Identifying Heat-Resilient Corals Using Machine Learning and Microbiome

Hyerim Yong; Mai Oudah

doi:10.1007/978-3-031-38079-2_6

Identifying Heat-Resilient Corals Using Machine Learning and Microbiome

Hyerim Yong, Mai Oudah

Computer Science

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

Due to global warming, coral reefs have been directly impacted with heat stress, resulting in mass coral bleaching. Within the coral species, some are more heat resistant, which calls for an investigation towards interventions that can enhance coral resilience for other heat-susceptible species. Studying heat-resistant corals’ microbial communities can provide a potential insight to the composition of heat-susceptible corals and how their resilience is achieved. So far, techniques to efficiently classify such vast microbiome data are not sufficient. In this paper, we present an optimal machine learning based pipeline for identifying the biomarker bacterial composition of heat-tolerant coral species versus heat-susceptible ones. Through steps of feature extraction, feature selection/engineering, and machine leaning training, we apply this pipeline on publicly available 16S rRNA sequences of corals. As a result, we have identified the correlation based feature selection filter and the Random Forest classifier to be the optimal pipeline, and determined biomarkers that are indicators of thermally sensitive corals.

Original language	English (US)
Title of host publication	Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023)
Editors	Miguel Rocha, Florentino Fdez-Riverola, Mohd Saberi Mohamad, Ana Belén Gil-González
Publisher	Springer Science and Business Media Deutschland GmbH
Pages	53-61
Number of pages	9
ISBN (Print)	9783031380785
DOIs	https://doi.org/10.1007/978-3-031-38079-2_6
State	Published - 2023
Event	17th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2023 - Guimaraes, Portugal Duration: Jul 12 2023 → Jul 14 2023

Publication series

Name	Lecture Notes in Networks and Systems
Volume	743 LNNS
ISSN (Print)	2367-3370
ISSN (Electronic)	2367-3389

Conference

Conference	17th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2023
Country/Territory	Portugal
City	Guimaraes
Period	7/12/23 → 7/14/23

Keywords

Bioinformatics
Coral-reefs
Feature Selection and Engineering
Heat Resilience
Machine Learning
Microbiome

ASJC Scopus subject areas

Control and Systems Engineering
Signal Processing
Computer Networks and Communications

Access to Document

10.1007/978-3-031-38079-2_6

Cite this

Yong, H., & Oudah, M. (2023). Identifying Heat-Resilient Corals Using Machine Learning and Microbiome. In M. Rocha, F. Fdez-Riverola, M. S. Mohamad, & A. B. Gil-González (Eds.), Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023) (pp. 53-61). (Lecture Notes in Networks and Systems; Vol. 743 LNNS). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/978-3-031-38079-2_6

Identifying Heat-Resilient Corals Using Machine Learning and Microbiome. / Yong, Hyerim; Oudah, Mai.
Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023). ed. / Miguel Rocha; Florentino Fdez-Riverola; Mohd Saberi Mohamad; Ana Belén Gil-González. Springer Science and Business Media Deutschland GmbH, 2023. p. 53-61 (Lecture Notes in Networks and Systems; Vol. 743 LNNS).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Yong, H & Oudah, M 2023, Identifying Heat-Resilient Corals Using Machine Learning and Microbiome. in M Rocha, F Fdez-Riverola, MS Mohamad & AB Gil-González (eds), Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023). Lecture Notes in Networks and Systems, vol. 743 LNNS, Springer Science and Business Media Deutschland GmbH, pp. 53-61, 17th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2023, Guimaraes, Portugal, 7/12/23. https://doi.org/10.1007/978-3-031-38079-2_6

Yong H, Oudah M. Identifying Heat-Resilient Corals Using Machine Learning and Microbiome. In Rocha M, Fdez-Riverola F, Mohamad MS, Gil-González AB, editors, Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023). Springer Science and Business Media Deutschland GmbH. 2023. p. 53-61. (Lecture Notes in Networks and Systems). doi: 10.1007/978-3-031-38079-2_6

Yong, Hyerim ; Oudah, Mai. / Identifying Heat-Resilient Corals Using Machine Learning and Microbiome. Practical Applications of Computational Biology and Bioinformatics, 17th International Conference (PACBB 2023). editor / Miguel Rocha ; Florentino Fdez-Riverola ; Mohd Saberi Mohamad ; Ana Belén Gil-González. Springer Science and Business Media Deutschland GmbH, 2023. pp. 53-61 (Lecture Notes in Networks and Systems).

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