Cited by 592Ruminant Nutrition and Digestive PhysiologyGut microbiota and healthAnimal Nutrition and Physiology

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Potential Role of the Bovine Rumen Microbiome in Modulating Milk Composition and Feed Efficiency

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Jami, Elie, White, Bryan A., Mizrahi, Itzhak·2014·PLoS ONE

DOI 10.1371/journal.pone.0085423PMC PMC3899005

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Abstract

Ruminants are completely dependent on their microbiota for feed digestion and consequently, their viability. It is therefore tempting to hypothesize a connection between the composition and abundance of resident rumen bacterial taxa and the physiological parameters of the host. Using a pyrosequencing approach, we characterized the rumen bacterial community composition in 15 dairy cows and their physiological parameters. We analyzed the degree of divergence between the different animals and found that some physiological parameters, such as milk yield and composition, are highly correlated with the abundance of various bacterial members of the rumen microbiome. One apparent finding was a strong correlation between the ratio of the phyla Firmicutes to Bacteroidetes and milk-fat yield. These findings paralleled human studies showing similar trends of increased adiposity with an increase in Bacteroidetes. This correlation remained evident at the genus level, where several genera showed correlations with the animals' physiological parameters. This suggests that the bacterial community has a role in shaping host physiological parameters. A deeper understanding of this process may allow us to modulate the rumen microbiome for better agricultural yield through bacterial community design.

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Background
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Background
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Background
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Background
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Background
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Background
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Result
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Ran, T., Tang, S., Yu, X., Hou, Z., Hou, F., Beauchemin, K. A., Yang, W. Z., & Wu, D. (2021) · Journal of Dairy Science · doi:10.3168/jds.2021-20408 · Cited by 38
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Background
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Background
Genetic markers are associated with the ruminal microbiome and metabolome in grain and sugar challenged dairy heifers
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“Further, associations to production outcomes have also been made, for example in dairy cattle Jami et al. (2014) demonstrated that the Firmicutes to Bacteroidetes ratio was strongly positively correlated to milk fat (Pearson R = 0.72).”
BackgroundInfluential
Characterization of the rumen microbial community composition of buffalo breeds consuming diets typical of dairy production systems in Southern China
Lin, B., Henderson, G., Zou, C., Cox, F., Liang, X., Janssen, P. H., & Attwood, G. T. (2015) · Animal Feed Science and Technology · doi:10.1016/j.anifeedsci.2015.06.013 · Cited by 32
Links between the rumen microbiota, methane emissions and feed efficiency of finishing steers offered dietary lipid and nitrate supplementation
Bowen, J. M., Cormican, P., Lister, S. J., McCabe, M. S., Duthie, C.-A., Roehe, R., & Dewhurst, R. J. (2020) · PLoS ONE · doi:10.1371/journal.pone.0231759 · Cited by 39
“Firmicutes to Bacteroidetes (F:B) ratio has been previously associated with feed efficiency in cattle [40, 41], as well as in humans and mice [42].”
Background
The Temporal Dynamics of Rumen Microbiota in Early Weaned Lambs
Wang, S., Chai, J., Zhao, G., Zhang, N., Cui, K., Bi, Y., Ma, T., Tu, Y., & Diao, Q. (2022) · Microorganisms · doi:10.3390/microorganisms10010144 · Cited by 35
Heritable and Nonheritable Rumen Bacteria Are Associated with Different Characters of Lactation Performance of Dairy Cows
Zang, X., Sun, H., Xue, M., Zhang, Z., Plastow, G. S., Yang, T., Guan, L. L., & Liu, J. (2022) · mSystems · doi:10.1128/msystems.00422-22 · Cited by 37
“Increasing numbers of studies have uncovered the relationships between rumen microbiota and production traits of dairy and beef cattle such as methane emission (2, 3), feed efficiency (4, 5), and milk production and quality (6, 7).”
