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Xue M, Xie Y, Zang X, Zhong Y, Ma X, Sun H, Liu J. Deciphering functional groups of rumen microbiome and their underlying potentially causal relationships in shaping host traits. IMETA 2024; 3:e225. [PMID: 39135684 PMCID: PMC11316931 DOI: 10.1002/imt2.225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/31/2024] [Revised: 06/25/2024] [Accepted: 06/26/2024] [Indexed: 08/15/2024]
Abstract
Over the years, microbiome research has achieved tremendous advancements driven by culture-independent meta-omics approaches. Despite extensive research, our understanding of the functional roles and causal effects of the microbiome on phenotypes remains limited. In this study, we focused on the rumen metaproteome, combining it with metatranscriptome and metabolome data to accurately identify the active functional distributions of rumen microorganisms and specific functional groups that influence feed efficiency. By integrating host genetics data, we established the potentially causal relationships between microbes-proteins/metabolites-phenotype, and identified specific patterns in which functional groups of rumen microorganisms influence host feed efficiency. We found a causal link between Selenomonas bovis and rumen carbohydrate metabolism, potentially mediated by bacterial chemotaxis and a two-component regulatory system, impacting feed utilization efficiency of dairy cows. Our study on the nutrient utilization functional groups in the rumen of high-feed-efficiency dairy cows, along with the identification of key microbiota functional proteins and their potentially causal relationships, will help move from correlation to causation in rumen microbiome research. This will ultimately enable precise regulation of the rumen microbiota for optimized ruminant production.
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Affiliation(s)
- Ming‐Yuan Xue
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
- Xianghu LaboratoryHangzhouChina
| | - Yun‐Yi Xie
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
| | - Xin‐Wei Zang
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
| | - Yi‐Fan Zhong
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
| | - Xiao‐Jiao Ma
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
| | - Hui‐Zeng Sun
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
- Ministry of Education Key Laboratory of Molecular Animal NutritionZhejiang UniversityHangzhouChina
| | - Jian‐Xin Liu
- Institute of Dairy Science, College of Animal SciencesZhejiang UniversityHangzhouChina
- Ministry of Education Key Laboratory of Molecular Animal NutritionZhejiang UniversityHangzhouChina
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Li Y, Mao K, Zang Y, Lu G, Qiu Q, Ouyang K, Zhao X, Song X, Xu L, Liang H, Qu M. Revealing the developmental characterization of rumen microbiome and its host in newly received cattle during receiving period contributes to formulating precise nutritional strategies. MICROBIOME 2023; 11:238. [PMID: 37924150 PMCID: PMC10623857 DOI: 10.1186/s40168-023-01682-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Accepted: 09/27/2023] [Indexed: 11/06/2023]
Abstract
BACKGROUND Minimizing mortality losses due to multiple stress and obtaining maximum performance are the production goals for newly received cattle. In recent years, vaccination and metaphylaxis treatment significantly decreased the mortality rate of newly received cattle, while the growth block induced by treatment is still obvious. Assessment of blood metabolites and behavior monitoring offer potential for early identification of morbid animals. Moreover, the ruminal microorganisms' homeostasis is a guarantee of beef steers' growth and health. The most critical period for newly received cattle is the first-month post-transport. Therefore, analyzing rumen metagenomics, rumen metabolomics, host metabolomics, and their interaction during receiving period (1 day before transport and at days 1/4, 16, and 30 after transport) is key to revealing the mechanism of growth retardation, and then to formulating management and nutritional practices for newly received cattle. RESULTS The levels of serum hormones (COR and ACTH), and pro-inflammatory factors (IL-1β, TNF-α, and IL-6) were highest at day 16, and lowest at day 30 after arrival. Meanwhile, the antioxidant capacity (SOD, GSH-Px, and T-AOC) was significantly decreased at day 16 and increased at day 30 after arrival. Metagenomics analysis revealed that rumen microbes, bacteria, archaea, and eukaryota had different trends among the four different time points. At day 16 post-transport, cattle had a higher abundance of ruminal bacteria and archaea than those before transport, but the eukaryote abundance was highest at day 30 post-transport. Before transport, most bacteria were mainly involved in polysaccharides digestion. At day 4 post-transport, the most significantly enriched KEGG pathways were nucleotide metabolism (pyrimidine metabolism and purine metabolism). At day 16 post-transport, the energy metabolism (glycolysis/gluconeogenesis, pyruvate metabolism) and ruminal contents of MCP and VFAs were significantly increased, but at the same time, energy loss induced by methane yields (Methanobrevibacter) together with pathogenic bacteria (Saccharopolyspora rectivirgula) were also significantly increased. At this time, the most upregulated ruminal L-ornithine produces more catabolite polyamines, which cause oxidative stress to rumen microbes and their host; the most downregulated ruminal 2',3'-cAMP provided favorable growth conditions for pathogenic bacteria, and the downregulated ruminal vitamin B6 metabolism and serum PC/LysoPC disrupt immune function and inflammation reaction. At day 30 post-transport, the ruminal L-ornithine and its catabolites (mainly spermidine and 1,3-propanediamine) were decreased, and the serum PC/LysoPC and 2',3'-cNMPs pools were increased. This is also consistent with the changes in redox, inflammation, and immune status of the host. CONCLUSIONS This study provides new ideas for regulating the health and performance of newly received cattle during the receiving period. The key point is to manage the newly received cattle about day 16 post-transport, specifically to inhibit the production of methane and polyamines, and the reproduction of harmful bacteria in the rumen, therefore improving the immunity and performance of newly received cattle. Video Abstract.
