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                    U.S. DEPARTMENT OF AGRICULTURE
 Dairy and Functional Foods Research: Wyndmoor, PA
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ARS Home Northeast Area Wyndmoor, Pennsylvania Eastern Regional Research Center Dairy and Functional Foods Research People & Locations







Jenni Ann Firrman
                        Dairy and Functional Foods Research

                        




                        
                        Research Molecular Biologist
                        Phone: (215) 836-6908
                        
                        
                        Fax: (Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsIn vitro Human Gut System: Interactions Between Diet, Food Processing, and Microbiota
                                                    In-House Appropriated
                                                                    (D)Accession Number: 439225Fatty Acids Metabolism in the Gastrointestinal Tract Using In Vitro Enteroid Models Derived from Mice and Humans
                                                    Non-Assistance Cooperative Agreement
                                                                    (S)Accession Number: 437564**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Supplementation with soluble or insoluble rice-bran fibers increases short-chain fatty acid producing bacteria in the gut microbiota in vitro
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Liu, L.S., Bobokalonov, J., Narrowe, A.B., Firrman, J., Bittinger, K., Hu, W., Jones, S.M., Mustafa, A.M. 2024. Supplementation with soluble or insoluble rice-bran fibers increases short-chain fatty acid producing bacteria in the gut microbiota in vitro. Frontiers in Nutrition. https://doi.org/10.3389/fnut.2024.1304045.Targeted remodeling of the human gut microbiome using Juemingzi (Senna seed extracts)
                                                        

- (Peer Reviewed Journal)Narrowe, A.B., Scarino Lemons, J.M., Mahalak, K.K., Firrman, J., Van Den Abbeele, P., Baudot, A., Deyaert, S., Li, Y., Yu, L., Liu, L.S. 2024. Targeted remodeling of the human gut microbiome using Juemingzi (Senna seed extracts). Frontiers in Cellular and Infection Microbiology. 14.  https://doi.org/10.3389/fcimb.2024.1296619.Metagenomes and metagenome-assembled genomes from ex vivo fecal incubations of six unique donors
                                                        

- (Peer Reviewed Journal)Narrowe, A.B., Liu, L.S., Scarino Lemons, J.M., Firrman, J., Mahalak, K.K., Deyaert, S., Baudot, A., Van Den Abbeele, P. 2024. Metagenomes and metagenome-assembled genomes from ex vivo fecal incubations of six unique donors. Microbiology Resource Announcements. https://doi.org/10.1128/mra.00862-23.Transcriptomic analysis on the regulation of tomato ripening by carbon dioxide
                                                        

- (Peer Reviewed Journal)Bobokalonov, J., Liu, Y., Mahalak, K.K., Firrman, J., Sheen, S., Zhou, S., Liu, L.S. 2023. Transcriptomic analysis on the regulation of tomato ripening by carbon dioxide. Sci. 5(3):26. https://doi.org/10.3390/sci5030026.Lacticaseibacillus rhamnosus strain GG (LGG) regulate gut microbial metabolites, an in vitro study using three mature human gut microbial cultures in a simulator of human intestinal microbial ecosystem (SHIME)
                                                        

- (Peer Reviewed Journal)Liu, L.S., Narrowe, A.B., Firrman, J., Mahalak, K.K., Bobokalonov, J., Scarino Lemons, J.M., Bittinger, K., Daniel, S., Tanes, C., Mattei, L., Friendman, E., Soares, J.W., Masuko, K., Zeng, W., Tomasula, M.M. 2023. Lacticaseibacillus rhamnosus strain GG (LGG) regulate gut microbial metabolites, an in vitro study using three mature human gut microbial cultures in a simulator of human intestinal microbial ecosystem (SHIME). Foods. https://doi.org/10.3390/foods12112105.An in-vitro analysis of how lactose modifies the gut microbiota structure and function of adults in a donor-independent manner
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Mahalak, K.K., Hu, W., Bittinger, K., Moustafa, A., Jones, S.M., Narrowe, A.B., Tomasula, M.M. 2023. An in-vitro analysis of how lactose modifies the gut microbiota structure and function of adults in a donor-independent manner. Frontiers in Nutrition. https://doi.org/10.3389/fnut.2022.1040744.Fructooligosaccharides (FOS) differentially modifies the in vitro gut microbiota in an age-dependent manner.
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Firrman, J., Narrowe, A.B., Hu, W., Bittinger, K., Moustafa, A., Liu, L.S. 2023. Fructooligosaccharides (FOS) differentially modifies the in vitro gut microbiota in an age-dependent manner. Frontiers in Nutrition. https://doi.org/10.3389/fnut.2022.1058910.Modulation of the Gut Microbiota Structure and Function by Two Structurally Different Lemon Pectins
                                                        