Background
An artificial intelligence approach of feature engineering and ensemble methods depicts the rumen microbiome contribution to feed efficiency in dairy cows
Monteiro, H. F., Figueiredo, C. C., Mion, B., Santos, J. E. P., Bisinotto, R. S., Peñagaricano, F., Ribeiro, E. S., Marinho, M. N., Zimpel, R., da Silva, A. C., et al. (2024) · Animal Microbiome · doi:10.1186/s42523-024-00289-5 · Cited by 40
Dandelion (Taraxacum mongolicum Hand.-Mazz.) Supplementation-Enhanced Rumen Fermentation through the Interaction between Ruminal Microbiome and Metabolome
Li, Y., Lv, M., Wang, J., Tian, Z., Yu, B., Wang, B., Liu, J., & Liu, H. (2020) · Microorganisms · doi:10.3390/microorganisms9010083 · Cited by 31
“In humans and mice, the ratio of Bacteroidetes to Firmicutes has been shown to affect body fat and energy gaining [22,23] and similar findings have been reported in dairy cows [24].”
Background
Unravelling the Role of Rumen Microbial Communities, Genes, and Activities on Milk Fatty Acid Profile Using a Combination of Omics Approaches
Stergiadis, S., Luna, I. C., Mora-Ortiz, M., Stewart, R. D., Dewhurst, R. J., Humphries, D. J., Watson, M., Roehe, R., & Auffret, M. D. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.590441 · Cited by 32
“The rumenmicrobiome is recognized for having an impact on animal performance traits such as health, methane emissions and feed efficiency (Russell, 1998; Jami et al., 2014; Auffret et al., 2017).”
Background
Changes in the Rumen Bacteriome Structure and Enzymatic Activities of Goats in Response to Dietary Supplementation with Schizochytrium spp.
Mavrommatis, A., Skliros, D., Flemetakis, E., & Tsiplakou, E. (2021) · Microorganisms · doi:10.3390/microorganisms9071528 · Cited by 33
“[36] observed a positive correlation between the rumen Firmicutes-to-Bacteroidetes ratio and milk fat content.”
Background
Determination of microbiological characteristics in the digestive tract of different ruminant species
Zhang, T., Mu, Y., Zhang, D., Lin, X., Wang, Z., Hou, Q., Wang, Y., & Hu, Z. (2018) · MicrobiologyOpen · doi:10.1002/mbo3.769 · Cited by 30
“Jami, White, and Mizrahi (2014) showed a positive corre‐ lation between Dialister and milk yield.”
BackgroundResult
Metagenomic profiles of the rumen microbiota during the transition period in low‐yield and high‐yield dairy cows
Sofyan, A., Uyeno, Y., Shinkai, T., Hirako, M., Kushibiki, S., Kanamori, H., Mori, S., Katayose, Y., & Mitsumori, M. (2019) · Animal Science Journal · doi:10.1111/asj.13277 · Cited by 33
Unravelling plasmidome distribution and interaction with its hosting microbiome
Kav, A. B., Rozov, R., Bogumil, D. D., Sørensen, S. J., Hansen, L. H., Benhar, I., Halperin, E., Ron Shamir, A., & Mizrahi, I. (2019) · Environmental Microbiology · doi:10.1111/1462-2920.14813 · Cited by 30
“Data quality control and analyses were performed using the QIIME pipeline (Caporaso et al., 2010) as previously described (Jami et al., 2014)”
Method
Comparative analysis of the metabolically active microbial communities in the rumen of dromedary camels under different feeding systems using total rRNA sequencing
Rabee, A. E., Forster, R. J., Elekwachi, C. O., Sabra, E. A., & Lamara, M. (2020) · PeerJ · doi:10.7717/peerj.10184 · Cited by 30
Consumption of Supplementary Inulin Modulates Milk Microbiota and Metabolites in Dairy Cows with Subclinical Mastitis
Wang, Y., Nan, X., Zhao, Y., Jiang, L., Wang, H., Zhang, F., Hua, D., Liu, J., Yao, J., Yang, L., et al. (2021) · Applied and Environmental Microbiology · doi:10.1128/aem.02059-21 · Cited by 30
“Our previous study showed increased Bacteroidetes and decreased Firmicutes in the rumen of SCM cows in the I-3 group compared to the February 2022 Volume 88 Issue 4 e02059-21 aem.asm.org 14 control group (21).”
