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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » Animal Genomics and Improvement Laboratory » People & Locations » Congjun Li (Cj)
Congjun Li (Cj)
Animal Genomics and Improvement Laboratory
Molecular Biologist

Phone: (301) 504-7216
Fax: (301) 504-8414

(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)

Projects
Improving Dairy Cow Feed Efficiency and Environmental Sustainability Using Genomics and Novel Technologies to Identify Physiological Contributions and Adaptations
In-House Appropriated (D)
  Accession Number: 442582

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Transcriptomic data reveals MYC as an upstream regulator in laying hen follicular recruitment Reprint Icon - (Peer Reviewed Journal)
Kramer, A.E., Ellwood, K., Guarina, N., Li, C., Dutta, A. 2024. Transcriptomic data reveals MYC as an upstream regulator in laying hen follicular recruitment. Poultry Science. https://doi.org/10.1016/j.psj.2024.104547.
Integrative analysis of whole genome bisulfite and transcriptome sequencing reveals the effect of sodium butyrate on DNA methylation in the differentiation of bovine skeletal muscle satellite cells Reprint Icon - (Peer Reviewed Journal)
Wang, X., Zhou, X., Li, C., Qu, C., Shi, Y., Li, C., Kang, X. 2024. Integrative analysis of whole genome bisulfite and transcriptome sequencing reveals the effect of sodium butyrate on DNA methylation in the differentiation of bovine skeletal muscle satellite cells. Genomics. 116(6):110959. https://doi.org/10.1016/j.ygeno.2024.110959.
Effects of rumen metabolite butyric acid on bovine skeletal muscle satellite cells proliferation, apoptosis, and transcriptional states during myogenic differentiation Reprint Icon - (Peer Reviewed Journal)
Wang, X., Ding, Y., Li, C., Ma, Q., Shi, Y., Liu, G., Li, C., Kang, X. 2024. Effects of rumen metabolite butyric acid on bovine skeletal muscle satellite cells proliferation, apoptosis, and transcriptional states during myogenic differentiation. Domestic Animal Endocrinology. https://doi.org/10.1016/j.domaniend.2024.106892.
Transcriptomic profiling of gastrointestinal tracts in dairy cattle during lactation reveals molecular adaptations for milk synthesis Reprint Icon - (Peer Reviewed Journal)
Gao, Y., Liu, G., Ma, L., Fang, L., Li, C., Baldwin, R.L. 2024. Transcriptomic profiling of gastrointestinal tracts in dairy cattle during lactation reveals molecular adaptations for milk synthesis. Journal of Advanced Research. https://doi.org/10.1016/j.jare.2024.06.020.
Unraveling the genetic basis of feed efficiency in cattle through integrated DNA methylation and CattleGTEx analysis Reprint Icon - (Peer Reviewed Journal)
Hu, Z., Boschiero, C., Li, C., Connor, E.E., Baldwin, R.L., Liu, G. 2023. Unraveling the genetic basis of feed efficiency in cattle through integrated DNA methylation and CattleGTEx analysis. Genes. 14(12):2121. https://doi.org/10.3390/genes14122121.
A compendium of genetic regulatory effects across pig tissues Reprint Icon - (Peer Reviewed Journal)
Teng, J., Gao, Y., Yin, H., Bai, Z., Liu, S., Zeng, H., Consortium, T., Bai, L., Cai, Z., Zhao, B., Li, X., Xu, Z., Lin, Q., Pan, Z., Yang, W., Yu, X., Guan, D., Hou, Y., Keel-Mercer, B.N., Rohrer, G.A., Lindholm-Perry, A.K., Oliver, W.T., Ballester, M., Crespo, D., Quintanilla, R., Canela-Xandri, O., Rawlik, K., Xia, C., Yao, Y., Zhao, Q., Yao, W., Yang, L., Li, H., Zhang, H., Liao, W., Chen, T., Karlskov-Mortensen, P., Fredholm, M., Amills Eras, M., Clop, A., Giuffra, E., Wu, J., Cai, X., Diao, S., Pan, X., Wei, C., Li, J., Cheng, H., Wang, S., Su, G., Sahana, G., Lund, M., Dekkers, J., Kramer, L., Tuggle, C.K., Corbett, R., Groenen, M.A., Madsen, O., Godia, M., Rocha, D., Li, C., Pausch, H., Hu, X., Frantz, L., Luo, Y., Lin, L., Zhou, Z., Zhang, Z., Chen, Z., Cui, L., Xiang, R., Shen, X., Li, P., Huang, R., Tang, G., Li, M., Zhao, Y., Yi, G., Tang, Z., Jiang, J., Zhao, F., Yuan, X., Liu, X., Chen, Y., Xu, X., Zhao, S., Zhao, P., Haley, C., Zhou, H., Wang, Q., Pan, Y., Ding, X., Ma, L., Li, J., Navarro, P., Zhang, Q., Li, B., Tenesa, A., Liu, G. 2024. A compendium of genetic regulatory effects across pig tissues. Nature Genetics. 56:112-123. https://doi.org/10.1038/s41588-023-01585-7.
Sodium butyrate induces mitophagy and apoptosis of bovine skeletal muscle satellite cells through the mammalian target of rapamycin signaling pathway Reprint Icon - (Peer Reviewed Journal)
Ding, Y., Wang, P., Zhang, Y., Yang, C., Zhou, X., Wang, X., Li, C., Su, Z., Ming, W., Zeng, L., Shi, Y., Li, C., Kang, X. 2023. Sodium butyrate induces mitophagy and apoptosis of bovine skeletal muscle satellite cells through the mammalian target of rapamycin signaling pathway. International Journal of Molecular Sciences. 24:13474. https://doi.org/10.3390/ijms241713474.
Genome-wide acetylation modification of H3K27ac in bovine rumen cell following butyrate exposure Reprint Icon - (Peer Reviewed Journal)
Kang, X., Li, C., Liu, S., Baldwin, R.L., Liu, G., Li, C.-J. 2023. Genome-wide acetylation modification of H3K27ac in bovine rumen cell following butyrate exposure. Biomolecules. 13(7):1137. https://doi.org/10.3390/biom13071137.
The single-cell transcriptome and chromatin accessibility datasets of peripheral blood mononuclear cells in Chinese Holstein cattle Reprint Icon - (Peer Reviewed Journal)
Wang, X., Gao, Y., Li, C., Fang, L., Liu, G., Zhao, X., Zhang, Y., Cai, G., Xue, G., Liu, Y., Wang, L., Zhang, F., Wang, K., Zhang, M., Li, R., Gao, Y., Li, J. 2023. The single-cell transcriptome and chromatin accessibility datasets of peripheral blood mononuclear cells in Chinese Holstein cattle. BMC Genomic Data. 24:39. https://doi.org/10.1186/s12863-023-01139-0.
Butyrate induces modifications of the CTCF-binding landscape in cattle cells Reprint Icon - (Peer Reviewed Journal)
Boschiero, C., Gao, Y., Baldwin, R.L., Ma, L., Li, C., Liu, G. 2022. Butyrate induces modifications of the CTCF-binding landscape in cattle cells. Biomolecules. 12(9):1177. https://doi.org/10.3390/biom12091177.
Differentially CTCF-binding sites in cattle rumen tissue during weaning Reprint Icon - (Peer Reviewed Journal)
Boschiero, C., Gao, Y., Baldwin, R.L., Ma, L., Li, C., Liu, G. 2022. Differentially CTCF-binding sites in cattle rumen tissue during weaning. International Journal of Molecular Sciences. 23(16):9070. https://doi.org/10.3390/ijms23169070.
Comparative transcriptome in large-scale human and cattle populations Reprint Icon - (Peer Reviewed Journal)
Yao, Y., Liu, S., Xia, C., Gao, Y., Pan, Z., Canela-Xandri, O., Khamesh, A., Rawlik, K., Wang, S., Li, B., Zhang, Y., Pairo-Castineira, E., D'Mellow, K., Li, X., Yan, Z., Li, C., Yu, Y., Zhang, S., Ma, L., Cole, J.B., Ross, P.J., Zhou, H., Haley, C., Liu, G., Fang, L., Tenesa, A. 2022. Comparative transcriptome in large-scale human and cattle populations. Genome Biology. 23:176. https://doi.org/10.1186/s13059-022-02745-4.
Investigation of rumen long noncoding RNA before and after weaning in cattle Reprint Icon - (Peer Reviewed Journal)
Marceau, A., Gao, Y., Baldwin, R.L., Li, C., Jiang, J., Ma, L., Liu, G. 2022. Investigation of rumen long noncoding RNA before and after weaning in cattle. BMC Genomics. 23:531. https://doi.org/10.1186/s12864-022-08758-4.
A multi-tissue atlas of regulatory variants in cattle Reprint Icon - (Peer Reviewed Journal)
Liu, S., Gao, Y., Canela-Xandri, O., Wang, S., Yu, Y., Cai, W., Li, B., Pairo-Castineira, E., D'Mellow, K., Rawlik, K., Xia, C., Yao, Y., Li, X., Yan, Z., Li, C., Rosen, B.D., Van Tassell, C.P., Van Raden, P.M., Zhang, S., Ma, L., Cole, J.B., Liu, G., Tenesa, A., Fang, L. 2022. A multi-tissue atlas of regulatory variants in cattle. Nature Genetics. 54(9):1438-1447. https://doi.org/10.1038/s41588-022-01153-5.
