Metatranscriptomics: an approach for retrieving novel eukaryotic genes from polluted and related environments.
Eukaryotic genes
Functional diversity
Metagenomes
Metatranscriptomics
Microbiomes
Toxic metal tolerance
Journal
3 Biotech
ISSN: 2190-572X
Titre abrégé: 3 Biotech
Pays: Germany
ID NLM: 101565857
Informations de publication
Date de publication:
Feb 2020
Feb 2020
Historique:
received:
29
03
2019
accepted:
06
01
2020
entrez:
8
2
2020
pubmed:
8
2
2020
medline:
8
2
2020
Statut:
ppublish
Résumé
Metatranscriptomics, a subset of metagenomics, provides valuable information about the whole gene expression profiling of complex microbial communities of an ecosystem. Metagenomic studies mainly focus on the genomic content and identification of microbes present within a community, while metatranscriptomics provides the diversity of the active genes within such community, their expression profile and how these levels change due to change in environmental conditions. Metatranscriptomics has been applied to different types of environments, from the study of human microbiomes, to those found in plants, animals, within soils and in aquatic systems. Metatranscriptomics, based on the utilization of mRNA isolated from environmental samples, is a suitable approach to mine the eukaryotic gene pool for genes of biotechnological relevance. Also, it is imperative to develop different bioinformatic pipelines to analyse the data obtained from metatranscriptomic analysis. In the present review, we summarise the metatranscriptomics applied to soil environments to study the functional diversity, and discuss approaches for isolating the genes involved in organic matter degradation and providing tolerance to toxic metals, role of metatranscriptomics in microbiome research, various bioinformatics pipelines used in data analysis and technical challenges for gaining biologically meaningful insight of this approach.
Identifiants
pubmed: 32030340
doi: 10.1007/s13205-020-2057-1
pii: 2057
pmc: PMC6985312
doi:
Types de publication
Journal Article
Review
Langues
eng
Pagination
71Informations de copyright
© King Abdulaziz City for Science and Technology 2020.
Déclaration de conflit d'intérêts
Conflict of interestThe authors declare that they have no conflict of interest.
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