Influential
Effects of Compound Chinese Herbal Medicine Additive on Growth Performance and Gut Microbiota Diversity of Zi Goose
Zheng, J., Liang, S., Zhang, Y., Sun, X., Li, Y., Diao, J., Dong, L., Ni, H., Yin, Y., Ren, J., et al. (2022) · Animals · doi:10.3390/ani12212942 · Cited by 30
“Moreover, an increased ratio of Firmicutes to Bacteroidetes markedly affects energy gain in dairy cows [50].”
Background
The Type of Forage Substrate Preparation Included as Substrate in a RUSITEC System Affects the Ruminal Microbiota and Fermentation Characteristics
Duarte, A. C., Holman, D. B., Alexander, T. W., Durmic, Z., Vercoe, P. E., & Chaves, A. V. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.00704 · Cited by 30
“Although a number of studies have been conducted to evaluate the effect of diet on the rumen microbial community structure, most of these have investigated the effect of total mixed ration diets (Jami et al., 2014; Pitta et al., 2014; Veneman et al., 2015) or type of forages (Huws et al.”
BackgroundInfluential
Effects of replacing Leymus chinensis with whole-crop wheat hay on Holstein bull apparent digestibility, plasma parameters, rumen fermentation, and microbiota
Niu, W., He, Y., Xia, C., Rahman, M. A. U., Qiu, Q., Shao, T., Liang, Y., Ji, L., Wang, H., & Cao, B. (2017) · Scientific Reports · doi:10.1038/s41598-017-02258-2 · Cited by 29
Sanguinarine and resveratrol affected rumen fermentation parameters and bacterial community in calves
Zhang, R., Zhang, W. B., Bi, Y., Tu, Y., Ma, T., Dong, L., Du, H.-C., & Diao, Q. (2019) · Animal Feed Science and Technology · doi:10.1016/j.anifeedsci.2019.03.004 · Cited by 31
Variation in gut bacterial composition is associated with Haemonchus contortus parasite infection of sheep
Mamun, M. A. A., Sandeman, M. R., Rayment, P., Brook-Carter, P., Scholes, E., Kasinadhuni, N., Piedrafita, D. M., & Greenhill, A. R. (2020) · Animal Microbiome · doi:10.1186/s42523-020-0021-3 · Cited by 27
“Moreover, higher Firmicutes-to-Bacteroidetes ratio was found to be strongly correlated with daily milk-fat yield in cows [36].”
Background
Ruminal Microbes Exhibit a Robust Circadian Rhythm and Are Sensitive to Melatonin
Ouyang, J., Wang, M., Bu, D., Ma, L., Liu, F., Chun, X., Du, C., Aboragah, A. A., & Loor, J. J. (2021) · Frontiers in Nutrition · doi:10.3389/fnut.2021.760578 · Cited by 28
Functional phylotyping approach for assessing intraspecific diversity of Ruminococcus albus within the rumen microbiome
Grinberg, I. R., Yin, G., Borovok, I., Miller, M. E. B., Yeoman, C. J., Dassa, B., Yu, Z., Mizrahi, I., Flint, H. J., Bayer, E. A., et al. (2015) · FEMS Microbiology Letters · doi:10.1093/femsle/fnu047 · Cited by 29
Illumina Miseq platform analysis caecum bacterial communities of rex rabbits fed with different antibiotics
Zou, F., Zeng, D., Wen, B., Sun, H., Zhou, Y., Yang, M., Peng, Z., Xu, S., Wang, H., Fu, X., et al. (2016) · AMB Express · doi:10.1186/s13568-016-0273-1 · Cited by 30
A Cross-Sectional Study of Dairy Cattle Metagenomes Reveals Increased Antimicrobial Resistance in Animals Farmed in a Heavy Metal Contaminated Environment
Gaeta, N. C., Bean, E., Miles, A. M., de Carvalho, D. U. O. G., Alemán, M. A. R., Carvalho, J. S., Gregory, L., & Ganda, E. (2020) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.590325 · Cited by 32
“Prevotella has been reported to be the most abundant genus in the rumen (Chaucheyras-Durand and Ossa, 2014; Jami et al., 2014; Lima et al., 2015; Tong et al., 2018), whose species are related to degradation of starch, hemicellulose, and protein (Henderson et al., 2015).”