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Affiliation(s)
- Yanjiao Li
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China.
| | - Kang Mao
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Yitian Zang
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Guwei Lu
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Qinghua Qiu
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Kehui Ouyang
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Xianghui Zhao
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Xiaozhen Song
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Lanjiao Xu
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Huan Liang
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China
| | - Mingren Qu
- Jiangxi Province Key Laboratory of Animal Nutrition/Animal Nutrition and Feed Safety Innovation Team, College of Animal Science and Technology, Jiangxi Agricultural University, Nanchang, China.
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Castro DPV, Pimentel PRS, da Silva Júnior JM, Virgínio Júnior GF, de Andrade EA, Barbosa AM, Pereira ES, Ribeiro CVDM, Bezerra LR, Oliveira RL. Effects of Increasing Levels of Palm Kernel Oil in the Feed of Finishing Lambs. Animals (Basel) 2022; 12:ani12040427. [PMID: 35203135 PMCID: PMC8868089 DOI: 10.3390/ani12040427] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/08/2021] [Accepted: 12/09/2021] [Indexed: 02/01/2023] Open
Abstract
Simple Summary Palm kernel oil (PKO) is extracted from an oleaginous seed fruit (Elaeis guineenses Jacq.) commonly cultivated in Brazil and can be used strategically as a ruminal fermentation modulator to improve animal performance. We conducted three experimental trials by increasing PKO levels in the diets of lambs. Although we observed low consumption of most nutrients, we also observed that feed conversion improved as the PKO inclusion level increased, indicating that the animals needed to consume less food to gain 1.0 kg of body weight. In addition, we observed that nutrient digestibility was not affected by the inclusion levels of PKO. We also did not observe differences in ruminal fermentation parameters but noted a reduction in the protozoan population. Therefore, we conclude that the inclusion of palm kernel oil may be beneficial to lambs and can lower the cost of feed in regions that contain an abundance of this byproduct. Abstract The aim of this study was to evaluate the effects of the inclusion of palm kernel oil (PKO) in a lamb diet on nutrient intake, digestibility, ingestive behavior, nitrogen balance, blood metabolites, rumen fermentation parameters, and animal performance. Three experimental trials were conducted. The treatments consisted of varying levels of PKO included in the diet, with PKOzero = no PKO inclusion, PKO1.3 = 1.3% addition, PKO2.6 = 2.6% addition, PKO3.9 = 3.9% addition, and PKO5.2 = 5.2% addition, based on the total dry matter (DM) of the diet. With the inclusion of PKO in the diet, linear decreases in DM (p < 0.001), crude ash (p < 0.001), crude protein (CP) (p < 0.001), neutral detergent fiber (NDF) (p < 0.001), nonfibrous carbohydrate (NFC) (p < 0.001), and total digestible nutrient (TDN) (p = 0.021) intake were observed, as was an increase in ether extract (EE) intake (p < 0.001). The digestibility coefficients of NDF and NFC were not affected by PKO addition to the diet. However, the digestibility of DM (p = 0.035), EE (p < 0.001), CP (p < 0.001), and TDNs (p < 0.001) increased when PKO was added to the lambs’ diet. Reductions in N intake (p < 0.001), fecal nitrogen excretion (p < 0.001), and microbial protein production (p < 0.001) were noted with increasing PKO levels. Serum cholesterol increased (p < 0.001) while serum GGT enzyme concentrations in the blood decreased (p = 0.048) with increasing PKO levels. PKO addition had no effect on total weight gain and average daily gain; however, feed conversion improved (p = 0.001) with increasing PKO levels. The intake, digestibility, ingestive behavior, and growth performance of lambs with PKO1.3 added to their diet were similar to animals that did not receive PKO, meaning that PKO could be an alternative energy source for growing lambs because it does not harm animal performance and can lower the cost of feed.
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Affiliation(s)
- Daniela Pionorio Vilaronga Castro
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Paulo Roberto Silveira Pimentel
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Jarbas Miguel da Silva Júnior
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Gercino Ferreira Virgínio Júnior
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Ederson Américo de Andrade
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Analívia Martins Barbosa
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Elzânia Sales Pereira
- Department of Animal Science, Federal University of Ceara, Fortaleza 60021970, CE, Brazil;
| | - Claudio Vaz Di Mambro Ribeiro
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
| | - Leilson Rocha Bezerra
- Department of Animal Science, Federal University of Campina Grande, Patos 58708110, PB, Brazil;
| | - Ronaldo Lopes Oliveira
- Department of Animal Science, Federal University of Bahia, Salvador 40170110, BA, Brazil; (D.P.V.C.); (P.R.S.P.); (J.M.d.S.J.); (G.F.V.J.); (E.A.d.A.); (A.M.B.); (C.V.D.M.R.)