The dynamics of chromatin accessibility prompted by butyrate-induced chromatin modification in bovine cells Reprint Icon - (Peer Reviewed Journal)
Boschiero, C., Gao, Y., Liu, M., Baldwin, R.L., Ma, L., Li, C., Liu, G. 2022. The dynamics of chromatin accessibility prompted by butyrate-induced chromatin modification in bovine cells. Ruminants. 2(2):226-243. https://doi.org/10.3390/ruminants2020015.
Single-cell transcriptomic and chromatin accessibility analyses of dairy cattle peripheral blood mononuclear cells and their responses to lipopolysaccharide Reprint Icon - (Peer Reviewed Journal)
Gao, Y., Li, J., Cai, G., Wang, Y., Yang, W., Li, Y., Zhao, X., Li, R., Gao, Y., Tuo, W., Baldwin, R.L., Li, C., Fang, L., Liu, G.E. 2022. Single-cell transcriptomic and chromatin accessibility analyses of dairy cattle peripheral blood mononuclear cells and their responses to lipopolysaccharide. BMC Genomics. 23:338. https://doi.org/10.1186/s12864-022-08562-0.
Characterization of accessible chromatin regions in cattle rumen epithelial tissue during weaning Reprint Icon - (Peer Reviewed Journal)
Boschiero, C., Gao, Y., Baldwin, R.L., Ma, L., Liu, G.E., Li, C.-J. 2022. Characterization of accessible chromatin regions in cattle rumen epithelial tissue during weaning. Genes. 13:535. https://doi.org/10.3390/genes13030535.
Functional annotation of regulatory elements in cattle genome reveals the roles of extracellular interaction and dynamic change of chromatin states in rumen development during weaning Reprint Icon - (Peer Reviewed Journal)
Gao, Y., Liu, S., Baldwin, R.L., Connor, E.E., Cole, J.B., Ma, L., Fang, L., Li, C., Liu, G. 2022. Functional annotation of regulatory elements in cattle genome reveals the roles of extracellular interaction and dynamic change of chromatin states in rumen development during weaning. Genomics. 114:110296. https://doi.org/10.1016/j.ygeno.2022.110296.
Differential responses of abomasal transcriptome to Haemonchus contortus infection between Haemonchus-selected and Trichostrongylus-selected merino sheep Reprint Icon - (Peer Reviewed Journal)
Liu, J., Zhou, J., Zhao, S., Xu, X., Li, C., Li, L., Shen, T., Hunt, P.W., Zhang, R. 2022. Differential responses of abomasal transcriptome to Haemonchus contortus infection between Haemonchus-selected and Trichostrongylus-selected merino sheep. Parasitology International. 87:102539. https://doi.org/10.1016/j.parint.2022.102539.
Genome-wide recombination map construction from single sperm sequencing in cattle Reprint Icon - (Peer Reviewed Journal)
Yang, L., Gao, Y., Li, M., Park, K., Liu, S., Kang, X., Liu, M., Oswalt, A., Fang, L., Telugu, B.P., Sattler, C.G., Cole, J.B., Seroussi, E., Xu, L., Li, C., Li, L., Zhang, H., Rosen, B.D., Van Tassell, C.P., Ma, L., Liu, G. 2022. Genome-wide recombination map construction from single sperm sequencing in cattle. BMC Genomics. 23(1):181. https://doi.org/10.1186/s12864-022-08415-w.
Towards the detection of copy number variation from single sperm sequencing in cattle Reprint Icon - (Peer Reviewed Journal)
Yang, L., Gao, Y., Oswalt, A., Fang, L., Boschiero, C., Neupane, M., Sattler, C.G., Seroussi, E., Xu, L., Li, C., Li, L., Zhang, H., Rosen, B.D., Van Tassell, C.P., Ma, L., Liu, G. 2022. Towards the detection of copy number variation from single sperm sequencing in cattle. BMC Genomics. 23(1):215. https://doi.org/10.1186/s12864-022-08441-8.
Transcriptional reprogramming in rumen epithelium during the developmental transition of pre-ruminant to the ruminant in cattle Reprint Icon - (Peer Reviewed Journal)
Baldwin, R.L., Liu, M., Connor, E.E., Ramsay, T.G., Liu, G., Li, C. 2021. Transcriptional reprogramming in rumen epithelium during the developmental transition of pre-ruminant to the ruminant in cattle. Animals. 11(10):2870. https://doi.org/10.3390/ani11102870.
Comprehensive transcriptome and methylome analysis delineates the biological basis of hair follicle development and wool-related traits in Merino sheep Reprint Icon - (Peer Reviewed Journal)
Zhao, B., Luo, H., He, J., Huang, X., Chen, S., Fu, X., Zeng, W., Li, C., Liu, G., Fang, L., Zhang, S., Tian, K. 2021. Comprehensive transcriptome and methylome analysis delineates the biological basis of hair follicle development and wool-related traits in Merino sheep. BMC Biology. 19:197. https://doi.org/10.1186/s12915-021-01127-9.
Single-cell transcriptomic analyses of cattle ruminal epithelial cells before and after weaning Reprint Icon - (Peer Reviewed Journal)
Gao, Y., Fang, L., Baldwin, R.L., Connor, E.E., Cole, J.B., Van Tassell, C.P., Ma, L., Li, C., Liu, G. 2021. Single-cell transcriptomic analyses of cattle ruminal epithelial cells before and after weaning. Genomics. 113(4):2045-2055. https://doi.org/10.1016/j.ygeno.2021.04.039.
A comprehensive catalogue of regulatory variants in the cattle transcriptome - (Abstract Only)
Liu, S., Gao, Y., Canela-Xandri, O., Wang, S., Yu, Y., Cai, W., Li, B., Pairo-Castineira, E., D'Mellow, K., Rawlik, K., Xia, C., Yao, Y., Li, X., Yan, Z., Li, C., Rosen, B.D., Van Tassell, C.P., Van Raden, P.M., Zhang, S., Ma, L., Cole, J.B., Liu, G., Tenesa, A., Fang, L. 2021. A comprehensive catalogue of regulatory variants in the cattle transcriptome [abstract]. Journal of Dairy Science. 104(Suppl. 1):121(abstr. 307).
Synthetic alkaloid treatment influences the intestinal epithelium and mesenteric adipose transcriptome in Holstein steers Reprint Icon - (Peer Reviewed Journal)
McLean, K.J., Baldwin, R.L., Li, C., Klotz, J.L., Edwards, J.L., McLeod, K.R. 2020. Synthetic alkaloid treatment influences the intestinal epithelium and mesenteric adipose transcriptome in Holstein steers. Frontiers in Veterinary Science. 7. Article 615. https://doi.org/10.3389/fvets.2020.00615.
Establishment and transcriptomic analyses of a cattle rumen epithelial primary cells (REPC) culture by bulk and single-cell RNA sequencing to elucidate interactions of butyrate and rumen development Reprint Icon - (Peer Reviewed Journal)
Lin, S., Fang, L., Kang, X., Liu, S., Liu, M., Connor, E.E., Baldwin, R.L., Liu, G., Li, C. 2020. Establishment and transcriptomic analyses of a cattle rumen epithelial primary cells (REPC) culture by bulk and single-cell RNA sequencing to elucidate interactions of butyrate and rumen development. Heliyon. 6(6):e041123. https://doi.org/10.1016/j.heliyon.2020.e04112.
Comparative whole genome DNA methylation profiling of cattle tissues reveals global and tissue-specific methylation patterns Reprint Icon - (Peer Reviewed Journal)
Zhou, Y., Liu, S., Hu, Y., Fang, L., Gao, Y., Xia, H., Schroeder, S.G., Rosen, B.D., Connor, E.E., Li, C., Baldwin, R.L., Cole, J.B., Van Tassell, C.P., Yang, L., Ma, L., Liu, G. 2020. Comparative whole genome DNA methylation profiling of cattle tissues reveals global and tissue-specific methylation patterns. BMC Biology. 18(1):85. https://doi.org/10.1186/s12915-020-00793-5.
Comprehensive analyses of 723 transcriptomes enhance biological interpretation and genomic prediction for complex traits in cattle Reprint Icon - (Peer Reviewed Journal)
Fang, L., Cai, W., Liu, S., Canela-Xandri, O., Gao, Y., Jiang, J., Rawlik, K., Li, B., Schroeder, S.G., Rosen, B.D., Li, C., Sonstegard, T.S., Alexander, L.J., Van Tassell, C.P., Van Raden, P.M., Cole, J.B., Yu, Y., Zhang, S., Tenesa, A., Ma, L., Liu, G. 2019. Comprehensive analyses of 723 transcriptomes enhance biological interpretation and genomic prediction for complex traits in cattle. Genome Research. 30(5):790-801. https://doi.org/10.1101/gr.250704.119.
