Cited by 15Microbial Community Ecology and PhysiologyGenomics and Phylogenetic StudiesEnvironmental DNA in Biodiversity Studies

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Methods for extracting ’omes from microbialites

Gómez-Acata, Elizabeth Selene, Centeno, Carla M., Falcón, Luisa I.·2019·Journal of Microbiological Methods

DOI 10.1016/j.mimet.2019.02.014

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Abstract

Microbialites are organo-sedimentary structures formed by complex microbial communities that interact with abiotic factors to form carbonate rich fabrics. Extraction of DNA or total RNA from microbialites can be difficult because of the high carbonate mineral concentration and exopolymeric substances. The methods employed until now include substances such as cetyltrimethylammonium bromide, sodium dodecyl sulfate, xanthogenate, lysozyme and proteinase K, as well as mechanical disruption. Additionally, several commercial kits have been used to improve DNA and total RNA extraction. This minireview presents different methods applied for DNA and RNA extraction from microbialites and discusses their advantages and disadvantages. Moreover, extraction of all 'omes (DNA, RNA, Protein, Lipids, polar metabolites) using multiomic extraction methods (MPlex), as well as the state of art for extraction of viruses from microbialites, are also discussed.

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Authors: Gómez-Acata, E. S., Centeno, C. M., & Falcón, L. I.
Affiliations: Instituto de Ecología (MX)
ORCID: Gómez-Acata, Elizabeth Selene
Falcón, Luisa I.
Venue: Journal of Microbiological Methods
Publisher: Elsevier BV
Published: 2019-05
Volume: 160
Pages: 1-10
ISSN: 0167-7012 (ISSN-L)
DOI: 10.1016/j.mimet.2019.02.014
OpenAlex: W2920809351
Cited by: 15
References: 98
Citations by year: 2026: 3 · 2025: 1 · 2023: 1 · 2022: 2 · 2021: 4 · 2020: 3
FWCI: 0.16
Type: journal article
Language: en
Open access: closed
Licence: www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/legal/tdmrep-license (tdm)
Locations: Journal of Microbiological Methods (publishedVersion)
PubMed (publishedVersion)
Funders: Bacterial Ecology Laboratory
UNAM (UCMEXUS CN116, UNAM PAPIIT 202016-3)
Topics: Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Physical Sciences › Environmental Science › Ecology › Environmental DNA in Biodiversity Studies
Keywords: microbialites, DNA extraction, RNA extraction, exopolymers, microbial communities, polar metabolites
MeSH terms: DNA, Bacterial, RNA, Bacterial, Viruses, Geologic Sediments, Metagenome, Microbiota

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