- (Peer Reviewed Journal)Firrman, J., Mahalak, K.K., Bobokalonov, J., Liu, L.S., Lee, J., Bittinger, K., Mattei, L., Gadaingan, R.T., Narrowe, A.B., Scarino Lemons, J.M. 2022. Modulation of the Gut Microbiota Structure and Function by Two Structurally Different Lemon Pectins. Foods. https://doi.org/10.3390/foods11233877.Persistence of the probiotic Lacticaseibacillus rhamnosus strain GG (LGG) in an in vitro model of the gut microbiome
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Firrman, J., Bobokalonov, J., Narrowe, A.B., Bittinger, K., Daniel, S., Tanes, C., Mattei, L., Zeng, W., Soares, J.W., Kobori, M., Scarino Lemons, J.M., Tomasula, M.M., Liu, L.S. 2022. Persistence of the probiotic Lacticaseibacillus rhamnosus strain GG (LGG) in an in vitro model of the gut microbiome. International Journal of Molecular Sciences. https://doi.org/10.3390/ijms232112973.The impact of environmental pH on the gut microbiota community structure and short chain fatty acid production
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Mahalak, K.K., Tu, V., Tanes, C., Bittinger, K., Bobokalonov, J., Mattei, L., Zhang, H., Van Den Abeele, P. 2022. The impact of environmental pH on the gut microbiota community structure and short chain fatty acid production. FEMS Microbiology Ecology. 98(5). https://doi.org/10.1093/femsec/fiac038.Analysis of the ability of capsaicin to modulate the human gut microbiota in vitro
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Bobokalonov, J., Firrman, J., Williams, R., Evans, B., Fanelli, B., Soares, J., Liu, L.S., Kobori, M. 2022. Analysis of the ability of capsaicin to modulate the human gut microbiota in vitro. Nutrients. https://doi.org/10.3390/nu14061283.Probiotic effects of Lactobacillus fermentum I631 and Lactobacillus plantarum ZY08 on hypercholesteremic golden hamsters
                                                        

- (Peer Reviewed Journal)Yang, D., Hu, Z., Gao, J., Zheng, Z., Wang, W., Liu, J., Firrman, J., Ren, D. 2021. Probiotic effects of Lactobacillus fermentum I631 and Lactobacillus plantarum ZY08 on hypercholesteremic golden hamsters. Frontiers in Nutrition. 8:705763. https://doi.org/10.3389/fnut.2021.705763.Changes to environmental pH alters the colon microbial community in terms of both structure and function: An in vitro analysis

- (Abstract Only)Environmental pH is a determinant of the gut microbiota community composition and production of short chain fatty acids

- (Abstract Only)Comparative analysis of the gut microbiota cultured in vitro using a single colon versus a 3-stage colon experimental design
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Mahalak, K.K., Tanes, C., Bittinger, K., Bobokalonov, J., Van Den Abbeele, P., Mattei, L., Zhang, H. 2021. Comparative analysis of the gut microbiota cultured in vitro using a single colon versus a 3-stage colon experimental design. Applied Microbiology and Biotechnology. volume 105, pages 3353–3367. https://link.springer.com/article/10.1007/s00253-021-11241-x.Establishment of a Stable Human Small Intestinal and Colonic Microbiota in an In Vitro Cultivar: Form vs. Function and Response to Oxygen

- (Abstract Only)Enhancing therapeutic efficacy of in vivo platelet-targeted gene therapy in hemophilia A

- (Peer Reviewed Journal)Xuefeng, W., Fu, R., Chen, C., Firrman, J., Konkle, B., Zhang, J., Li, L., Xiao, W., Poncz, M., Miao, C. 2020. Enhancing therapeutic efficacy of in vivo platelet-targeted gene therapy in hemophilia A. Blood Advances. Volume 4, Issue 22, Pages 5722–5734.Probiotic characteristics of lactobacillus plantarum E680 and its effect on Hypercholesterolemic mice
                                                        