Epigenomic profiling of histone marks and CTCF binding sites in bovine rumen epithelial primary cells before and after butyrate treatment Reprint Icon - (Peer Reviewed Journal)
Kang, X., Liu, S., Fang, L., Lin, S., Liu, M., Baldwin, R.L., Liu, G., Li, C. 2020. Epigenomic profiling of histone marks and CTCF binding sites in bovine rumen epithelial primary cells before and after butyrate treatment. Data in Brief. 28:104983. https://doi.org/10.1016/j.dib.2019.104983.
Analyses of inter-individual variations in sperm DNA methylation reveal their regulatory role in gene expression and association with reproduction traits in cattle Reprint Icon - (Peer Reviewed Journal)
Liu, S., Fang, L., Zhou, Y., Santos, D.J.A., Xiang, R., Daetwyler, H.D., Chamberlain, A.J., Cole, J.B., Li, C., Yu, Y., Ma, L., Zhang, S., Liu, G. 2019. Analyses of inter-individual variations in sperm DNA methylation reveal their regulatory role in gene expression and association with reproduction traits in cattle. BMC Genomics. 20:888. https://doi.org/10.1186/s12864-019-6228-6.
Functional annotation of the cattle genome through systematic discovery and characterization of chromatin states and butyrate-induced variations Reprint Icon - (Peer Reviewed Journal)
Fang, L., Liu, S., Liu, M., Kang, X., Lin, S., Li, B., Connor, E.E., Baldwin, R.L., Tenesa, A., Ma, L., Liu, G., Li, C. 2019. Functional annotation of the cattle genome through systematic discovery and characterization of chromatin states and butyrate-induced variations. BMC Biology. 17(1):68. https://doi.org/10.1186/s12915-019-0687-8.
Transcriptomic profiling of duodenal epithelium reveals temporally dynamic impacts of direct duodenal starch-infusion during dry period of dairy cattle Reprint Icon - (Peer Reviewed Journal)
Li, C., Lin, S., Ranilla-Garcia, M.J., Baldwin, R.L. 2019. Transcriptomic profiling of duodenal epithelium reveals temporally dynamic impacts of direct duodenal starch-infusion during dry period of dairy cattle. Frontiers in Veterinary Science. 6:214. https://doi.org/10.3389/fvets.2019.00214.
Identification of a novel antisense RNA GHR-AS that regulates the expression of GHR in chichen Reprint Icon - (Peer Reviewed Journal)
Lin, S., Zhang, Z., Xie, T., Hu, B., Ruan, Z., Zhang, L., Li, C., Li, C.C., Nie, Q., Zhang, X. 2019. Identification of a novel antisense RNA GHR-AS that regulates the expression of GHR in chichen. RNA Biology. 14:1-13. https://doi.org/10.1080/15476286.2019.1572440.
Transcriptome analysis unraveled potential mechanisms of resistance to Haemonchus contortus infection in Merino sheep populations bred for parasite resistance Reprint Icon - (Peer Reviewed Journal)
Zhang, R., Liu, F., Hunt, P., Li, C., Zhang, L., Ingham, A., Li, R.W. 2019. Transcriptome analysis unraveled potential mechanisms of resistance to Haemonchus contortus infection in Merino sheep populations bred for parasite resistance. Veterinary Research. 50:7. https://doi.org/10.1186/s13567-019-0622-6.
Temporal dynamics in meta longitudinal RNA-Seq data Reprint Icon - (Peer Reviewed Journal)
Oh, S., Li, C., Baldwin, R.L., Song, S., Liu, F., Li, R.W. 2019. Temporal dynamics in meta longitudinal RNA-Seq data. Scientific Reports. 9(1):763. https://doi.org/10.1038/s41598-018-37397-7.
Epigenetics and heritable phenotypic variations in livestock Reprint Icon - (Book / Chapter)
Lin, S., Fang, L., Li, C., Liu, G. 2019. Epigenetics and heritable phenotypic variations in livestock. In: Tollefsbol T. (editor). Transgenerational Epigenetics. 2nd edition. Amsterdam, Netherlands: Elsevier, p. 283-313
Global transcriptome analysis during adipogenic differentiation and involvement of Transthyretin gene in adipogenesis in cattle Reprint Icon - (Peer Reviewed Journal)
Cai, H., Li, M., Sun, X., Plath, M., Li, C., Lan, X., Lei, C., Huang, Y., Bai, Y., Qi, X., Lin, F., Chen, H. 2018. Global transcriptome analysis during adipogenic differentiation and involvement of Transthyretin gene in adipogenesis in cattle. Frontiers in Genetics. 9:463. https://doi.org/10.3389/fgene.2018.00463.
Integrative analysis of transcriptome and epigenome data enhances the understanding of the genetic basis underlying rumen development - (Abstract Only)
Transcriptomic impacts of rumen epithelium induced by butyrate infusion in dairy cattle in dry period - (Abstract Only)
Effect of consuming endophyte-infected fescue seed on transcript abundance in the mammary gland of lactating and dry cows, as assessed by RNA sequencing Reprint Icon - (Peer Reviewed Journal)
Capuco, A.V., Bickhart, D.M., Li, C., Clover, C.M., Choudhary, R., Grossi, P., Bertoni, G., Trevisi, E., Aiken, G.E., Mcleod, K.R., Baldwin, R.L. 2018. Effect of consuming endophyte-infected fescue seed on transcript abundance in the mammary gland of lactating and dry cows, as assessed by RNA sequencing. Journal of Dairy Science. 101(11):10478–10494. https://doi.org/10.3168/jds.2018-14735.
Assembly and analysis of changes in transcriptomes of dairy cattle rumen epithelial during lactation and dry periods Reprint Icon - (Peer Reviewed Journal)
Baldwin, R.L., Li, C., Li, R.W. 2018. Assembly and analysis of changes in transcriptomes of dairy cattle rumen epithelial during lactation and dry periods. Agricultural Sciences. 9:619-638. https://doi.org/10.4236/as.2018.95043.
Growth hormone receptor mutations related to individual dwarfism Reprint Icon - (Review Article)
Lin, S., Li, C., Li, C.Z., Zhang, X. 2018. Growth hormone receptor mutations related to individual dwarfism. International Journal of Molecular Sciences. 19(5):1433. https://doi.org/10.3390/ijms19051433.
Profiling of transcriptome responses of the intestinal epithelium to starch hydrolysate direct infusion using RNA-seq technology Reprint Icon - (Abstract Only)
Li, C., Baldwin, R.L. 2018. Profiling of transcriptome responses of the intestinal epithelium to starch hydrolysate direct infusion using RNA-seq technology. Journal of Animal Science. 96(Suppl_3):425. https://doi.org/10.1093/jas/sky404.931.
Transcriptomic impacts of rumen epithelium induced by butyrate infusion in dairy cattle in dry period Reprint Icon - (Peer Reviewed Journal)
Baldwin, R.L., Li, R.W., Jia, Y., Li, C. 2018. Transcriptomic impacts of rumen epithelium induced by butyrate infusion in dairy cattle in dry period. Gene Regulation and Systems Biology. 12:1–11. https://doi.org/10.1177/1177625018774798.
Comparative whole genome DNA methylation profiling of cattle sperm and somatic tissues reveals striking hypomethylated patterns in sperm Reprint Icon - (Peer Reviewed Journal)
Zhou, Y., Connor, E.E., Bickhart, D.M., Li, C., Baldwin, R.L., Schroeder, S.G., Rosen, B.D., Yang, L., Van Tassell, C.P., Liu, G. 2018. Comparative whole genome DNA methylation profiling of cattle sperm and somatic tissues reveals striking hypomethylated patterns in sperm. Gigascience. 7(5):1-13. https://doi.org/10.1093/gigascience/giy039.
Genome-wide sequencing and comparative profiling of cattle sperm DNA methylome reveals its hypomethylated patterns - (Abstract Only)
Characterization of candidate genes for bovine adipogenesis reveals differences of TUSC5 isoforms caused by novel alternative splicing Reprint Icon - (Peer Reviewed Journal)
Zhang, Z., Li, M., Hu, X., Cai, H., Liu, M., Sun, Y., Huang, Y., Dang, R., Lan, X., Lei, C., Liu, G., Li, C., Hong, C. 2018. Characterization of candidate genes for bovine adipogenesis reveals differences of TUSC5 isoforms caused by novel alternative splicing. Oncotarget. 9(1): s287-s298. https://doi.org/10.18632/oncotarget.23482.
Identification and characterization of long non-coding RNAs in subcutaneous adipose tissue from castrated and intact full-sib pair Huainan male pigs - (Peer Reviewed Journal)
Wang, J., Zhong, J., Chen, J., Gao, B., Hua, L., Li, C., Shi, Z., Bai, X., Sheng, W., Xing, B. 2017. Identification and characterization of long non-coding RNAs in subcutaneous adipose tissue from castrated and intact full-sib pair Huainan male pigs. Biomed Central (BMC) Genomics. 18:542. https://doi.org/10.1186/s12864-017-3907-z.