- Correspondence:
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Sengupta K, Hivarkar SS, Palevich N, Chaudhary PP, Dhakephalkar PK, Dagar SS. Genomic architecture of three newly isolated unclassified Butyrivibrio species elucidate their potential role in the rumen ecosystem. Genomics 2022; 114:110281. [DOI: 10.1016/j.ygeno.2022.110281] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Accepted: 01/31/2022] [Indexed: 11/25/2022]
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Dineen M, McCarthy B, Dillon P, LaPierre PA, Fessenden S, Matthews C, Galvin N, Van Amburgh ME. Rumen metabolism, omasal flow of nutrients, and microbial dynamics in lactating dairy cows fed fresh perennial ryegrass (Lolium perenne L.) not supplemented or supplemented with rolled barley grain. J Dairy Sci 2020; 103:11332-11348. [PMID: 33069418 DOI: 10.3168/jds.2020-18437] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Accepted: 07/30/2020] [Indexed: 11/19/2022]
Abstract
The objective of this study was to evaluate the effect of rolled barley grain (RB) supplementation on rumen metabolism, omasal flow of nutrients, and microbial dynamics in lactating dairy cows fed fresh perennial ryegrass (Lolium perenne L.; PRG)-based diets. Ten ruminally cannulated Holstein cows averaging (mean ± standard deviation) 49 ± 23 d in milk and 513 ± 36 kg of body weight were assigned to 1 of 2 treatments in a switchback design. The treatment diets were PRG only (G) or PRG plus 3.5 kg of dry matter RB (G+RB). The study consisted of three 29-d periods where each period consisted of 21 d of diet adaptation and 8 d of data and sample collection. A double marker system was used to quantify nutrient flow entering the omasal canal along with labeled 15N-ammonium sulfate to measure bacterial, protozoal, and nonmicrobial N flow. Rumen evacuation techniques were used to determine nutrient and microbial pool size, allowing the calculation of fractional rates of digestion and microbial growth. There was no difference in daily milk yield or energy-corrected milk yield between treatments. Milk fat concentration and milk urea N decreased, whereas milk protein concentration increased in cows fed the G+RB diet. During the omasal sampling phase, dry matter intake was higher in cows fed the G+RB diet. Ruminal and total-tract neutral detergent fiber digestibility was lower in G+RB cows; however, no difference was observed in reticulorumen pH. The rumen pool size of fermentable carbohydrate was increased in cows fed the G+RB diet; however, the fractional rate of digestion was decreased. Flow of nonammonia N and bacterial N at the omasal canal increased in cows fed the G+RB diet compared with the G diet. Protozoa N flow was not different between diets; however, protozoa appeared to supply a much larger amount of microbial N and exhibited shorter generation time than previously considered. Feed N ruminal digestibility, corrected for microbial contribution, was similar for both treatments (88.4 and 89.0% for G and G+RB, respectively). In conclusion, RB supplementation did not benefit overall animal performance; however, it reduced ruminal neutral detergent fiber digestibility and increased bacterial N flow. The results demonstrate the large dependence of cows consuming PRG-based diets on microbial N as the main source of nonammonia N supply. Additional quantitative research is required to further describe the supply of nutrients and microbial dynamics in cows consuming PRG-based diets in an effort to determine most limiting nutrients.
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Affiliation(s)
- M Dineen
- Teagasc, Animal and Grassland Research and Innovation Centre, Moorepark, Fermoy, Co. Cork, Ireland P61 C996; Department of Animal Science, Cornell University, Ithaca, NY 14853
| | - B McCarthy
- Teagasc, Animal and Grassland Research and Innovation Centre, Moorepark, Fermoy, Co. Cork, Ireland P61 C996
| | - P Dillon
- Teagasc, Animal and Grassland Research and Innovation Centre, Moorepark, Fermoy, Co. Cork, Ireland P61 C996
| | - P A LaPierre
- Department of Animal Science, Cornell University, Ithaca, NY 14853
| | - S Fessenden
- Department of Animal Science, Cornell University, Ithaca, NY 14853
| | - C Matthews
- Teagasc, Moorepark Food Research Centre, Moorepark, Fermoy, Co. Cork, Ireland P61 C996
| | - N Galvin
- Teagasc, Animal and Grassland Research and Innovation Centre, Moorepark, Fermoy, Co. Cork, Ireland P61 C996
| | - M E Van Amburgh
- Department of Animal Science, Cornell University, Ithaca, NY 14853.