- (Peer Reviewed Journal)Zhen, Z., Wang, W., Yu, J., Chen, C., Chen, B., Liu, J., Firrman, J., Renye Jr, J.A., Ren, D. 2020. Probiotic characteristics of lactobacillus plantarum E680 and its effect on hypercholesterolemic mice. BMC Microbiology. 20:239 Pages 1-9. https://doi.org/10.1186/s12866-020-01922-4.Effects of thermally induced configuration changes on rAAV genome’s enzymatic accessibility
                                                        

- (Peer Reviewed Journal)Xu, Y., Guo, P., Chrzanowski, M., Chew, H., Firrman, J., Sang, N., Diao, Y., Xiao, W., Zhang, J. 2020. Effects of thermally induced configuration changes on rAAV genome’s enzymatic accessibility. Molecular Therapy. 18: 328-334. https://doi.org/10.1016/j.omtm.2020.06.005.Triclosan has a robust, yet reversible impact on human gut microbial composition in vitro.
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Firrman, J., Lee, J., Bittinger, K., Nunez, A., Bobokalonov, J., Arango-Argoty, G., Zhang, L., Zhang, G., Liu, L.S. 2020. Triclosan has a robust, yet reversible impact on human gut microbial composition in vitro. PLoS One. 15(6): 1-22. https://doi.org/10.1371/journal.pone.0234046.Impact of steviol glycosides and erythritol on the human and Cebus apella gut microbiome
                                                        

- (Peer Reviewed Journal)Mahalak, K.K., Firrman, J., Tomasula, M.M., Nunez, A., Lee, J., Bittinger, K., Rinaldi, W., Liu, L.S. 2019. Impact of steviol glycosides and erythritol on the human and Cebus apella gut microbiome. Journal of Agricultural and Food Chemistry. Pages A-I. https://doi.org/10.1021/acs.jafc.9b06181.Metabolic analysis of the regionally distinct gut microbial communities using an in vitro platform
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Tanes, C., Friedman, E., Bittinger, K., Daniel, S., Van Den Abbeele, P., Evans, B. 2019. Metabolic analysis of the regionally distinct gut microbial communities using an in vitro platform. Journal of Agriculture and Food Sciences. Pages A-L. https://doi.org/10.1021/acs.jafc.9b05202.Metagenomic assessment of the Cebus Apella gut microbiota
                                                        

- (Peer Reviewed Journal)Firrman, J., Tanes, C., Bittinger, K., Mahalak, K.K., Rinaldi, W., Liu, L.S. 2019. Metagenomic assessment of the Cebus Apella gut microbiota. American Journal of Primatology. https://doi.org/10.1002/ajp.23023.Rapid AAV neutralizing antibody determination with a cell-binding assay
                                                        

- (Peer Reviewed Journal)Guo, P., Zhang, J., Huang, J., Chew, H., Firrman, J., Sang, N., Diao, Y., Xiao, W. 2018. Rapid AAV neutralizing antibody determination with a cell-binding assay. Molecular Therapy. 13:40-46. https://doi.org/10.1016/j.omtm.2018.11.007.Applying in vitro culturing technology to establish and evaluate the human gut microbiota
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Van Den Abbeele, P., Tanes, C., Bittinger, K., Tomasula, P.M. 2019. Applying in vitro culturing technology to establish and evaluate the human gut microbiota. Journal of Visualized Experiments. 144:1-12. https://doi.org/10.3791/59054.A deficiency in cathelicidin reduces lung tumor growth in NNK/NTHi-induced A/J mice

- (Peer Reviewed Journal)Yao, Y., Wu, J., Zhou, H., Firrman, J., Xiao, W., Sun, Z., Li, D. 2018. A deficiency in cathelicidin reduces lung tumor growth in NNK/NTHi-induced A/J mice. American Journal of Cancer Research. 8(7):1190-1199.Establishing a mucosal gut microbial community in vitro using an an artificial simulator
                                                        

- (Peer Reviewed Journal)Liu, L.S., Firrman, J., Tanes, C., Bittinger, K., Thomas-Gahring, A.E., Wu, G.D., Van Den Abbeel, P., Tomasula, P.M. 2018. Establishing a mucosal gut microbial community in vitro using an an artificial simulator. PLoS One. 13(7):1-20. https://doi.org/10.1371/journal.pone.0197692.Analysis of temporal changes in growth and gene expression for commensal gut microbes in response to the polyphenol naringenin
                                                        