Selection of internal reference genes for normalization of reverse transcription quantitative polymerase chain reaction (RT-qPCR) analysis in the rumen epithelium - (Peer Reviewed Journal)
Die, J.V., Baldwin, R.L., Rowland, L.J., Li, R.W., Oh, S., Li, C., Connor, E.E., Ranilla, M. 2017. Selection of internal reference genes for normalization of reverse transcription quantitative polymerase chain reaction (RT-qPCR) analysis in the rumen epithelium. PLoS One. 12(2):e0172674.
Long non-coding RNA ADNCR suppresses adipogenic differentiation by targeting miR-204 - (Peer Reviewed Journal)
Li, M., Sun, X., Cai, H., Li, C., Sun, Y., Lan, C., Lin, F., Bai, Y., Chen, H. 2016. Long non-coding RNA ADNCR suppresses adipogenic differentiation by targeting miR-204. Genetics. S1874-9399(16)30083-9.
Consumption of endophyte-infected fescue seed during the dry period and lactation affects mammary gland gene expression in dairy cows - (Abstract Only)
Baldwin, R.L., Li, C., Bickhart, D.M., Clover, C.M., Grossi, P., Choudhary, R.K., Elsasser, T.H., Bertoni, G., Trevisi, E., Aiken, G.E., Mcleod, K.R., Capuco, A.V. 2016. Consumption of endophyte-infected fescue seed during the dry period and lactation affects mammary gland gene expression in dairy cows. Journal of Dairy Science. Vol. 99 (E-Supplement 1):401.
Flow cytometry analysis of cell cycle and specific cell synchronization with butyrate - (Peer Reviewed Journal)
Li, C. 2016. Flow cytometry analysis of cell cycle and specific cell synchronization with butyrate. Methods in Molecular Biology. 1524:149-159.
Transcriptomic sequencing reveals a set of unique genes activated by butyrate-induced histone modification - (Peer Reviewed Journal)
Li, C., Li, R.W., Baldwin, R.L., Blomberg, L., Wu, S., Li, W. 2016. Transcriptomic sequencing reveals a set of unique genes activated by butyrate-induced histone modification. Scientific Reports. 10:1-8.
Impact of parental Bos taurus and Bos indicus origins on copy number variation in traditional Chinese cattle breeds - (Peer Reviewed Journal)
Liangzhi, Z., Shan-Gang, J., Martin, P., Young-Zhen, H., Li, C., Chu-Zhao, L., Xin, Z., Hong, C. 2015. Impact of parental Bos taurus and Bos indicus origins on copy number variation in traditional Chinese cattle breeds. Scientific Reports. 10;7(8):2352-2361.
RNA-Seq analysis of glycosylation related gene expression in STZ-induced diabetic rat kidney - (Peer Reviewed Journal)
Qian, X., Li, X., O Ilori, T., Klein, J.D., Hughey, R.P., Li, C., Abdel, A.A., Song, X., Chen, G. 2015. RNA-Seq analysis of glycosylation related gene expression in STZ-induced diabetic rat kidney. Frontiers in Physiology. doi: 10.3389/fphys.2015.00274.
Haplotypes in the promoter region of the CIDEC gene associated with growth traits in Nanyang cattle - (Peer Reviewed Journal)
Wang, J., Hua, L., Pan, H., Zhang, L., Li, M., Huang, Y., Li, Z., Lan, X., Lei, C., Li, C., Chen, H. 2015. Haplotypes in the promoter region of the CIDEC gene associated with growth traits in Nanyang cattle. Scientific Reports. 5, 12075(2015).
Splice variants and regulatory networks associated with host resistance to the intestinal worm Cooperia oncophora in cattle - (Peer Reviewed Journal)
Li, R.W., Wu, S., Li, C., Li, W., Schroeder, S.G. 2015. Splice variants and regulatory networks associated with host resistance to the intestinal worm Cooperia oncophora in cattle. Veterinary Parasitology. DOI:10.1016/j.vetpar.2015.05.010.
Effect of alpha-lipoic acid on boar spermatozoa quality during freezing-thawing - (Peer Reviewed Journal)
Shen, T., Jiang, Z., Li, C., Hu, X., Li, Q. 2015. Effect of alpha-lipoic acid on boar spermatozoa quality during freezing-thawing. Zygote. p. 1-7(2015).
Altered microRNA expression in bovine skeletal muscle with age - (Peer Reviewed Journal)
Sun, J., Sonstegard, T.S., Li, C., Yongzheng, H., Li, Z., Wang, J., Zhang, C., Lei, C., Zhao, X., Chen, H. 2015. Altered microRNA expression in bovine skeletal muscle with age. Scientific Reports. 46(3):227-238. DOI: 10.1111/age.12272.
Genome-wide DNA methylation profiles and their replationship with mRNA and the microRNA transcriptome in bovine muscle tissue (Bos Taurine) - (Peer Reviewed Journal)
Huang, Y., Sun, J., Zhang, L., Li, C., Womark, J.E., Li, Z., Lan, X., Lei, C., Zhao, X., Chen, H. 2014. Genome-wide DNA methylation profiles and their replationship with mRNA and the microRNA transcriptome in bovine muscle tissue (Bos Taurine). Scientific Reports. 4:6546. DOI: 10.1038/srep06546.
Detection of copy number variations and their effects in Chinese bulls - (Peer Reviewed Journal)
Zhang, L., Jia, S., Yang, M., Xu, Y., Li, C., Sun, J., Huang, Y., Lan, X., Lei, C., Zhou, Y., Zhang, C., Zhao, X., Chen, H. 2014. Detection of copy number variations and their effects in Chinese bulls, BMC Genomics 2014, 15:480.
Israeli acute paralysis virus: epidemiology, pathogenesis and implications for honey bee health and Colony Collapse Disorder (CCD) - (Peer Reviewed Journal)
Chen, Y., Pettis, J.S., Corona, M.V., Chen, W., Spivak, M., Visscher, K.P., Hoffman, G.D., Boncristiani, H., Zhao, Y., Vanengelsdorp, D., Delaplane, K., Solter, L., Drummond, F., Kramer, M.H., Lipkin, I.W., Palacios, G., Hamilton, M.C., Smith Jr, I.B., Huang, S., Zheng, H., Li, J., Zhang, X., Zhou, A., Wu, L., Zhou, J., Lee, M.L., Teixeira, E.W., Li, Z., Evans, J.D., Li, C. 2014. Israeli acute paralysis virus: epidemiology, pathogenesis and implications for honey bee health and Colony Collapse Disorder (CCD). PLoS Pathogens. 10 (7):e1004261. DOI: 10.1371/journal.ppat.1004261.
A global view of the transcriptional profiling of adipose tissue in Chinese Qinchuan cattle using RNA sequencing - (Peer Reviewed Journal)
Zhou, Y., Sun, J., Li, C., Wnag, Y., Cai, H., Lan, X., Lei, C., Che, H. 2014. A global view of the transcriptional profiling of adipose tissue in Chinese Qinchuan cattle using RNA sequencing. PLoS Genetics. 9(7):el101261.
Transcription factor ZBED6 mediates IGF2 gene expression by regulating promoter activity and DNA methylation in myoblasts - (Peer Reviewed Journal)
Young-Zhen, H., Liangzhi, Z., Xin-Sheng, L., Yu-Jia, S., Li, C., Xian-Yong, L., Chu-Zhao, L., Chun-Lei, Z., Xin, Z., Hong, C. 2014. Transcription factor ZBED6 mediates IGF2 gene expression by regulating promoter activity and DNA methylation in myoblasts. Scientific Reports. 4:4570. DOI:10.1038/srep04570.
Transcriptional regulators transforming growth factor-beta 1 and estrogen-related receptor-alpha identified as putative mediators of calf rumen epithelial tissue development and function during weaning Reprint Icon - (Peer Reviewed Journal)
Connor, E.E., Baldwin, R.L., Walker, M.P., Ellis, S., Li, C., Kahl, S., Chung, H., Li, R.W. 2014. Transcriptional regulators transforming growth factor-beta 1 and estrogen-related receptor-alpha identified as putative mediators of calf rumen epithelial tissue development and function during weaning. Journal of Dairy Science. 97:4193-4207.
A high-resolution whole-genome map of the distinctive epigenomic landscape induced by butyrate in bovine cells - (Peer Reviewed Journal)
Shin, J., Xu, L., Li, R.W., Gao, Y., Bickhart, D.M., Liu, G., Baldwin, R.L., Li, C. 2014. A high-resolution whole-genome map of the distinctive epigenomic landscape induced by butyrate in bovine cells. Animal Genetics. 45:40–50. DOI:10.1111.age.12147.
Butyrate: A dietary inhibitor of histone deacetylases and an epigenetic regulator - (Book / Chapter)
Li, C., Li, R.W., Baldwin, R.L., Elsasser, T.H. 2014. Butyrate: A dietary inhibitor of histone deacetylases and an epigenetic regulator. Butyrate: Food Sources, Functions and Health Benefits. New York, NY:Nova Science Publishers. p.233-258.