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Wang L, Abu-Doleh A, Plank J, Catalyurek UV, Firkins JL, Yu Z. The transcriptome of the rumen ciliate Entodinium caudatum reveals some of its metabolic features. BMC Genomics 2019; 20:1008. [PMID: 31864285 PMCID: PMC6925433 DOI: 10.1186/s12864-019-6382-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2019] [Accepted: 12/10/2019] [Indexed: 12/17/2022] Open
Abstract
Background Rumen ciliates play important roles in rumen function by digesting and fermenting feed and shaping the rumen microbiome. However, they remain poorly understood due to the lack of definitive direct evidence without influence by prokaryotes (including symbionts) in co-cultures or the rumen. In this study, we used RNA-Seq to characterize the transcriptome of Entodinium caudatum, the most predominant and representative rumen ciliate species. Results Of a large number of transcripts, > 12,000 were annotated to the curated genes in the NR, UniProt, and GO databases. Numerous CAZymes (including lysozyme and chitinase) and peptidases were represented in the transcriptome. This study revealed the ability of E. caudatum to depolymerize starch, hemicellulose, pectin, and the polysaccharides of the bacterial and fungal cell wall, and to degrade proteins. Many signaling pathways, including the ones that have been shown to function in E. caudatum, were represented by many transcripts. The transcriptome also revealed the expression of the genes involved in symbiosis, detoxification of reactive oxygen species, and the electron-transport chain. Overall, the transcriptomic evidence is consistent with some of the previous premises about E. caudatum. However, the identification of specific genes, such as those encoding lysozyme, peptidases, and other enzymes unique to rumen ciliates might be targeted to develop specific and effective inhibitors to improve nitrogen utilization efficiency by controlling the activity and growth of rumen ciliates. The transcriptomic data will also help the assembly and annotation in future genomic sequencing of E. caudatum. Conclusion As the first transcriptome of a single species of rumen ciliates ever sequenced, it provides direct evidence for the substrate spectrum, fermentation pathways, ability to respond to various biotic and abiotic stimuli, and other physiological and ecological features of E. caudatum. The presence and expression of the genes involved in the lysis and degradation of microbial cells highlight the dependence of E. caudatum on engulfment of other rumen microbes for its survival and growth. These genes may be explored in future research to develop targeted control of Entodinium species in the rumen. The transcriptome can also facilitate future genomic studies of E. caudatum and other related rumen ciliates.
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Affiliation(s)
- Lingling Wang
- Department of Animal Sciences, The Ohio State University, 2029 Fyffe Court, Columbus, OH, 43210, USA
| | - Anas Abu-Doleh
- Department of Biomedical Informatics, The Ohio State University, Columbus, OH, USA.,Department of Electrical and Computer Engineering, The Ohio State University, Columbus, OH, USA.,Current address: Department of Biomedical Systems and Informatics Engineering, Yarmouk University, Irbid, Jordan
| | - Johanna Plank
- Department of Animal Sciences, The Ohio State University, 2029 Fyffe Court, Columbus, OH, 43210, USA
| | - Umit V Catalyurek
- Department of Biomedical Informatics, The Ohio State University, Columbus, OH, USA.,Department of Electrical and Computer Engineering, The Ohio State University, Columbus, OH, USA.,Current address: School of Computational Science and Engineering, Georgia Institute of Technology, Atlanta, GA, USA
| | - Jeffrey L Firkins
- Department of Animal Sciences, The Ohio State University, 2029 Fyffe Court, Columbus, OH, 43210, USA
| | - Zhongtang Yu
- Department of Animal Sciences, The Ohio State University, 2029 Fyffe Court, Columbus, OH, 43210, USA.
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Relationship between rumen ciliate protozoa and biohydrogenation fatty acid profile in rumen and meat of lambs. PLoS One 2019; 14:e0221996. [PMID: 31490993 PMCID: PMC6730912 DOI: 10.1371/journal.pone.0221996] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Accepted: 08/19/2019] [Indexed: 01/08/2023] Open
Abstract
This study investigated the associations between abundance of rumen ciliate protozoa and the proportion of the main bioactive fatty acids related to rumen biohydrogenation, as 18:0, t10-18:1, t11-18:1, c9,t11-18:2, 18:3n-3 and 18:2 n-6, in rumen and meat of growing lambs, using data derived from 3 production experiments. A global correlation analysis and a linear regression analysis considering the effect of the experiment were performed. Ten of the 86 lambs involved in the experiments did not present ciliate cells in rumen liquor and the remaining lambs presented an average of 1.35 × 106ciliates / ml rumen liquor. From the nine genera of ciliates identified, Entodinium was the most abundant, averaging 1.17 × 106 cells / ml of rumen liquor. A large variation among lambs was observed for both rumen concentration and community structure of ciliates. Rumen t11-18:1 (P < 0.001) and meat deposition of t11-18:1 (P < 0.001) and of c9,t11-18:2 (P < 0.001) increased linearly with total ciliates, whereas the t10/t11 ratio in rumen (P = 0.002) and in meat (P = 0.036) decreased linearly. Entodiniomorphids seems to be strongly related with meat deposition oft11-18:1 and c9,t11-18:2 and with the reduction of the trans-10 shifted pathway. Completeness of RBH decreased linearly with Holotrichs (P = 0.029), Entodiniomorphids (P = 0.029), Isotricha (P = 0.011) and Epidinium (P = 0.027) abundances. Rumen 18:0 also decreased linearly with increasing counts of total ciliates (P = 0.015), Holotrichs (P = 0.020), Entodiniomorphids (P = 0.010) and Isotricha (P = 0.014). Rumen protozoa were positively linked with the deposition of healthy bioactive FA and simultaneously negatively associated with the occurrence of trans-10 shift.