Background
Exploration and comparison of bacterial communities present in bovine faeces, milk and blood using 16S rRNA metagenomic sequencing
Mtshali, K., Khumalo, Z. T. H., Kwenda, S., Ismail, A., & Thekisoe, O. M. M. (2022) · PLoS ONE · doi:10.1371/journal.pone.0273799 · Cited by 28
Ruminal microbiota composition associated with ruminal fermentation parameters and milk yield in lactating buffalo in Guangxi, China—A preliminary study
Zou, C., Gu, Q., Zhou, X., Xia, Z., Muhammad, W. I., Tang, Q., Liang, M., Lin, B., & Qin, G. (2019) · Journal of Animal Physiology and Animal Nutrition · doi:10.1111/jpn.13154 · Cited by 27
A Mixed Phytogenic Modulates the Rumen Bacteria Composition and Milk Fatty Acid Profile of Water Buffaloes
Hassan, F., Ebeid, H. M., Tang, Z., Li, M., Peng, L., Peng, K., Liang, X., & Yang, C. (2020) · Frontiers in Veterinary Science · doi:10.3389/fvets.2020.00569 · Cited by 27
“The decrease in Prevotella was correlated with numerically higher DMI, fat corrected milk (FCM), ECM, fat (%), and milk fat yield in MP35 as compared to the control, most likely due to the negative association of Prevotella with DMI and milk fat content (92, 96).”
BackgroundResult
Ruminal resistome of dairy cattle is individualized and the resistotypes are associated with milking traits
Xue, M., Xie, Y., Zhong, Y., Liu, J., Guan, L. L., & Sun, H. (2021) · Animal Microbiome · doi:10.1186/s42523-021-00081-9 · Cited by 28
“Our previous study reported that Prevotella positively contributed to volatile fatty acid production in the rumen and milk protein yield [16], and other studies have also reported that the OTUs belonging to Prevotella were associated with the feed efficiency [30] and milk protein yield [31] of dairy cows.”
BackgroundResult
Assessing the Response of Ruminal Bacterial and Fungal Microbiota to Whole-Rumen Contents Exchange in Dairy Cows
Cox, M. S., Deblois, C. L., & Suen, G. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.665776 · Cited by 26
Comparison of Gut Microbiota Diversity Between Captive and Wild Tokay Gecko (Gekko gecko)
Tang, S., Li, Y., Huang, C., Yan, S., Li, Y., Chen, Z., & Wu, Z. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.897923 · Cited by 27
Relationship between Rumen Bacterial Community and Milk Fat in Dairy Cows
Si, B., Liu, K., Huang, G., Chen, M., Yang, J., Wu, X., Li, N., Tang, W., Zhao, S., Zheng, N., et al. (2022) · Frontiers in Microbiology · doi:10.2139/ssrn.4256224 · Cited by 29
Metagenomic characterisation of ruminal bacterial diversity in buffaloes from birth to adulthood using 16S rRNA gene amplicon sequencing
KORINGA, P. G., Thakkar, J. R., Pandit, R. J., Hinsu, A., Parekh, M. J., Shah, R. K., Jakhesara, S. J., & Joshi, C. G. (2018) · Functional & Integrative Genomics · doi:10.1007/s10142-018-0640-x · Cited by 29
Factors affecting the ruminal microbial composition and methods to determine microbial protein yield. Review
Castillo‐Lopez, E., & Domínguez-Ordóñez, M. G. (2019) · Revista Mexicana de Ciencias Pecuarias · doi:10.22319/rmcp.v10i1.4547 · Cited by 37
“Por ejemplo, se han logrado nuevos conocimientos de los cambios en la población bacteriana de los rumiantes debido a un cambio en la composición de la dieta((21)), a un cambio en el pH ruminal((37)), a las bacterias biohidrogenizadoras((14,78)), al papel de las bacterias en la composición de la grasa de la leche((79))…”
Background
Influence of Using Various Levels of Protein Concentrate in Rations of Ayrshire Dairy Cows on Rumen Microbiome, Reproductive Traits and Economic Efficiency
Buryakov, N. P., Aleshin, D. E., Buryakova, M. A., Zaikina, A. S., Laptev, G., Il'ina, L. A., Petrov, A. S., Kostomakhin, N. M., Sheikh, A. I. E., Sahwan, F. M., et al. (2022) · Veterinary Sciences · doi:10.3390/vetsci9100534 · Cited by 27
“In addition, the results obtained were consistent with the studies and works of Jami et al. (2014) [3], who noted that the species composition of the rumen depends on the habitat of cows, the season of the year, the quality of feed, breed and individual characteristics of the development of the…”
Result
Effect of Dietary and Age Changes on Ruminal Microbial Diversity in Holstein Calves
Wu, Y., Jiao, C., Diao, Q., & Tu, Y. (2023) · Microorganisms · doi:10.3390/microorganisms12010012 · Cited by 26
“The increased relative abundance of Firmicutes is associated with solid feed intake, energy acquisition, and feed efficiency [50,51].”