Bioinformatic dissecting of TP53 regulation pathway underlying butyrate-induced histone modification in epigenetic regulation - (Peer Reviewed Journal)
Li, C., Li, R.W. 2014. Bioinformatic dissecting of TP53 regulation pathway underlying butyrate-induced histone modification in epigenetic regulation. Genetics and Epigenetics. Doi: 10.4137/GEG.S14176.
Identification and genetic effect of a variable duplication in the promoter region of the cattle ADIPOQ gene - (Peer Reviewed Journal)
Zhang, L., Yang, M., Li, C., Xu, Y., Jia, S., Sun, J., Lan, X., Lei, C., Chen, H. 2013. Identification and genetic effect of a variable duplication in the promoter region of the cattle ADIPOQ gene. Animal Genetics. 45:171-179. DOI.10.1111/age.12112.
Epigenomic landscape modified by histone modification correlated with activation of IGF2 gene - (Abstract Only)
Carter, O.L., Li, R.W., Li, C. 2013. Epigenomic landscape modified by histone modification correlated with activation of IGF2 gene. BARC Poster Day. 1:10.
ChIp-seq of bovine cells (MDBK) to study butyrate-induced histone modification with 10 datasets - (Other)
Li, C., Li, R.W. 2014. ChIp-seq of bovine cells (MDBK) to study butyrate-induced histone modification with 10 datasets. NIH Gene Expression Omnibus Respository: (GEO Accession GSE38973).
DNA demethylation pathways: recent insights - (Review Article)
Li, C. 2013. DNA demethylation pathways: recent insights. Genetics and Epigenetics. 2013:5 43-49.
Molecular networks associated with host resistance to gastrointestional nematodes in cattle - (Abstract Only)
A 5'-regulatory region and two coding region polymorphisms modulate promoter activity and gene expression of the growth suppressor gene ZBED6 in cattle - (Peer Reviewed Journal)
Yong-Zhen, H., Li, M., Wang, J., Womack, J.E., Sun, J., Li, C., Lan, X., Lei, C., Zhang, C., Chen, H. 2013. A 5'-regulatory region and two coding region polymorphisms modulate promoter activity and gene expression of the growth suppressor gene ZBED6 in cattle. PLoS One. 8(11):e79744.doi:10.1371/journal.pone.007974, 2013.
Short-term alpha- or gamma-delta-enriched tocopherol oil supplementation differentially effects the expression of proinflammatory mediators: selective impacts on characteristics of protein tyrosine nitration in vivo¿. - (Peer Reviewed Journal)
Elsasser, T.H., Kahl, S., Lebold, K.M., Traber, M.G., Shaffer, J., Li, C., Block, S. 2013. Short-term alpha- or gamma-delta-enriched tocopherol oil supplementation differentially effects the expression of proinflammatory mediators: selective impacts on characteristics of protein tyrosine nitration in vivo. Veterinary Science Development. 3: 20-38.
Gene expression in bovine rumen epithelium during weaning indentifies molecular regulators of rumen development and growth - (Peer Reviewed Journal)
Connor, E.E., Baldwin, R.L. 6th , Li, C., Li, R.W., Chung, H. 2013. Gene expression in bovine rumen epithelium during weaning indentifies molecular regulators of rumen development and growth. Functional and Integrative Genomics. 13:133-142.
In vitro and in vivo study of transcriptome alternation induced by butyrate in cattle using deep RNA-seq - (Abstract Only)
Li, C., Li, R.W. 2013. In vitro and in vivo study of transcriptome alternation induced by butyrate in cattle using deep RNA-seq. Meeting Abstract. PAG XX Meeting.
Nutritional epigenomics - (Book / Chapter)
Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array - (Peer Reviewed Journal)
Hou, Y., Bickhart, D.M., Hvinden, M.L., Li, C., Song, J., Boichard, D.A., Fritz, S., Eggen, A., Denise, S., Wiggans, G.R., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2012. Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array. Biomed Central (BMC) Genomics. 13:376.
Searching for Synbiotics to increase Colonic Butyrate Concentration - (Proceedings)
Li, R.W., Li, C. 2012. Searching for Synbiotics to increase Colonic Butyrate Concentrations. In: Functional Foods and chronicle Inflammation; Science and practicaal application, Vol II (ed. D.M. Mastirosyan). pp. 69-71.
Epigenetics and environmental impacts in cattle - (Book / Chapter)
Li, C., Li, R.W. 2013. Epigenetics and environmental impacts in cattle. Hauppauge, NY: Nova Science Publisher, Inc. 59-82 p.
RNA sequences of the bovine epithelial transcriptome - (Other)
Li, R.W., Li, C. 2012. RNA sequences of the bovine epithelial transcriptome. National Center for Biotechnology Information (NCBI). SRX130570.
Comparative analyses of transcriptomic profiles of the bovine small intestine in response to both a primary infection and a drug-attenuated reinfection - (Other)
Li, R.W., Li, C., Gasbarre, L.C. 2012. Comparative analyses of transcriptomic profiles of the bovine small intestine in response to both a primary infection and a drug-attenuated reinfection . NIH Gene Expression Omnibus (GEO) Database. GSE24402.
Complement activation in the development of protective immunity against Ostertagia ostertagi infections in cattle - (Other)
Li, R.W., Hou, Y.L., Li, C., Gasbarree, L.C. 2012. Complement activation in the development of protective immunity against Ostertagia ostertagi infections in cattle. NIH Gene Expression Omnibus (GEO) Database. 190:1-11.2012.
Alternate splicing regulated by butyrate in the bovine epithelial cell - (Peer Reviewed Journal)
Wu, S., Li, C., Huang, W., Li, W., Li, R.W. 2012. Alternate splicing regulated by butyrate in the bovine epithelial cell. PLoS One. 7(6):e39182.
Quantification of transcriptome responses of the rumen epithelium to butyrate infusion - (Peer Reviewed Journal)
Baldwin, R.L., Wu, S., Li, W., Li, C., Bequette, B.J., Li, R.W. 2012. Quantification of transcriptome responses of the rumen epithelium to butyrate infusion. Gene Regulation and Systems Biology. 6:67–80.
The bacterial community composition of the bovine rumen detected using pyrosequencing of 16S rRNA genes - (Peer Reviewed Journal)
Wu, S., Baldwin, R.L., Li, W., Li, C., Connor, E.E., Li, R.W. 2012. The bacterial community composition of the bovine rumen detected using pyrosequencing of 16S rRNA genes. Metagenomics. 1:11. DOI:10.4303/mg/235571.
Effects of short-term tocopherol (T) feeding on structure-localized protein tyrosine nitration (pTN) patterns of mitochondrial ATPase following endotoxin (LPS) challenge in beef calves. - (Abstract Only)
Elsasser, T.H., Kahl, S., Castellano-Perez, R., Li, C., Block, S. 2012. Effects of short-term tocopherol (T) feeding on structure-localized protein tyrosine nitration (pTN) patterns of mitochondrial ATPase following endotoxin (LPS) challenge in beef calves. Journal of Animal Science. 88 (Suppl. 2):591.
Butyrate induced IGF2 activation correlated with distinct chromatin landscapes due to histone modification - (Peer Reviewed Journal)
Shin, J., Li, R.W., Goa, Y., Bickhart, D.M., Liu, G., Li, W., Wu, S., Li, C. 2013. Butyrate induced IGF2 activation correlated with distinct chromatin landscapes due to histone modification. PLoS Genetics. DOI:10.4137/GRSB.S11243.
Transcriptome characterization by deep-RNA-sequencing underlies the mechanisms of butyrate-induced epigenomic regulation in bovine cells - (Peer Reviewed Journal)
Sitao, W., Li, R.W., Li, W., Li, C. 2012. Transcriptome characterization by deep-RNA-sequencing underlies the mechanisms of butyrate-induced epigenomic regulation in bovine cells. PLoS One. DOI:10.1371/journal.pone.0036940.
Characterization of differentially expressed genes in calf rumen epithelium in response to weaning - (Abstract Only)
Chung, H., Baldwin, R.L., Li, C., Connor, E.E. 2012. Characterization of differentially expressed genes in calf rumen epithelium in response to weaning. BARC Poster Day. p. 05.
Characterization of the longissimus lumborum transcriptome response to adding propionate to the diet of growing Angus beef steers - (Peer Reviewed Journal)
Baldwin, R.L., Li, R.W., Li, C., Song, J., Bequette, B.J. 2012. Characterization of the longissimus lumborum transcriptome response to adding propionate to the diet of growing Angus beef steers. Physiological Genomics. 44:543-550. DOI:10.1152/physiolgenomics.
Transcriptomic alterations in human prostate cancer cell LNCaP tumor xenograft modulated by dietary phenethyl isothiocyanate - (Peer Reviewed Journal)
Li, R.W., Li, C., Wang, T.T. 2012. Transcriptomic alterations in human prostate cancer cell LNCaP tumor xenograft modulated by dietary phenethyl isothiocyanate. Molecular Carcinogenesis. DOI: 10.1002/mc.21873.