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Roman-Garcia Y, Wenner B, Welty C, Wagner B, Plank J, Meller R, Waits S, Gehman A, Firkins J. Rumen microbial responses to supplemental nitrate. I. Yeast growth and protozoal chemotaxis in vitro as affected by nitrate and nitrite concentrations. J Dairy Sci 2019; 102:2207-2216. [DOI: 10.3168/jds.2018-15274] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Accepted: 11/27/2018] [Indexed: 11/19/2022]
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Wang M, Jing Y, Wang Y, Liu S, Gao J, Ouyang J, Vercoe P. Effects of unsaturation of long-chain fatty acids on rumen protozoal engulfment and microbial protein recycling in protozoa in vitro. ANIMAL PRODUCTION SCIENCE 2019. [DOI: 10.1071/an17093] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The present study investigated the effects of long-chain fatty acids with different degrees of unsaturation on rumen protozoal engulfment and microbial protein recycling by protozoa in vitro. The seven experimental treatments included stearic acid (C18:0, Group A), oleic acid (C18:1, n-9, Group B), linoleic acid (C18:2, n-6, Group C), α-linoleic acid (C18:3, n-3, Group D), arachidonic acid (C20:4, n-6, Group E), eicosapentaenoic acid (C20:5, n-3, Group F) and calcium palmitate (C16:0, control group, G), each being included at 3% (w/w) in the total culture substrate containing starch, xylan, araban, glucan, mannan, cellulose, pectin, lignin, urea and casein. Three goats fitted with rumen cannula were used to provide rumen fluid. The incubation medium was collected for the measurement of engulfing rate of bacteria by protozoa and microbial biomass after 24 h of in vitro incubation. The results showed that the bacterial density of Group D (5.75 × 109 cells/mL) was significantly higher than that of Groups A, B, E, F and G (P < 0.05), but that of the control (Group G) as well as those of Groups A and B were lower than those of Groups D and C (P < 0.05). Similarly, the bacterial protein was the highest in Group D and the lowest in Group G. The number of bacteria engulfed by protozoa per millilitre were the highest in the Control group G (847 × 105 cells/(mL.h)) and the lowest in Group D (392 × 105 cells/(mL.h)). The recycling rate of bacterial cells was lowest in Group D (0.68%) and the recycling time of bacterial cells was the longest (147 h). The quantity of protein recycled was lowest in Group D and highest in Group G, which derived from the number of bacterial cells engulfed. Therefore, it was concluded that the effects of long-chain fatty acids on rumen microbial protein recycling and microbial protein synthesis mainly relate to their degree of unsaturation, with α-linoleic acid possessing a better ability to suppress bacterial-cell (by protozoa) and reduce protein yield.
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Hartinger T, Gresner N, Südekum KH. Does intra-ruminal nitrogen recycling waste valuable resources? A review of major players and their manipulation. J Anim Sci Biotechnol 2018; 9:33. [PMID: 29721317 PMCID: PMC5911377 DOI: 10.1186/s40104-018-0249-x] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2017] [Accepted: 03/06/2018] [Indexed: 12/15/2022] Open
Abstract
Nitrogenous emissions from ruminant livestock production are of increasing public concern and, together with methane, contribute to environmental pollution. The main cause of nitrogen-(N)-containing emissions is the inadequate provision of N to ruminants, leading to an excess of ammonia in the rumen, which is subsequently excreted. Depending on the size and molecular structure, various bacterial, protozoal and fungal species are involved in the ruminal breakdown of nitrogenous compounds (NC). Decelerating ruminal NC degradation by controlling the abundance and activity of proteolytic and deaminating microorganisms, but without reducing cellulolytic processes, is a promising strategy to decrease N emissions along with increasing N utilization by ruminants. Different dietary options, including among others the treatment of feedstuffs with heat or the application of diverse feed additives, as well as vaccination against rumen microorganisms or their enzymes have been evaluated. Thereby, reduced productions of microbial metabolites, e.g. ammonia, and increased microbial N flows give evidence for an improved N retention. However, linkage between these findings and alterations in the rumen microbiota composition, particularly NC-degrading microbes, remains sparse and contradictory findings confound the exact evaluation of these manipulating strategies, thus emphasizing the need for comprehensive research. The demand for increased sustainability in ruminant livestock production requests to apply attention to microbial N utilization efficiency and this will require a better understanding of underlying metabolic processes as well as composition and interactions of ruminal NC-degrading microorganisms.