Mapping the Green-Lipped Mussel (Perna canaliculus) Microbiome: A Multi-Tissue Analysis of Bacterial and Fungal Diversity
Li, S., Young, T., Archer, S. D. J., Lee, K. C. Y., Sharma, S. S., & Alfaro, A. C. (2022) · Current Microbiology · doi:10.1007/s00284-021-02758-5 · Cited by 23
Metaproteome plasticity sheds light on the ecology of the rumen microbiome and its connection to host traits
Sasson, G., Moraïs, S., Kokou, F., Plate, K., Trautwein‐Schult, A., Jami, E., Bayer, E. A., Becher, D., & Mizrahi, I. (2022) · The ISME Journal · doi:10.1038/s41396-022-01295-8 · Cited by 29
Fermentation of Ammonia Fiber Expansion Treated and Untreated Barley Straw in a Rumen Simulation Technique Using Rumen Inoculum from Cattle with Slow versus Fast Rate of Fiber Disappearance
Griffith, C., Ribeiro, G. O., Oba, M., McAllister, T. A., & Beauchemin, K. A. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.01839 · Cited by 27
“For example, Jami et al. (2014) reported that increased milk fat production in dairy cows was strongly correlated to an increase in the ratio of Firmicutes to Bacteroidetes in rumen contents.”
Background
Rumen microbiota succession throughout the perinatal period and its association with postpartum production traits in dairy cows: A review
Zhao, X., Zhang, Y., Rahman, A., Chen, M., Li, N., Wu, T., Qi, Y., Zheng, N., Zhao, S., & Wang, J. (2024) · Animal nutrition · doi:10.1016/j.aninu.2024.04.013 · Cited by 29
A Randomized Controlled Trial of Teat-Sealant and Antibiotic Dry-Cow Treatments for Mastitis Prevention Shows Similar Effect on the Healthy Milk Microbiome
Biscarini, F., Cremonesi, P., Castiglioni, B., Stella, A., Bronzo, V., Locatelli, C., & Moroni, P. (2020) · Frontiers in Veterinary Science · doi:10.3389/fvets.2020.00581 · Cited by 26
“(60) observed a strong positive correlation between the F:B ratio in the rumen microbiota and milk-fat yield: this latter finding is mirrored in this study, where a higher F:B ratio has been found in the milk microbiome at the onset of milk production (calving and 5 DIM), when a sharp increase in fat anabolism in the…”
Result
Structural changes in the gut microbiota community of the black-necked crane (Grus nigricollis) in the wintering period
Zhao, J., Wang, Y., Zhang, M., Yao, Y., Tian, H., Sang, Z., Wang, L., & Xu, H. (2021) · Archives of Microbiology · doi:10.1007/s00203-021-02587-x · Cited by 25
A review of rumen parameters in bovines with divergent feed efficiencies: What do these parameters tell us about improving animal productivity and sustainability?