Genome-wide ChIP-seq mapping and analysis of butyrate-induced H3K9 and H3K27 acetylation and epigenomic landscape alteration in bovine cells - (Peer Reviewed Journal)
Heon Shin, J., Li, R.W., Gao, Y., Baldwin, R.L., Li, C. 2012. Genome-wide ChIP-seq mapping and analysis of butyrate-induced H3K9 and H3K27 acetylation and epigenomic landscape alteration in bovine cells. Functional and Integrative Genomics. 12(1):119-130.
Perturbation dynamics of the rumen microbiota in response to exogenous butyrate - (Peer Reviewed Journal)
Li, R.W., Wu, S., Li, W., Baldwin, R.L., Li, C. 2012. Perturbation dynamics of the rumen microbiota in response to exogenous butyrate. Public Library of Science Biology. 7(1):e29392. DOI:10.1371/journal.pone.0029392.
Genome-wide ChIP-seq mapping and analysis of butyrate-induced H3K9 and H3K27 acetylation and epigenomic landscapes alteration in bovine cells - (Abstract Only)
Li, C., Li, R.W., Gao, Y., Shin, J., Baldwin, R.L. 2012. Genome-wide ChIP-seq mapping and analysis of butyrate-induced H3K9 and H3K27 acetylation and epigenomic landscapes alteration in bovine cells [abstract]. Annual International Plant & Animal Genome Conference. W. 020.
Alpha-Tocopherol alters transcription activities that modulate tumor necrosis factor alpha (TNF-¿)-induced inflammatory response in bovine cells - (Peer Reviewed Journal)
Li, C., Li, R.W., Elsasser, T.H., Kahl, S. 2011. Alpha-Tocopherol alters transcription activities that modulate tumor necrosis factor alpha (TNF-a)-induced inflammatory response in bovine cells. Gene Regulation and Systems Biology. 6:1-14.
Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle - (Abstract Only)
Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle [abstract]. Paper No. 6.
Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle - (Peer Reviewed Journal)
Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle. Functional and Integrative Genomics. 12(1):81-92.
Characterization of the rumen microbiota in pre-ruminant calves using metagenomic tools - (Peer Reviewed Journal)
Li, R.W., Connor, E.E., Li, C., Baldwin, R.L., Sparks, M. 2011. Characterization of the rumen microbiota in pre-ruminant calves using metagenomic tools. Environmental Microbiology. 14(1):129-139.
Protein Tyrosine Nitration in Chronic Intramuscular Parasitism: Immunohistochemical evaluation of Relationships Between Nitration, Fiber Types, and Ubiquitin - (Peer Reviewed Journal)
Elsasser, T.H., Romo, G.A., Eastridge, J.S., Kahl, S., Martinez, A., Li, C., Sartin, J.L., Cuttitta, F., Fayer, R., Solomon, M.B. 2011. Protein Tyrosine Nitration in Chronic Intramuscular Parasitism: Immunohistochemical evaluation of Relationships Between Nitration, Fiber Types, and Ubiquitin. Journal of Physiology. 1:10-18.
The vitamin D receptor and inducible nitric oxide synthase associated pathways in the development of acquired resistance to Cooperia oncophora infection in cattle - (Peer Reviewed Journal)
Li, R.W., Li, C., Gasbarre, L.C. 2011. The vitamin D receptor and inducible nitric oxide synthase associated pathways in the development of acquired resistance to Cooperia oncophora infection in cattle. Veterinary Research. 42(1):48.
Effects of Environment on Animal Health: Mechanisms and Regulatory Inputs - (Book / Chapter)
Elsasser, T.H., Li, C., Shaffer, J.F., Collier, R.J. 2012. Effects of Environment on Animal Health: Mechanisms and Regulatory Inputs. In: Collier, R.J. and Collier, J.L., editors. Environmental Physiology of Livestock. Oxford, U.K. Wiley-Blackwell Publications. p. 129-164.
Modeling the effects of estradiol and progesterone on the acute phase proinflammatory axis: Variability in tumor necrosis factor-alpha, nitric oxide, and xanthine oxidase responses to endotoxin challenge in steers - (Peer Reviewed Journal)
Elsasser, T.H., Kahl, S., Li, C. 2011. Modeling the effects of estradiol and progesterone on the acute phase proinflammatory axis: Variability in tumor necrosis factor-¿, nitric oxide, and xanthine oxidase responses to endotoxin challenge in steers. Domestic Animal Endocrinology. 40(4):213-221.
NUTRIENTS AND EPIGENETICS IN BOVINE CELLS - (Book / Chapter)
Li, C., Li, R.W., Elsasser, T.H. 2012. Nutrients and Epigenetics in Bovine Cells. In: Hasan Khatib, Editors. Nutrients and Epigenetics in Bovine Cells. In: Hasan Khatib, Editor. Livestock Epigenetics. New York, NY. Nova Science Publishers. p. 161-177.
MicroRNA (miRNA) expression is regulated by butyrate-induced epigenetic modulation of gene expression in bovine cells - (Abstract Only)
Li, C., Li, R.W., Elsasser, T.H. 2011. MicroRNA (miRNA) expression is regulated by butyrate-induced epigenetic modulation of gene expression in bovine cells. Plant and Animal Genome Conference Proceedings. W021.
Alpha-Tocopherol modulates transcriptional activities that affect essential biological processes in Bovine Cells - (Peer Reviewed Journal)
Li, C., Li, R.W., Elsasser, T.H. 2010. Alpha-Tocopherol modulates transcriptional activities that affect essential biological processes in Bovine Cells. Gene Regulation and Systems Biology. 4:109-124.
Localized complement activation in the development of protective immunity against Ostertagia ostertagi infections in cattle - (Peer Reviewed Journal)
Li, R.W., Hou, Y., Li, C., Gasbarre, L.C. 2010. Localized complement activation in the development of protective immunity against Ostertagia ostertagi infections in cattle. Veterinary Parasitology. 174(3-4):247-256.
MicroRNA (miRNA) expression is regulated by butyrate induced epigenetic modulation of gene expression in bovine cells - (Peer Reviewed Journal)
Li, C., Li, R.W., Elsasser, T.H. 2010. MicroRNA (miRNA) expression is regulated by butyrate induced epigenetic modulation of gene expression in bovine cells. Genetics and Epigenetics. 3:23-32.
Specific cell cycle synchronization with butyrate and cell cycle analysis - (Book / Chapter)
Li, C. 2011. Specific cell cycle synchronization with butyrate and cell cycle analysis. In: Banfalvi, G., editor. Methods in Molecular Biology, Cell Cycle Synchronization: Methods and Protocols. New York NY: Humana Press. p. 125-136.
Effects of short-term tocopherol (T) feeding on nitric oxide production and protein nitration following endotoxin (LPS) challenge in beef calves - (Abstract Only)
Kahl, S., Elsasser, T.H., Li, C., Lebold, K., Traber, M., Block, S. 2010. Effects of short-term tocopherol (T) feeding on nitric oxide production and protein nitration following endotoxin (LPS) challenge in beef calves. Journal of Animal Science. 88(E-Suppl. 2):590.
Metagenomics detects functional shifts in the bovine rumen microbiota in response to propionate intake - (Book / Chapter)
Sparks, M., Huang, Y., Baldwin, R.L., Connor, E.E., Li, C., Sonstegard, T.S., Schroeder, S.G., Li, R.W. 2011. Metagenomics detects functional shifts in the bovine rumen microbiota in response to propionate intake. In: Li, R.W. editor. Metagenomics and its Applications in Agriculture. New York, NY: Nova Science Publishers. p. 165-183.
Comparison of the segmental duplication pattern on two cattle genome assemblies using FISH - (Proceedings)
Liu, G., Cellamare, A., Ventura, M., Li, C., Eichler, E.E. 2010. Comparison of the segmental duplication pattern on two cattle genome assemblies using FISH. Plant and Animal Genome Conference. W178.
Nutrient-induced modulation of gene expression and cellular functions: modeling epigenetic regulation in bovine cells - (Abstract Only)
Epigenetic regulation of gene expression and cellular functions induced by butyrate, an example of interactions between gene and nutrients - (Abstract Only)
Li, C., Li, R.W., Elsasser, T.H., Connor, E.E. 2009. Epigenetic regulation of gene expression and cellular functions induced by butyrate, an example of interactions between gene and nutrients. American Dairy Science Association Discover Conference.
Global Genetic Profiles of Gene Network Disruption in Bovine Peripheral Blood Mononuclear Cells Induced Bovine Leukemia Virus (BLV) Infection - (Peer Reviewed Journal)
Li, C., Li, R.W., Elsasser, T.H., Kahl, S. 2009. Global genetic profiles of gene network disruption in bovine peripheral blood mononuclear cells induced bovine leukemia virus (BLV) infection. Genetics and Epigenetics.2:17-27.
Gene expression in the digestive tissues of ruminants and their relationships with feeding and digestive processes - (Review Article)
Connor, E.E., Li, R.W., Baldwin, R.L., Li, C. 2009. Gene expression in the digestive tissues of ruminants and their relationships with feeding and digestive processes. Animal. 4(7):993-1007.