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Affiliation(s)
- Thomas Hartinger
- Institute of Animal Science, University of Bonn, 53115 Bonn, Germany
| | - Nina Gresner
- Institute of Animal Science, University of Bonn, 53115 Bonn, Germany
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Wenner B, Wagner B, Firkins J. Using video microscopy to improve quantitative estimates of protozoal motility and cell volume. J Dairy Sci 2018; 101:1060-1073. [DOI: 10.3168/jds.2017-13513] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Accepted: 09/28/2017] [Indexed: 11/19/2022]
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Ishaq SL, AlZahal O, Walker N, McBride B. An Investigation into Rumen Fungal and Protozoal Diversity in Three Rumen Fractions, during High-Fiber or Grain-Induced Sub-Acute Ruminal Acidosis Conditions, with or without Active Dry Yeast Supplementation. Front Microbiol 2017; 8:1943. [PMID: 29067009 PMCID: PMC5641310 DOI: 10.3389/fmicb.2017.01943] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2017] [Accepted: 09/21/2017] [Indexed: 01/08/2023] Open
Abstract
Sub-acute ruminal acidosis (SARA) is a gastrointestinal functional disorder in livestock characterized by low rumen pH, which reduces rumen function, microbial diversity, host performance, and host immune function. Dietary management is used to prevent SARA, often with yeast supplementation as a pH buffer. Almost nothing is known about the effect of SARA or yeast supplementation on ruminal protozoal and fungal diversity, despite their roles in fiber degradation. Dairy cows were switched from a high-fiber to high-grain diet abruptly to induce SARA, with and without active dry yeast (ADY, Saccharomyces cerevisiae) supplementation, and sampled from the rumen fluid, solids, and epimural fractions to determine microbial diversity using the protozoal 18S rRNA and the fungal ITS1 genes via Illumina MiSeq sequencing. Diet-induced SARA dramatically increased the number and abundance of rare fungal taxa, even in fluid fractions where total reads were very low, and reduced protozoal diversity. SARA selected for more lactic-acid utilizing taxa, and fewer fiber-degrading taxa. ADY treatment increased fungal richness (OTUs) but not diversity (Inverse Simpson, Shannon), but increased protozoal richness and diversity in some fractions. ADY treatment itself significantly (P < 0.05) affected the abundance of numerous fungal genera as seen in the high-fiber diet: Lewia, Neocallimastix, and Phoma were increased, while Alternaria, Candida Orpinomyces, and Piromyces spp. were decreased. Likewise, for protozoa, ADY itself increased Isotricha intestinalis but decreased Entodinium furca spp. Multivariate analyses showed diet type was most significant in driving diversity, followed by yeast treatment, for AMOVA, ANOSIM, and weighted UniFrac. Diet, ADY, and location were all significant factors for fungi (PERMANOVA, P = 0.0001, P = 0.0452, P = 0.0068, Monte Carlo correction, respectively, and location was a significant factor (P = 0.001, Monte Carlo correction) for protozoa. Diet-induced SARA shifts diversity of rumen fungi and protozoa and selects against fiber-degrading species. Supplementation with ADY mitigated this reduction in protozoa, presumptively by triggering microbial diversity shifts (as seen even in the high-fiber diet) that resulted in pH stabilization. ADY did not recover the initial community structure that was seen in pre-SARA conditions.