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Arango Argoty, G., Zhang, L., Tomasula, P.M., Wang, M., Pontious, S., Kobori, M., Xiao, W. 2018. Analysis of temporal changes in growth and gene expression for commensal gut microbes in response to the polyphenol naringenin. Microbial Insights. 11:1-12. https://doi.org/10.1177/1178636118775100.A robust system for production of superabundant VP1 recombinant AAV vectors
                                                        

- (Peer Reviewed Journal)Wang, Q., Wu, Z., Zhang, J., Firrman, J., Wei, H., Zhuang, Z., Liu, L.S., Miao, L., Hu, Y., Diao, Y., Xiao, W. 2017. A robust system for production of superabundant VP1 recombinant AAV vectors. Molecular Therapy. 7:146-156. https://doi.org/10.1016/j.omtm.2017.11.002.Apigenin impacts growth of the gut microbiota and alters gene expression of Enterococcus

- (Peer Reviewed Journal)Wang, M., Firrman, J., Zhang, L., Arango-Argoty, G., Tomasula, P.M., Liu, L.S., Xiao, W., Yam, K. 2017. Apigenin impacts growth of the gut microbiota and alters gene expression of Enterococcus. Molecules. 22(8):1292.Syngeneic AAV pseudo-particles potentiate gene transduction of AAV vectors

- (Peer Reviewed Journal)Wang, Q., Dong, B., Pokiniewski, K.A., Firrman, J., Wu, Z., Chin, M.P., Chen, X., Liu, L.S., Xu, R., Diao, Y., Xiao, W. 2017. Syngeneic AAV pseudo-particles potentiate gene transduction of AAV vectors. Molecular Therapy. doi: 10.1016/j.omtm.2016.12.004. PMCID: PMC5363323.The effect of quercetin on genetic expression of the commensal gut microbes bifidobacterium catenulatum, enterococcus caccae and ruminococcus gauvreauii

- (Peer Reviewed Journal)Firrman, J., Liu, L.S., Zhang, L., Argoty, G., Wang, M., Tomasula, P.M., Kobori, M., Pontious, S., Xiao, W. 2016. The effect of quercetin on genetic expression of the commensal gut microbes bifidobacterium catenulatum, enterococcus caccae and ruminococcus gauvreauii. Anaerobe. 42:130-141.  doi: 10.1016/j.anaerobe.2016.10.004.  PMID:27742572.High density recombinant AAV particles are competent vectors for in vivo transduction

- (Peer Reviewed Journal)Wang, Q., Firrman, J., Wu, Z., Pokiniewski, K.A., Valencia, C.A., Wang, H., Wei, H., Zhuang, Z., Liu, L.S., Wunder, S.L., Chin, M.S., Xu, R., Diao, Y., Dong, B., Xiao, W. 2016. High density recombinant AAV particles are competent vectors for in vivo transduction. Human Gene Therapy. doi: 10.1089/hum.2016.055. PMID: 27550145.The effect of naringenin on the genetic expression of commensal gut bacteria

- (Abstract Only)Firrman, J., Liu, L.S., Tomasula, P.M., Xiao, W. 2016. The effect of naringenin on the genetic expression of commensal gut bacteria. ASM Conference. 16(9):11.Evaluation of the biological differences of canine and human factor VIII in gene delivery: Implications in human hemophilia treatment

- (Peer Reviewed Journal)Wang, Q., Firrman, J., Moore, A., Liu, L.S., Kost, J., Xiao, W. 2016. Evaluation of the biological differences of canine and human factor VIII in gene delivery: Implications in human hemophilia treatment. Gene Therapy. 23(7):597-605. doi: 10.1038/gt.2016.34.Genetic expression profile analysis of the temporal inhibition of quercetin and naringenin on Lactobacillus rhamnosus GG

- (Peer Reviewed Journal)Liu, L.S., Firrman, J., Argoty, G.A., Tomasula, P.M., Kobori, M., Zhang, L., Xiao, W. 2016. Genetic expression profile analysis of the temporal inhibition of quercetin and naringenin on Lactobacillus rhamnosus GG. Journal of Probiotics & Health. 4:139. doi: 10.4172/2329-8901.1000139.Syngeneic AAV pseudo-vectors potentiates full vector transduction

- (Abstract Only)Wang, Q., Dong, B., Pokiniewski, K., Firrman, J., Wu, Z., Chin, M., Chen, X., Liu, L.S., Xu, R., Diao, Y., Xiao, W. 2016. Syngeneic AAV pseudo-vectors potentiates full vector transduction. Meeting Abstract. 19(5):11.


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