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Correction: Microbiome-driven breeding strategy potentially improves beef fatty acid profile benefiting human health and reduces methane emissions

Springer Nature
Microbiome
Authors:
Martínez‑Álvaroetal. Microbiome (2022) 10:184
https://doi.org/10.1186/s40168‑022‑01392‑y
CORRECTION
Correction: Microbiome‑driven breeding
strategy potentially improves beef fatty acid
prole beneting human health andreduces
methane emissions
Marina Martínez‑Álvaro1*, Jennifer Mattock2, Marc Auffret3, Ziqing Weng4, Carol‑Anne Duthie1,
Richard J. Dewhurst1, Matthew A. Cleveland4, Mick Watson2 and Rainer Roehe1*
© The Author(s) 2022. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which
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Correction: Microbiome 10, 166 (2022)
https://doi.org/10.1186/s40168-022-01352-6
Following the publication of the original article [1], the
author reported that Prof. Rainer Roehe was not cap-
tured as co-corresponding author.
is has been corrected in this article and the original
article has been updated.
Author details
1 Scotland’s Rural College, Edinburgh, UK. 2 The Roslin Institute and the Royal
(Dick) School of Veterinary Studies, University of Edinburgh, Edinburgh, UK.
3 Agrifirm, Drongen, Belgium. 4 Genus plc, DeForest, WI, USA.
Reference
1. Martínez‑Álvaro M, Mattock J, Auffret M, et al. Microbiome‑driven breed‑
ing strategy potentially improves beef fatty acid profile benefiting human
health and reduces methane emissions. Microbiome. 2022;10:166.
https:// doi. org/ 10. 1186/ s40168‑ 022‑ 01352‑6.
Open Access
The original article can be found online at https:// doi. org/ 10. 1186/ s40168‑
022‑ 01352‑6.
*Correspondence: marina.alvaro@sruc.ac.uk; rainer.roehe@sruc.ac.uk
1 Scotland’s Rural College, Edinburgh, UK
Full list of author information is available at the end of the article
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... Unlike other KO abundance tools, KOunt gives the user the option to calculate the abundance of the RNA KOs in the metagenomes and also cluster the proteins by sequence identity to report the diversity within each KO. KOunt has been used to successfully quantify KO abundance in rumen microbiome samples (Martínez-Álvaro et al., 2022). ...
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Background Healthier ruminant products can be achieved by adequate manipulation of the rumen microbiota to increase the flux of beneficial fatty acids reaching host tissues. Genomic selection to modify the microbiome function provides a permanent and accumulative solution, which may have also favourable consequences in other traits of interest (e.g. methane emissions). Possibly due to a lack of data, this strategy has never been explored. Results This study provides a comprehensive identification of ruminal microbial mechanisms under host genomic influence that directly or indirectly affect the content of unsaturated fatty acids in beef associated with human dietary health benefits C18:3n-3, C20:5n-3, C22:5n-3, C22:6n-3 or cis-9 , trans-11 C18:2 and trans-11 C18:1 in relation to hypercholesterolemic saturated fatty acids C12:0, C14:0 and C16:0, referred to as N3 and CLA indices. We first identified that ~27.6% (1002/3633) of the functional core additive log-ratio transformed microbial gene abundances ( alr -MG) in the rumen were at least moderately host-genomically influenced (HGFC). Of these, 372 alr -MG were host-genomically correlated with the N3 index ( n =290), CLA index ( n =66) or with both ( n =16), indicating that the HGFC influence on beef fatty acid composition is much more complex than the direct regulation of microbial lipolysis and biohydrogenation of dietary lipids and that N3 index variation is more strongly subjected to variations in the HGFC than CLA. Of these 372 alr -MG, 110 were correlated with the N3 and/or CLA index in the same direction, suggesting the opportunity for enhancement of both indices simultaneously through a microbiome-driven breeding strategy. These microbial genes were involved in microbial protein synthesis ( aroF and serA ), carbohydrate metabolism and transport ( galT , msmX ), lipopolysaccharide biosynthesis ( kdsA , lpxD , lpxB ), or flagellar synthesis ( flgB , fliN ) in certain genera within the Proteobacteria phyla (e.g. Serratia , Aeromonas ). A microbiome-driven breeding strategy based on these microbial mechanisms as sole information criteria resulted in a positive selection response for both indices (1.36±0.24 and 0.79±0.21 sd of N3 and CLA indices, at 2.06 selection intensity). When evaluating the impact of our microbiome-driven breeding strategy to increase N3 and CLA indices on the environmental trait methane emissions (g/kg of dry matter intake), we obtained a correlated mitigation response of −0.41±0.12 sd. Conclusion This research provides insight on the possibility of using the ruminal functional microbiome as information for host genomic selection, which could simultaneously improve several microbiome-driven traits of interest, in this study exemplified with meat quality traits and methane emissions.