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Affiliation(s)
| | | | | | - Brian McBride
- Animal Biosciences, University of Guelph, Guelph, ON, Canada
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Enjalbert F, Combes S, Zened A, Meynadier A. Rumen microbiota and dietary fat: a mutual shaping. J Appl Microbiol 2017; 123:782-797. [DOI: 10.1111/jam.13501] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Revised: 05/17/2017] [Accepted: 05/22/2017] [Indexed: 01/01/2023]
Affiliation(s)
- F. Enjalbert
- GenPhySE; Université de Toulouse, INRA, INPT, ENVT; Castanet Tolosan France
| | - S. Combes
- GenPhySE; Université de Toulouse, INRA, INPT, ENVT; Castanet Tolosan France
| | - A. Zened
- GenPhySE; Université de Toulouse, INRA, INPT, ENVT; Castanet Tolosan France
| | - A. Meynadier
- GenPhySE; Université de Toulouse, INRA, INPT, ENVT; Castanet Tolosan France
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Miltko R, Bełżecki G, Herman A, Kowalik B, Skomiał J. The effect of rumen ciliates on chitinolytic activity, chitin content and the number of fungal zoospores in the rumen fluid of sheep. Arch Anim Nutr 2016; 70:425-40. [PMID: 27501267 DOI: 10.1080/1745039x.2016.1215695] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
The objective of this study was to investigate the effect of selected protozoa on the degradation and concentration of chitin and the numbers of fungal zoospores in the rumen fluid of sheep. Three adult ewes were fed a hay-concentrate diet, defaunated, then monofaunated with Entodinium caudatum or Diploplastron affine alone and refaunated with natural rumen fauna. The average density of the protozoa population varied from 6.1 · 10(4) (D. affine) to 42.2 · 10(4) cells/ml rumen fluid (natural rumen fauna). The inoculation of protozoa in the rumen of defaunated sheep increased the total activity of chitinolytic enzymes from 2.9 to 3.6 μmol N-acetylglucosamine/g dry matter (DM) of rumen fluid per min, the chitin concentration from 6.3 to 7.2 mg/g DM of rumen fluid and the number of fungal zoospores from 8.1 to 10.9 · 10(5) cells/ml rumen fluid. All examined indices showed diurnal variations. Ciliate population density was highest immediately prior to feeding and lowest at 4 h thereafter. The opposite effects were observed for the numbers of fungal zoospores, the chitin concentration and chitinolytic activity. Furthermore, it was found that chitin from zoospores may account for up to 95% of total microbial chitin in the rumen fluid of sheep. In summary, the examined ciliate species showed the ability of chitin degradation as well as a positive influence on the development of the ruminal fungal population.
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Affiliation(s)
- Renata Miltko
- a The Kielanowski Institute of Animal Physiology and Nutrition , Polish Academy of Sciences , Jabłonna , Poland
| | - Grzegorz Bełżecki
- a The Kielanowski Institute of Animal Physiology and Nutrition , Polish Academy of Sciences , Jabłonna , Poland
| | - Andrzej Herman
- a The Kielanowski Institute of Animal Physiology and Nutrition , Polish Academy of Sciences , Jabłonna , Poland
| | - Barbara Kowalik
- a The Kielanowski Institute of Animal Physiology and Nutrition , Polish Academy of Sciences , Jabłonna , Poland
| | - Jacek Skomiał
- a The Kielanowski Institute of Animal Physiology and Nutrition , Polish Academy of Sciences , Jabłonna , Poland
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Accumulation of reserve carbohydrate by rumen protozoa and bacteria in competition for glucose. Appl Environ Microbiol 2014; 81:1832-8. [PMID: 25548053 DOI: 10.1128/aem.03736-14] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The aim of this study was to determine if rumen protozoa could form large amounts of reserve carbohydrate compared to the amounts formed by bacteria when competing for glucose in batch cultures. We separated large protozoa and small bacteria from rumen fluid by filtration and centrifugation, recombined equal protein masses of each group into one mixture, and subsequently harvested (reseparated) these groups at intervals after glucose dosing. This method allowed us to monitor reserve carbohydrate accumulation of protozoa and bacteria individually. When mixtures were dosed with a moderate concentration of glucose (4.62 or 5 mM) (n = 2 each), protozoa accumulated large amounts of reserve carbohydrate; 58.7% (standard error of the mean [SEM], 2.2%) glucose carbon was recovered from protozoal reserve carbohydrate at time of peak reserve carbohydrate concentrations. Only 1.7% (SEM, 2.2%) was recovered in bacterial reserve carbohydrate, which was less than that for protozoa (P < 0.001). When provided a high concentration of glucose (20 mM) (n = 4 each), 24.1% (SEM, 2.2%) of glucose carbon was recovered from protozoal reserve carbohydrate, which was still higher (P = 0.001) than the 5.0% (SEM, 2.2%) glucose carbon recovered from bacterial reserve carbohydrate. Our novel competition experiments directly demonstrate that mixed protozoa can sequester sugar away from bacteria by accumulating reserve carbohydrate, giving protozoa a competitive advantage and stabilizing fermentation in the rumen. Similar experiments could be used to investigate the importance of starch sequestration.
