Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes

Julia Warnke-Sommer, Hesham H Ali

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Horizontal gene transfer is a major driver of bacterial evolution and adaptation to niche environments. This holds true for the complex microbiome of the human gut. Crohn’s disease is a debilitating condition characterized by inflammation and gut bacteria dysbiosis. In previous research, we analyzed transposase associated antibiotic resistance genes in Crohn’s disease and healthy gut microbiome metagenomics data sets using a graph mining approach. Results demonstrated that there were significant differences in the type and bacterial distribution of transposase-associated antibiotic resistance genes in the Crohn’s and healthy data sets. In this paper, we extend the previous research by considering all gene features associated with transposase sequences in the Crohn’s disease and healthy data sets. Results demonstrate that some transposase-associated features are more prevalent in Crohn’s disease data sets than healthy data sets. This study may provide insights into the adaptation of bacteria to gut conditions such as Crohn’s disease.

Original languageEnglish (US)
Title of host publicationBIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017
EditorsAna Fred, Hesham Ali, Hugo Gamboa, Mario Vaz
PublisherSciTePress
Pages104-114
Number of pages11
ISBN (Electronic)9789897582141
StatePublished - Jan 1 2017
Event8th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2017 - Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017 - Porto, Portugal
Duration: Feb 21 2017Feb 23 2017

Publication series

NameBIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017
Volume3

Other

Other8th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2017 - Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017
CountryPortugal
CityPorto
Period2/21/172/23/17

Fingerprint

Transposases
Crohn Disease
Genes
Antibiotics
Microbial Drug Resistance
Bacteria
Dysbiosis
Gene transfer
Metagenomics
Horizontal Gene Transfer
Microbiota
Research
Gastrointestinal Microbiome
Datasets
Inflammation

Keywords

  • Crohn’s Disease
  • Graph Theory
  • Metagenomics
  • Mobile Elements
  • Next Generation Sequencing

ASJC Scopus subject areas

  • Biomedical Engineering
  • Electrical and Electronic Engineering
  • Health Informatics

Cite this

Warnke-Sommer, J., & Ali, H. H. (2017). Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes. In A. Fred, H. Ali, H. Gamboa, & M. Vaz (Eds.), BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017 (pp. 104-114). (BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017; Vol. 3). SciTePress.

Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes. / Warnke-Sommer, Julia; Ali, Hesham H.

BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017. ed. / Ana Fred; Hesham Ali; Hugo Gamboa; Mario Vaz. SciTePress, 2017. p. 104-114 (BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017; Vol. 3).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Warnke-Sommer, J & Ali, HH 2017, Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes. in A Fred, H Ali, H Gamboa & M Vaz (eds), BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017. BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017, vol. 3, SciTePress, pp. 104-114, 8th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2017 - Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017, Porto, Portugal, 2/21/17.
Warnke-Sommer J, Ali HH. Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes. In Fred A, Ali H, Gamboa H, Vaz M, editors, BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017. SciTePress. 2017. p. 104-114. (BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017).
Warnke-Sommer, Julia ; Ali, Hesham H. / Graph-based analysis of genetic features associated with mobile elements in Crohn’s disease and healthy gut microbiomes. BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017. editor / Ana Fred ; Hesham Ali ; Hugo Gamboa ; Mario Vaz. SciTePress, 2017. pp. 104-114 (BIOINFORMATICS 2017 - 8th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017).
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