Epigenetic mechanisms of nutrient-induced modulation of gene expression and cellular functions - (Abstract Only)
Li, C., Li, R.W., Elsasser, T.H. 2009. Epigenetic mechanisms of nutrient-induced modulation of gene expression and cellular functions. Gordon Research Conference Proceedings. Epigenetics. August 9-14, Holderness, NH.
Mucin biosynthesis in the bovine goblet cell induced by Cooperia oncophora infection - (Peer Reviewed Journal)
Li, R.W., Li, C., Elsasser, T.H., Liu, G., Garrett, W.M., Gasbarre, L.C. 2009. Mucin biosynthesis in the bovine goblet cell induced by Cooperia oncophora infection. Veterinary Parasitology. PMID 19647371.
Gene expression in the digestive tissues of ruminants and their relationships with feeding and digestive processes - (Abstract Only)
Connor, E.E., Li, R.W., Baldwin, R.L., Li, C. 2009. Gene expression in the digestive tissues of ruminants and their relationships with feeding and digestive processes.ISRP XIth International Symposium on Ruminant Physiology, Clermont-Ferrand, France, September 6-9.
Growth Hormone Effects in Immune Stress: AKT/eNOS Signaling Module in the Cellular Response - (Peer Reviewed Journal)
Li, C., Elsasser, T.H., Kahl, S. 2009. AKT/eNOS Signaling Module Functions as a potential feedback loop in the growth hormone signaling pathway. Journal of Molecular Signaling. 4:1.
EPIGENETIC REGULATION IN BOVINE CELLS: NUTRIENT-INDUCED MODULATION OF GENE EXPRESSION AND CELLULAR FUNCTIONS - (Book / Chapter)
Li, C., Elsasser, T.H., Li, R.W. 2009. Epigenetic regulation in bovine cells: Nutrient-induced modulation of gene expression and cellular functions. In: Rech, Leopold J., editor. Animal Genetics. Nova Science Pubilshers, Inc. (ISBN:978-60741-844-3).
Lipopolysaccharide-induced early response genes in bovine peripheral blood mononuclear cells implicate GLG1/E-selectin as a key ligand–receptor interaction - (Peer Reviewed Journal)
Li, C., Li, R.W., Elsasser, T.H., Kahl, S. 2009. Lipopolysaccharide-induced early response genes in bovine peripheral blood mononuclear cells implicate GLG1/E-selectin as a key ligand–receptor interaction. Functional and Integrative Genomics. 9(3):335-349.
Critical control points in the impact of proinflammatory immune response on growth and metabolism - (Peer Reviewed Journal)
Elsasser, T.H., Caperna, T.J., Li, C.J., Kahl, S., Sartin, J.L. 2008. Critical control points in the impact of the proinflammatory immune response on growth and metabolism. Journal of Animal Science. 86(E. Suppl):E105-E 125.
IGF-I mediated inhibition of leptin receptor expression in porcine hepatocytes - (Peer Reviewed Journal)
Ramsay, T.G., Richards, M.P., Li, C.J., Caperna, T.J. 2010. IGF-I mediated inhibition of leptin receptor expression in porcine hepatocytes. Comparative Biochemsitry and Physiology. 155(1):43-48.
Variability in tumor necrosis factor-alpha, nitric oxide, and xanthine oxidase responses to endotoxin challenge in heifers: Effect of estrous cycle stage - (Peer Reviewed Journal)
Kahl, S., Elsasser, T.H., Li, C. 2009. Variability in tumor necrosis factor-alpha, nitric oxide, and xanthine oxidase responses to endotoxin challenge in heifers: Effect of estrous cycle stage. Domestic Animal Endocrinology. 36:82-88.
Epigenetic regulation in bovine cells: nutrient-induced modulation of gene expression and cellular functions - (Abstract Only)
Li, C., Li, R.W., Elsasser, T.H. 2008. Epigenetic regulation in bovine cells: nutrient-induced modulation of gene expression and cellular functions. International Plant and Animal Genome IX Conference.
Transcriptome Characterization of Bovine Peripheral Blood Mononuclear Cells Stimulated by LPS - (Abstract Only)
Li, C., Li, R.W. 2008. Transcriptome Characterization of Bovine Peripheral Blood Mononuclear Cells Stimulated by LPS. [abstract]. . NIH Gene Expression Omnibus (GEO) Database.
Butyrate Induced Cell Cycle Arrest in Bovine Cells through Targeting Gene Expression relevance to DNA Replication Apparatus - (Peer Reviewed Journal)
Li, C., Li, R.W. 2008. Butyrate Induced Cell Cycle Arrest in Bovine Cells through Targeting Gene Expression relevance to DNA Replication Apparatus. Gene Regulation and Systems Biology. 2:113-123.
Effects of butyrate on the expression of insulin-like growth factor binding proteins in bovine kidney epithelial cells - (Peer Reviewed Journal)
Li, R.W., Li, C. 2008. Effects of butyrate on the expression of insulin-like growth factor binding proteins in bovine kidney epithelial cells. The Open Veterinary Science Journal. 2:1-6.
EPIGENETIC REGULATION OF GENOMES: NUTRIENT-SPECIFIC MODULATION OF GENETIC NETWORKS IN BOVINE CELLS - (Proceedings)
Li, C., Elsasser, T.H., Li, R.W. 2008. Epigenetic regulation of genomes: nutrient-specific modulation of genetic networks in bovine cells. Animal Genetics International Conference Proceedings. 132:391-398.
Epigenetic regulation of genomes: Nutrient-specific modulation of genetic networks in bovine cells - (Abstract Only)
Li, C.-L, Elsasser, T.H., Li, R.W. 2008. Epigenetic regulation of genomes: nutrient-specific modulation of genetic networks in bovine cells [abstract]. International Symposium on Anima Genomics for Animal Health, Paris, France, October 23-25, 2007. Developments in Biologicals. 132:391-398.
Epigenetic mechanisms at work: Exploiting nutrient-specific modulation of genetic networks - (Abstract Only)
Li, C.-J, Elsasser, T.H., Li, R.W. 2007. Epigenetic mechanisms at work: Exploiting nutrient-specific modulation of genetic networks [abstract]. 29th General Assembly of the International Union of Biological Sciences and Scientific Symposium. Proceedings p7, Washington, DC.
CAVEOLAE-BASED NITRATION AT THE JAK-2 KINASE 1007 Y-1008-Y PHOSPHORYLATION SITE; A NOVEL REGULATORY INPUT TO SIGNAL TRANSDUCTION PROCESSING - (Peer Reviewed Journal)
Elsasser, T.H., Kahl, S., Li, C., Sartin, J.L., Garrett, W.M., Rodrigo, J. 2007. Caveolae-based nitration at the jak-2 kinase 1007 y-1008-y phosphorylation site; a novel regulatory input to signal transduction processing. Endocrinology 148:3803-3813. Available http://endo.endojournals.org.
Nitration of JAK-2 at the 1007Y-1008Y activation epitope impedes phosphorylation at this site: defining a GH, AKT/protein kinase B and nitric oxide synthase axis - (Peer Reviewed Journal)
Elsasser, T.H., Li, C., Caperna, T.J., Kahl, S., Schmidt, W.F. 2007. GH-associated nitration of JAK2 at the 1007Y-1008Y epitope impedes phosphorylation at this site: Mechanism for and impact of a GH, AKT and nitric oxide synthase (NOS) axis on GH signal transduction. Endocrinology. 148:3792-3802. Available: http://endo.endojournals.org.
Pathways analysis identifies perturbation of genetic networks induced by butyrate in a bovine kidney epithelial cell line - (Peer Reviewed Journal)
Li, C.J., Li, R.W., Wang, Y.H. Elsasser, T.H. 2007. Pathway analysis identifies perturbation of genetic networks induced by butyrate in a bovine kidney epithelial cell line. Functional and Integrative Genomics. 7:193-205.
SPECIFIC CELL CYCLE SYNCHRONIZATION WITH BUTYRATE AND CELL CYCLE ANALYSIS BY FLOW CYTOMETRY FOR MADIN DARBY BOVINE KIDNEY (MDBK) CELL LINE - (Peer Reviewed Journal)
Li, C., Elsasser, T.H. 2006. Specific cell cycle synchronization with butyrate and cell cycle analysis by flow cytometry for Madin Darby Bovine Kidney (MDBK) cell line. Journal of Animal and Veterinary Advances. 5(11):916-923.
GROWTH HORMONE (GH) DIRECTS NITRATION OF THE TYROSINE PHOSPHORYLATION SITE OF THE JAK-2 (1007-1008Y) IN HEPATOCYTES THROUGH AN AKT/PHOSPHORYLASE KINASE B ACTIVATION OF ENDOTHELIAL NITRIC OXIDE SYNTHASE (ENOS) - (Abstract Only)
Elsasser, T.H., Caperna, R.J., Li, C., Kahl, S. 2006. Growth hormone (GH) directs nitration of the tyrosine phosphorylation site of JAK-2 (1007-1008Y) in hepatocytes through an AKT/Phosphorylase Kinase B activation of endothelial nitric oxide synthase (eNOS) [abstract]. Proceedings of the Annual Meeting of the Endocrine Society. p. 44.
THE IGF SYSTEM IN CHICKENS: FACTORS AFFECTING GENE EXPRESSION IN MUSCLE AND LIVER - (Abstract Only)
Kuo, A., Clover, C.M., Rosebrough, R.W., McMurtry, J.P., Mitchell, A.D., Caperna, T.J., Li, C., Kahl, S., Elsasser, T.H. 2006. The IGF system in chickens: Factors affecting gene expression in muscle and liver [abstract]. Journal of Federation of American Societies for Experimental Biology. 20:A172.
SODIUM BUTYRATE INDUCED GENE EXPRESSION CHANGES IN THE MADIN-DARBY BOVINE KIDNEY EPITHELIAL CELLS - (Other)
Li, R.W., Li, C. 2006. Sodium butyrate induced gene expression changes in the madin-darby bovine kidney epithelial cells [abstract]. Gene expression Omnibus. GSE 3970.
TEMPORAL RESPONSE OF SIGNAL TRANSDUCTION ELEMENTS DURING ENDOTOXIN CHALLENGE IN CATTLE LIVER: EFFECTS OF GROWTH HORMONE TREATMENT - (Peer Reviewed Journal)
Li, C.J., Kahl, S., Carbaugh, D., Elsasser, T.H. 2006. Temporal response of signal transduction elements during endotoxin challenge in cattle liver cells: Effects of growth hormone treatment. Domestic Animal Endocrinology 32(2):79-92.
GROWTH HORMONE EFFECTS IN IMMUNE STRESS: AKT/ENOS SIGNALING MODULE IN THE CELLULAR RESPONSE - (Abstract Only)
Li, C., Elsasser, T.H. 2006. Growth hormone effects in immune stress: AKT/ENOS signaling module in the cellular response [abstract]. Keystone Symposia, Signaling Networks. Abstract Book p.43.
TUMOR NECROSIS FACTOR-A (TNF-A) MODULATE INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN (IGFBPS) ACTIVITY FROM CULTURED EPITHELIAL VIA IGFBP-3 PROTEASE ACTIVITY - (Abstract Only)
Elsasser, T.H., Sartin, J.L., Li, C., Kahl, S. 2005. Tumor necrosis factor-a decreases media content of epithelial cell-derived insulin-like growth factor binding proteins (IGFBP) in part through increased proteolytic degradation of IGFBP-3 [abstract]. Journal of Animal Science. 83(Suppl.1):209.
HYPER-RESPONSIVENESS TO PROINFLAMMATORY CHALLENGE INTENSIFIES METABOLIC IMPAIRMENT: ASSOCIATIONS BETWEEN INCREASED 1007Y-1008Y JAK-2 NITRATION AND DECREASED IGF-1 AND IGF-1 MRNA EXPRESSION - (Abstract Only)
Elsasser, T.H., Garrett, W., Kahl, S., Schmidt, W., Li, C. 2005. Hyper-responsiveness to proinflammatory challenge intensifies metabolic impairment: associations between increased 1007-Y-1008Y JAK-2 nitration and decreased IGF-1 and IGF-1 mRNA expression [abstract]. Proceedings of the Endocrine Society, 87th Annual Meeting. p.391.
TEMPORAL RESPONSE OF SIGNAL TRANSDUCTION ELEMENTS DURING ENDOTOXIN CHALLENGE IN CATTLE LIVER CELLS: EFFECTS OF GROWTH HORMONE TREATMENT - (Abstract Only)
Li, C., Elsasser, T.H., Kahl, S., Carbaugh, D. 2005. Temporal response of signal transduction elements during endotoxin (LPS) challenge in cattle liver cells: Effects of growth hormone treatment [abstract]. Journal of Animal Science. 83(suppl 1):8.
UBIQUITIN-PROTEASOME PATHWAY IS INVOLVED IN BUTYRATE-INDUCED APOPTOSIS AND CELL CYCLE ARREST IN BOVINE KIDNEY EPITHELIAL CELLS - (Abstract Only)
Li, C.J., Elsasser, T.H. 2005. Ubiquitin-proteasome pathway is involved in butyrate-induced apoptosis and cell cycle arrest in bovine kidney epithelial cells [abstract]. Keystone Symposia, Ubiquitin and Signaling. Abstract Book. p55.
BUTYRATE-INDUCED APOPTOSIS AND CELL CYCLE ARREST IN BOVINE KIDNEY EPITHELIAL CELLS: INVOLVEMENT OF CASPASE AND PROTEASOME PATHWAYS - (Peer Reviewed Journal)
Li, C.J., Elsasser, T.H. 2005. Butyrate-induced apoptosis and cell cycle arrest in bovine kidney epithelial cells: involvement of caspase and proteasome pathways. Journal of Animal Science. 83:89-97.
PROTEIN TYROSINE NITRATION: A MEMBRANE-ORGANIZED MECHANISM FOR ALTERED SIGNAL TRANSDUCTION DURING PROINFLAMMATORY STRESS - (Abstract Only)
Elsasser, T.H., Kahl, S., Sartin, J.L., Li, C. 2004. Protein tyrosine nitration: a membrane organized mechanism for altered signal transduction during proinflammatory stress [abstract]. Journal of Animal Science 82 (Suppl.1):445.
GROWTH HORMONE ADMINISTRATION PROMOTES A TEMPORALLY-DEFINED LOW-LEVEL NITRATION OF THE Y1007-Y1008 ACTIVATION SITE OF JAK-2 KINASE INVIVO AND IN VITRO - (Abstract Only)
Elsasser, T.H., Kahl, S., Li, C., Wilkins, B. 2004. Growth hormone administration promotes a temporally-defined low-level nitration of the Y1007-Y1008 activation site of JAK-2 kinase in vivo and invitro [abstract]. Endocrine Society Program and Abstracts. p. 245.
BUTYRATE-INDUCED APOPTOSIS AND CELL CYCLE ARREST IN BOVINE KIDNEY EPITHELIAL CELLS: INVOLVEMENT OF CASPASE AND PROTEASOME PATHWAYS - (Abstract Only)
Li, C., Elsasser, T. 2004. Butyrate-induced apoptosis and cell cycle arrest in bovine kidney epithelial cells: involvement of caspase and proteasome pathways [abstract]. BARC Poster Day.
RESPONSE OF INDUCIBLE-TYPE NITRIC OXIDE SYNTHASE AND CYTOKINES IN BOVINE PERIPHERAL BLOOD MONONUCLEAR CELLS UPON ACTIVATION BY BACTERIAL ENDOTOXINS - (Abstract Only)
Li, C., Carbaugh, D., Kahl, S., Elsasser, T.H. 2004. Concomitant dual wavelength fluorescence evaluation of inducible nitric oxide synthase and cytokine responses to endotoxin stimulation of peripheral blood mononuclear cells [abstract]. Journal of Animal Science 82(Suppl.1):180.
ROLE FOR CDK1 (CDC2)/CYCLIN A IN PREVENTING THE MAMMALIAN ORIGIN RECOGNITION COMPLEX'S LARGEST SUBUNIT (ORC1) FROM BINDING TO CHROMATIN DURING MITOSIS - (Peer Reviewed Journal)
Li, C., Vassilev, A., DePamphilis, M.L. 2004. Role for Cdk1 (Cdc2)/Cyclin A in preventing the mammalian origin recognition complex's largest subunit (Orc1) from binding to chromatin during mitosis. Molecular and Cellular Biology. 24(13) p.5875-5886.
MECHANISMS UNDERLYING GROWTH HORMONE EFFECTS IN AUGMENTING NITRIC OXIDE PRODUCTION AND PROTEIN TYROSINE NITRATION DURING ENDOTOXIN CHALLENGE - (Peer Reviewed Journal)
Elsasser, T.H., Kahl, S., MacLeod, C., Nicholson, B., Sartin, J.L., Li, C. 2004. Mechanisms underlying growth hormone effects in augmenting nitric oxide production and protein tyrosine nitration during endotoxin challenge. Endocrinology. 145(7):3413-3423.
CHROMOSOME REPLICATION: EUKARYOTIC DNA REPLICATION ORIGINS AND THE ORIGIN RECOGNITION COMPLEX - (Review Article)
DePamphilis, M.L., Li, C. 2004. DNA replication: eukaryotic origins and the origin recognition complex. Encyclopedia of Biological Chemistry (W.J. Lennarz & M.D. Lane, eds), Elsevier, Oxford. vol. 1:753-760.
REGULATION OF "ORC CYCLE" BY UBIQUITINATION AND CDC2/CDK1 AT DIFFERENT EVENTS OF THE CELL CYCLE - (Abstract Only)
INDUCTION OF APOPTOSIS BY BUTYRATE CORRELATES WITH INCREASING LEVEL OF PROTEIN UBIQUITINATION IN BOVINE KIDNEY EPITHELIAL CELLS (MDBK) - (Abstract Only)
Li, C., Elsasser, T.H. 2003. Induction of apoptosis by butyrate correlates with increasing level of protein ubiquitination in bovine kidney epithelial cells (MDBK) [abstract]. Journal of Animal Science. v. 81(1):249.