|
Aquilina, G., Bories, G., Chesson, A., Cocconcelli, P. S., Knecht, J. D., Dierick, N. A., Gralak, M. A., Gropp, J., Halle, I., Hogstrand, C., Kroker, R., Leng, L., Puente, S. L., Lundebye Haldorsen, A.K., Mantovani, A., Martelli, G., Mézes, M., Renshaw, D., Saarela, M., Sejrsen, K., and Westendorf, J. (2012). Guidance on the safety assessment of Enterococcus faecium in animal nutrition. EFSA Journal, 10(5), 2682.
Agarwal, A. (2008). Nobel Prize Winners in Physics. Delhi, India: APH Publishing.
Amann, R. I., Krumholz, L., and Stahl, D. A. (1990). Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. Journal of Bacteriology, 172(2), 762-770.
Amann, R. I., Ludwig, W., and Schleifer, K.-H. (1995). Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiological Reviews, 59(1), 143-169.
Anee, I. J., Alam, S., Begum, R. A., Shahjahan, R. M., and Khandaker, A. M. (2021). The role of probiotics on animal health and nutrition. The Journal of Basic and Applied Zoology, 82, 1-16.
Apprill, A. (2017). Marine animal microbiomes: toward understanding host–microbiome interactions in a changing ocean. Frontiers in Marine Science, 4, 222.
Bai, S., Zhang, P., Zhang, C., Du, J., Du, X., Zhu, C., Liu, J., Xie, P., and Li, S. (2021). Comparative study of the gut microbiota among four different marine mammals in an aquarium. Frontiers in Microbiology, 12, 769012.
Bermudez-Brito, M., Plaza-Díaz, J., Muñoz-Quezada, S., Gómez-Llorente, C., and Gil, A. (2012). Probiotic mechanisms of action. Annals of Nutrition and Metabolism, 61(2), 160-174.
Bocci, V. (1992). The neglected organ: bacterial flora has a crucial immunostimulatory role. Perspectives in Biology and Medicine, 35(2), 251-260.
Bossart, G. D. (2011). Marine mammals as sentinel species for oceans and human health. Veterinary Pathology, 48(3), 676-690.
Burokas, A., Moloney, R. D., Dinan, T. G., and Cryan, J. F. (2015). Microbiota regulation of the mammalian gut–brain axis. Advances in Applied Microbiology, 91, 1-62.
Cohen, S. H., Gerding, D. N., Johnson, S., Kelly, C. P., Loo, V. G., McDonald, L. C., et al. (2010). Clinical practice guidelines for Clostridium difficile infection in adults: 2010 update by the society for healthcare epidemiology of America (SHEA) and the infectious diseases society of America (IDSA). Infection Control & Hospital Epidemiology, 31(5), 431-455.
Cole, J. R., Chai, B., Farris, R. J., Wang, Q., Kulam-Syed-Mohideen, A., McGarrell, D. M., Bandela, A. M., Cardenas, E., Garrity, G. M., and Tiedje, J. M. (2007). The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucleic Acids Research, 35(suppl_1), D169-D172.
Costa, M. C., Arroyo, L. G., Allen-Vercoe, E., Stämpfli, H. R., Kim, P. T., Sturgeon, A., and Weese, J. S. (2012). Comparison of the fecal microbiota of healthy horses and horses with colitis by high throughput sequencing of the V3-V5 region of the 16S rRNA gene. Public Library of Science One 7(7), e41484.
Cruaud, P., Vigneron, A., Lucchetti-Miganeh, C., Ciron, P. E., Godfroy, A., and Cambon-Bonavita, M.-A. (2014). Influence of DNA extraction method, 16S rRNA targeted hypervariable regions, and sample origin on microbial diversity detected by 454 pyrosequencing in marine chemosynthetic ecosystems. Applied and Environmental Microbiology, 80(15), 4626-4639.
Cubillos-Ruiz, A., Alcantar, M. A., Donghia, N. M., Cárdenas, P., Avila-Pacheco, J., and Collins, J. J. (2022). An engineered live biotherapeutic for the prevention of antibiotic-induced dysbiosis. Nature Biomedical Engineering, 6(7), 910-921.
Cui, H., Li, Y., and Zhang, X. (2016). An overview of major metagenomic studies on human microbiomes in health and disease. Quantitative Biology, 4, 192-206.