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Galicia-Jiménez MM, Rojas-Herrera R, Sandoval-Castro C, Murialdo SE, Magaña-Sevilla H. Chemotactic responses of the rumen bacterial community towards the daidzein flavonoid. Livest Sci 2014. [DOI: 10.1016/j.livsci.2014.05.022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Diaz HL, Barr KN, Godden KR, Plank JE, Zapata I, Schappacher AN, Wick MP, Firkins JL. Eukaryotic inhibitors or activators elicit responses to chemosensory compounds by ruminal isotrichid and entodiniomorphid protozoa. J Dairy Sci 2014; 97:2254-69. [PMID: 24534498 DOI: 10.3168/jds.2013-7698] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2013] [Accepted: 01/07/2014] [Indexed: 11/19/2022]
Abstract
Our objectives were to evaluate potential signaling pathways regulating rumen protozoal chemotaxis using eukaryotic inhibitors potentially coordinated with phagocytosis as assessed by fluorescent bead uptake kinetics. Wortmannin (inhibitor of phosphoinositide 3-kinase), insulin, genistein (purported inhibitor of a receptor tyrosine kinase), U73122 (inhibitor of phospholipase C), and sodium nitroprusside (Snp, nitric oxide generator, activating protein kinase G) were preincubated with mixed ruminal protozoa for 3h before assessing uptake of fluorescent beads and chemosensory behavior to glucose, peptides, and their combination; peptides were also combined with guanosine triphosphate (GTP; a chemorepellent). Entodiniomorphids were chemoattracted to both glucose and peptides, but chemoattraction to glucose was increased by Snp and wortmannin without effect on chemoattraction to peptides. Rate of fluorescent bead uptake by an Entodinium caudatum culture decreased when beads were added simultaneously with feeding and incubated with wortmannin (statistical interaction). Wortmannin also decreased the proportion of mixed entodiniomorphids consuming beads. Isotrichid protozoa exhibited greater chemotaxis to glucose but, compared with entodiniomorphids, were chemorepelled to peptides. Wortmannin increased chemotaxis by entodiniomorphids but decreased chemotaxis to glucose by isotrichids. Motility assays documented that Snp and wortmannin decreased net swimming speed (distance among 2 points per second) but not total swimming speed (including turns) by entodiniomorphids. Wortmannin decreased both net and total swimming behavior in isotrichids. Results mechanistically explain the isotrichid migratory ecology to rapidly take up newly ingested sugars and subsequent sedimentation back to the ventral reticulorumen. In contrast, entodiniomorphids apparently integrate cellular motility with feeding behavior to consume small particulates and thereby stay associated and pass with the degradable fraction of rumen particulates. These results extend findings from aerobic ciliate models to explain how rumen protozoa have adapted physiology for their specific ecological niches.
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Affiliation(s)
- H L Diaz
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - K N Barr
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - K R Godden
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - J E Plank
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - I Zapata
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - A N Schappacher
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - M P Wick
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - J L Firkins
- Department of Animal Sciences, The Ohio State University, Columbus 43210.
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Diaz HL, Knapp JR, Karnati SKR, Dehority BA, Firkins JL. Effects of wortmannin, sodium nitroprusside, insulin, genistein, and guanosine triphosphate on chemotaxis and cell growth of Entodinium caudatum, Epidinium caudatum, and mixed ruminal protozoa. J Dairy Sci 2014; 97:2244-53. [PMID: 24534506 DOI: 10.3168/jds.2013-7429] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2013] [Accepted: 01/07/2014] [Indexed: 11/19/2022]
Abstract
The mechanisms by which ruminal protozoa sense and migrate toward nutrients are not fully understood. Chemotaxis by many diverse eukaryotic cells is mediated by phosphatidylinositol-3-kinase, which is highly conserved in receptor tyrosine kinase (RTK) signaling pathways and consistently inhibited by wortmannin. In experiment 1a, increasing the concentration of wortmannin inhibited cell growth nonlinearly at 24h of a culture of the rumen protozoan Entodinium caudatum, but high variability prevented growth inhibition of Epidinium caudatum from reaching significance. In experiment 1b, increasing the insulin concentration recovered 24-h cell counts for both cultures, depending on wortmannin concentration. In experiment 2, addition of sodium nitroprusside (Snp; activator of protein kinase G for cilial beat reversal in nonrumen ciliate models) at 500µM or wortmannin at 200µM in beakers containing rumen fluid decreased random swimming by mixed entodiniomorphids into capillary tubes (inserted into beakers) containing saline. Both Snp and wortmannin increased chemotaxis into tubes containing glucose compared with the beaker control. For isotrichids, beaker treatments had no response. Glucose increased chemotaxis, but peptides decreased chemotaxis even when combined with glucose. In experiment 3, we assessed preincubation of genistein (a purported RTK blocker in nonrumen ciliate models) at 40 or 400µM in beakers and guanosine triphosphate (GTP; a universal chemorepellent in nonrumen ciliate models, perhaps mediated through an RTK) at 10 or 100µM combined with glucose in capillary tubes. Neither genistein nor GTP affected chemotaxis toward glucose for entodiniomorphids. However, GTP at 100µM reduced chemotaxis toward glucose for isotrichids. After the animal is fed, isotrichids that are depleted in glycogen migrate to the dorsal area of the rumen, and the rapid uptake of sugars is enhanced through strong chemotaxis but can be reversed by peptides or GTP. In contrast, entodiniomorphids are less intensely chemoattracted to glucose than isotrichids but are chemoattracted to peptides. Entodiniomorphids' chemoattraction appears to be integrated with slower but prolonged availability of energy from digesting starch and fiber.
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Affiliation(s)
- H L Diaz
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - J R Knapp
- Fox Hollow Consulting LLC, Columbus, OH 43201
| | - S K R Karnati
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - B A Dehority
- Department of Animal Sciences, The Ohio State University, Columbus 43210
| | - J L Firkins
- Department of Animal Sciences, The Ohio State University, Columbus 43210.
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