Show simple item record

dc.contributor.authorKayani, M.U.R.
dc.contributor.authorZaidi, S.S.A.
dc.contributor.authorFeng, R.
dc.contributor.authorYu, K.
dc.contributor.authorQiu, Y.
dc.contributor.authorYu, X.
dc.contributor.authorChen, L.
dc.contributor.authorHuang, L.
dc.date.accessioned2022-08-01T20:18:08Z
dc.date.available2022-08-01T20:18:08Z
dc.date.issued2022
dc.identifier.citationKayani, M. U. R., Zaidi, S. S. A., Feng, R., Yu, K., Qiu, Y., Yu, X., Chen, L., & Huang, L. (2022). Genome-Resolved Characterization of Structure and Potential Functions of the Zebrafish Stool Microbiome. Frontiers in Cellular and Infection Microbiology, 12.
dc.identifier.issn2235-2988
dc.identifier.pmid35782152
dc.identifier.doi10.3389/fcimb.2022.910766
dc.identifier.urihttp://hdl.handle.net/10150/665486
dc.description.abstractZebrafish have been used as a model organism for more than 50 years and are considered an excellent model for studying host-microbiome interactions. However, this largely depends on our understanding of the zebrafish gut microbiome itself. Despite advances in sequencing and data analysis methods, the zebrafish gut microbiome remains highly understudied. This study performed the de novo metagenome assembly and recovery of the metagenome-assembled genomes (MAGs) through genome binning (and refinement) of the contigs assembled from the zebrafish stool. The results indicate that majority of the MAGs had excellent quality i.e. high completeness (≥90%) and low contamination levels (≤5%). MAGs mainly belong to the taxa that are known to be members of the core zebrafish stool microbiome, including the phylum Proteobacteria, Fusobacteriota, and Actinobacteriota. However, most of the MAGs remained unclassified at the species level and reflected previously unexplored microbial taxa and their potential novelty. These MAGs also contained genes with predicted functions associated with diverse metabolic pathways that included carbohydrate, amino acid, and lipid metabolism pathways. Lastly, we performed a comparative analysis of Paucibacter MAGs and reference genomes that highlighted the presence of novel Paucibacter species and enriched metabolic potential in the recovered MAGs. Copyright © 2022 Kayani, Zaidi, Feng, Yu, Qiu, Yu, Chen and Huang.
dc.language.isoen
dc.publisherFrontiers Media S.A.
dc.rightsCopyright © 2022 Kayani, Zaidi, Feng, Yu, Qiu, Yu, Chen and Huang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY).
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.subjectcomparative genomics,Paucibacter
dc.subjectgenome-resolved metagenomics
dc.subjectmetabolic potential
dc.subjectmetagenome-assembled genomes
dc.subjectzebrafish stool microbiome
dc.titleGenome-Resolved Characterization of Structure and Potential Functions of the Zebrafish Stool Microbiome
dc.typeArticle
dc.typetext
dc.contributor.departmentDepartment of Immunobiology, University of Arizona
dc.identifier.journalFrontiers in Cellular and Infection Microbiology
dc.description.noteOpen access journal
dc.description.collectioninformationThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at repository@u.library.arizona.edu.
dc.eprint.versionFinal published version
dc.source.journaltitleFrontiers in Cellular and Infection Microbiology
refterms.dateFOA2022-08-01T20:18:08Z


Files in this item

Thumbnail
Name:
fcimb-12-910766.pdf
Size:
4.276Mb
Format:
PDF
Description:
Final Published Version

This item appears in the following Collection(s)

Show simple item record

Copyright © 2022 Kayani, Zaidi, Feng, Yu, Qiu, Yu, Chen and Huang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY).
Except where otherwise noted, this item's license is described as Copyright © 2022 Kayani, Zaidi, Feng, Yu, Qiu, Yu, Chen and Huang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY).