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. 2021 Nov 23;9:229. doi: 10.1186/s40168-021-01147-1

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© The Author(s) 2021

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 2 — Fibrolytic bacteria and glycoside hydrolases are abundant in feed efficient cattle. A Log₂-fold increase in the abundance of F. succinogenes in L-FCR compared to H-FCR on Day 0 (orange dot). Log₂-fold increase in the abundance of four bacterial species on the 180th day relative to day 0 in L-FCR compared to H-FCR (dark dots). The black dashed line was drawn to separate the two time points. B Log₂-fold increase in the abundance of four CAZyme families on the 180th day relative to day 0 in L-FCR compared to H-FCR (dark dots). C Log₂-fold increase in the abundance of four microbial functions in L-FCR compared to H-FCR on day 0 (orange dots). D Heat tree showing the log₂-fold increase in the abundance of microbial functions on the 180th day relative to day 0 in L-FCR compared to H-FCR (dark dots). Features were significant (P < 0.05) according to the trimmed mean of M-values (TMM) method implemented in edgeR [35–37]. The TMM method was used to normalize the data and minimize the log_2-fold changes between samples. All P values were corrected for a false discovery rate (FDR) of 0.05 using the Benjamin-Hochberg algorithm [38], and FDR-corrected P values were considered as significant. In the heat tree, node colors indicate the log₂fc in the significant (P < 0.05) microbial functional categories classified at level 4 by MG-RAST [27, 28]