T must be roote […]

library_books

The evolution of domain content in bacterial genomes

2008
Biol Direct
PMCID: 2615428
PMID: 19077245
DOI: 10.1186/1745-6150-3-51

[…] families are build and tree topologies are inferred) which may affect the results quantitatively if not qualitatively.To the present authors the evidence currently in the literature does suggest that horizontal gene transfer accounts for a non-negligible and maybe even a large fraction of changes in gene content, at least among closely-related genomes. For example, it was found in [] that up to 20 […]

Citations

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HGT institution(s)
Department of Bioinformatics, Heinrich-Heine-University, Dusseldorf, Germany; Center for Integrative Bioinformatics Vienna, Max F. Preutz Laboratories, Vienna, Austria; University of Vienna, Vienna, Austria; Medical University of Vienna, Vienna, Austria; University of Veterinary Medicine Vienna, Vienna, Austria
HGT funding source(s)
Supported by Deutsche Forschungsgemeinschaft grant SFB-TR1. We also thank the Vienna Science and Technology Fund.

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