Fregulia, P., Neves, A. L. A., Dias, R. J. P., & Campos, M. M. (2021) · Livestock Science · doi:10.1016/j.livsci.2021.104761 · Cited by 30
Seasonal variations in the composition and diversity of gut microbiota in white-lipped deer (Cervus albirostris)
You, Z., Deng, J., Liu, J., Fu, J., Xiong, H., Luo, W., & Xiong, J. (2022) · PeerJ · doi:10.7717/peerj.13753 · Cited by 25
A glimpse of the future in animal nutrition science. 2. Current and future solutions
Tedeschi, L. O., Fonseca, M. A., MUIR, J. P., Poppi, D. P., Carstens, G. E., Angerer, J. P., & Fox, D. G. (2017) · Revista Brasileira de Zootecnia · doi:10.1590/s1806-92902017000500012 · Cited by 30
“More recent studies (Jami et al., 2014; McCann et al., 2014b; Myer et al., 2015; Roehe et al., 2016) have highlighted interrelationships that exist between host animals with divergent phenotypes for feed efficiency and their rumen microbiome structure.”
Background
Prevotella copri , a potential indicator for high feed efficiency in western steers
Brooke, C. G., Najafi, N., Dykier, K. C., & Hess, M. (2019) · Animal Science Journal · doi:10.1111/asj.13197 · Cited by 27
Association of residual feed intake with peripartal ruminal microbiome and milk fatty acid composition during early lactation in Holstein dairy cows
Zhang, H., Elolimy, A. A., Akbar, H., Thanh, L. P., Yang, Z., & Loor, J. J. (2022) · Journal of Dairy Science · doi:10.3168/jds.2021-21454 · Cited by 24
Effects of melatonin on rumen microorganisms and methane production in dairy cow: results from in vitro and in vivo studies
Fu, Y., Yao, S., Wang, T., Lu, Y., Han, H., Liu, X., Lv, D., Ma, X., Guan, S., Yao, Y., et al. (2023) · Microbiome · doi:10.1186/s40168-023-01620-z · Cited by 25
“Therefore, the abundance and stability of rumen microorganisms in dairy cows play a crucial role in their health and production performance [12, 13].”
Background

Authors: Jami, E., White, B. A., & Mizrahi, I.
Affiliations: Tel Aviv University (IL)
University of Illinois Urbana-Champaign (US)
Agricultural Research Organization (IL)
Corresponding author: Mizrahi, Itzhak
ORCID: Jami, Elie
White, Bryan A.
Mizrahi, Itzhak
Venue: PLoS ONE
Publisher: Public Library of Science (PLoS)
Published: 2014-01-22
Volume: 9
Issue: 1
Pages: e85423
ISSN: 1932-6203 (ISSN-L)
DOI: 10.1371/journal.pone.0085423
PMC: PMC3899005
OpenAlex: W2042473229
Cited by: 588
References: 29
Citations by year: 2026: 26 · 2025: 46 · 2024: 78 · 2023: 54 · 2022: 67 · 2021: 82 · 2020: 55 · 2019: 46 · 2018: 38 · 2017: 47 · 2016: 22 · 2015: 20 · 2014: 7
FWCI: 63.79
Type: journal article
Language: en
Open access: gold
doi.org
Licence: cc-by
creativecommons.org/licenses/by/4.0/ (vor)
Locations: PLoS ONE (publishedVersion, cc-by)
Europe PMC (PubMed Central) (publishedVersion, cc-by)
PubMed Central (publishedVersion, cc-by)
PubMed (publishedVersion)
DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Figshare (submittedVersion, cc-by)
Topics: Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Ruminant Nutrition and Digestive Physiology
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Nutrition and Physiology
Keywords: rumen microbiome, dairy cattle, milk composition, milk yield, feed efficiency, rumen bacterial community, Firmicutes/Bacteroidetes ratio, milk fat yield, host-microbe interactions, rumen bacteria
MeSH terms: Animals, Animal Feed, Animal Nutritional Physiological Phenomena, Bacteria, Cattle, DNA, Bacterial, Fats, Female, Milk, Phylogeny, RNA, Ribosomal, 16S, Rumen, Sequence Analysis, DNA, Bacteroidetes, Host-Pathogen Interactions, Microbiota

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Potential Role of the Bovine Rumen Microbiome in Modulating Milk Composition and Feed Efficiency

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