## 4 Discussion
_JDS Commun._**2021**, \(2\), 171-176. [CrossRef] [PubMed]
* [PERSON]; [PERSON] [PERSON]; [PERSON]; [PERSON]; [PERSON] Transient changes in milk production efficiency and bacterial community composition resulting from near-total exchange of ruminal contents between high- and low-efficiency Holstein cows. _J. Dairy Sci._**2017**, _100_, 7165-7182. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON] [PERSON] Transcriptomics analysis of host liver and meta-transcriptome analysis of rumen epimural microbial community in young calves treated with artificial dosing of rumen content from adult donor cow. _Sci. Rep._**2019**, \(9\), 790. [CrossRef] [PubMed]
* [PERSON]; [PERSON] Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR. _Appl. Microbiol. Biotechnol._**2007**, _75_, 165-174. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON] Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. _Appl. Environ. Microbiol._**2013**, _79_, 5112-5120. [CrossRef] [PubMed]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; et al. Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. _Appl. Environ. Microbiol._**2009**, _75_, 7537-7541. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON] UCHIME improves sensitivity and speed of chimera detection. _Bioinformatics_**2011**, _27_, 2194-2200. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON] SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. _Nucleic Acids Res._**2007**, _35_, 7188-7196. [CrossRef]
* [PERSON]; [PERSON] _Python 3 Reference Manual_; CreateSpace: Scotts Valley, CA, USA, 2009. * R Core Team (2022) R Core Team. R: A Language and Environment for Statistical Computing. 2019. Available online: [[http://www.R-project.org](http://www.R-project.org)]([http://www.R-project.org](http://www.R-project.org)) (accessed on 4 September 2022). * [PERSON] (2019) [PERSON] _RStudio: Integrated Development Environment for R_; RStudio, PBC: Boston, MA, USA, 2019; Available online: [[http://www.rstudio.com/](http://www.rstudio.com/)]([http://www.rstudio.com/](http://www.rstudio.com/)) (accessed on 4 September 2022). * [PERSON] and Holmes (2013) [PERSON]; [PERSON] phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data. _PLoS ONE_**2013**, \(8\), e61217. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; et al. Welcome to the Tidyverse. _J. Open Source Softw._**2019**, \(4\), 1686. [CrossRef]
* [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON]; [PERSON] _Vegan: Community Ecology Package, R package Version 2.5-7_; R Foundation for Statistical Computing: Vienna, Austria, 2021; Available online: [[http://CRAN.Rproject.org/package=vegan](http://CRAN.Rproject.org/package=vegan)]([http://CRAN.Rproject.org/package=vegan](http://CRAN.Rproject.org/package=vegan)) (accessed on 4 September 2022). * [PERSON]; [PERSON] _Rdjvr: A Grammar of Data Manipulation_, _R Package Version 0.4.3.;_ R Foundation for Statistical Computing: Vienna, Austria, 2015; Available online: [[http://CRAN.R-project.org/package=dplyr](http://CRAN.R-project.org/package=dplyr)]([http://CRAN.R-project.org/package=dplyr](http://CRAN.R-project.org/package=dplyr)) (accessed on 4 September 2022). * [PERSON] [PERSON]; [PERSON] The number of new species, and the increase in population coverage, when a sample is increased. _Biometrika_**1956**, _43_, 45-63. [CrossRef]
* [PERSON]; [PERSON]; [PERSON] Effect of relative inoculum concentration on _Listeria monocytogenes_ growth in co-culture. _Int. J.