Impact of microbial genome completeness on metagenomic functional inference

Raphael Eisenhofer; Iñaki Odriozola; Antton Alberdi

doi:10.1038/s43705-023-00221-z

Impact of microbial genome completeness on metagenomic functional inference

Raphael Eisenhofer, Iñaki Odriozola, Antton Alberdi

Section for Hologenomics

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Abstract

Inferring the functional capabilities of bacteria from metagenome-assembled genomes (MAGs) is becoming a central process in microbiology. Here we show that the completeness of genomes has a significant impact on the recovered functional signal, spanning all domains of metabolic functions. We identify factors that affect this relationship between genome completeness and function fullness, and provide baseline knowledge to guide efforts to correct for this overlooked bias in metagenomic functional inference.

Original language	English
Article number	12
Journal	ISME communications
Volume	3
Number of pages	5
ISSN	2730-6151
DOIs	https://doi.org/10.1038/s43705-023-00221-z
Publication status	Published - 2023

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10.1038/s43705-023-00221-zLicence: CC BY

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Cite this

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title = "Impact of microbial genome completeness on metagenomic functional inference",

abstract = "Inferring the functional capabilities of bacteria from metagenome-assembled genomes (MAGs) is becoming a central process in microbiology. Here we show that the completeness of genomes has a significant impact on the recovered functional signal, spanning all domains of metabolic functions. We identify factors that affect this relationship between genome completeness and function fullness, and provide baseline knowledge to guide efforts to correct for this overlooked bias in metagenomic functional inference.",

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AU - Odriozola, Iñaki

AU - Alberdi, Antton

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N2 - Inferring the functional capabilities of bacteria from metagenome-assembled genomes (MAGs) is becoming a central process in microbiology. Here we show that the completeness of genomes has a significant impact on the recovered functional signal, spanning all domains of metabolic functions. We identify factors that affect this relationship between genome completeness and function fullness, and provide baseline knowledge to guide efforts to correct for this overlooked bias in metagenomic functional inference.

AB - Inferring the functional capabilities of bacteria from metagenome-assembled genomes (MAGs) is becoming a central process in microbiology. Here we show that the completeness of genomes has a significant impact on the recovered functional signal, spanning all domains of metabolic functions. We identify factors that affect this relationship between genome completeness and function fullness, and provide baseline knowledge to guide efforts to correct for this overlooked bias in metagenomic functional inference.

U2 - 10.1038/s43705-023-00221-z

DO - 10.1038/s43705-023-00221-z

M3 - Journal article

C2 - 36797336

VL - 3

JO - ISME communications

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