Dallas, J. W., and Warne, R. W. (2022). Captivity and animal microbiomes: potential roles of microbiota for influencing animal conservation. Microbial Ecology, 1-19.
Dayan, K., Neufeld, D., Zissin, R., Bernheim, J., Paran, H., Schwartz, I., and Freund, U. (1996). Actinomycosis of the large bowel: unusual presentations and their surgical treatment. The European Journal of Surgery, 162(8), 657-660.
Delport, T. C., Power, M. L., Harcourt, R. G., Webster, K. N., and Tetu, S. G. (2016). Colony location and captivity influence the gut microbial community composition of the Australian sea lion (Neophoca cinerea). Applied and Environmental Microbiology, 82(12), 3440-3449.
Den Besten, G., Van Eunen, K., Groen, A. K., Venema, K., Reijngoud, D.-J., and Bakker, B. M. (2013). The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism. Journal of Lipid Research, 54(9), 2325-2340.
Dobell, C. (1932). Antony van Leeuwenhoek and his" Little Animals." Being Some Account of the Father of Protozoology and Bacteriology and his Multifarious Discoveries in these Disciplines. Collected, Translated, and Edited, from his Printed Works, Unpublished Manuscripts, and Contemporary Records. Published on the 300th Anniversary of his Birth. Nature, 130, 679–680.
Dubos, R. J. (1951). Louis Pasteur. Free lance of Science. AMA Arch Intern Med, 87(2), 327.
Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E., and Relman, D. A. (2005). Diversity of the human intestinal microbial flora. Science, 308(5728), 1635-1638.
Elliott, D. R., Wilson, M., Buckley, C. M., and Spratt, D. A. (2005). Cultivable oral microbiota of domestic dogs. Journal of Clinical Microbiology, 43(11), 5470-5476.
Embley, T., and Stackebrandt, E. (1994). The molecular phylogeny and systematics of the actinomycetes. Annual Review of Microbiology, 48(1), 257-289.
Enck, P., Zimmermann, K., Menke, G., Müller‐Lissner, S., Martens, U., and Klosterhalfen, S. (2008). A mixture of Escherichia coli (DSM 17252) and Enterococcus faecalis (DSM 16440) for treatment of the irritable bowel syndrome–a randomized controlled trial with primary care physicians. Neurogastroenterology & Motility, 20(10), 1103-1109.
Erwin, P. M., Rhodes, R. G., Kiser, K. B., Keenan-Bateman, T. F., McLellan, W. A., and Pabst, D. A. (2017). High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales. Scientific Reports, 7(1), 7205.
Finegold, S. M., Vaisanen, M.-L., Molitoris, D. R., Tomzynski, T. J., Song, Y., Liu, C., Collins, M. D., and Lawson, P. A. (2003). Cetobacterium somerae sp. nov. from human feces and emended description of the genus Cetobacterium. Systematic and Applied Microbiology, 26(2), 177-181.
Folkens, P. A., and Reeves, R. R. (2002). Guide to Marine Mammals of the World, New York, USA: Knopf doubleday publishing.
Foster, G., Ross, H., Naylor, R., Collins, M., Ramos, C. P., Garayzabal, F. F., and Reid, R. (1995). Cetobacterium ceti gen. nov., sp. nov., a new Gram‐negative obligate anaerobe from sea mammals. Letters in Applied Microbiology, 21(3), 202-206.
Foster, J. A., and Neufeld, K. A. M. (2013). Gut–brain axis: how the microbiome influences anxiety and depression. Trends in Neurosciences, 36(5), 305-312.
Fuhrman, J., McCallum, K., and Davis, A. (1993). Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans. Applied and Environmental Microbiology, 59(5), 1294-1302.
Gan, L., Xu, Z., Ma, J., Xu, C., Wang, X., Chen, K., Chen, L. Q., and Li, E. (2016). Effects of salinity on growth, body composition, muscle fatty acid composition, and antioxidant status of juvenile Nile tilapia Oreochromis niloticus (Linnaeus, 1758). Journal of Applied Ichthyology, 32(2), 372-374.
Gibson, G. R., and Roberfroid, M. B. (1995). Dietary modulation of the human colonic microbiota: introducing the concept of prebiotics. The Journal of Nutrition, 125(6), 1401-1412.
Glad, T., Kristiansen, V. F., Nielsen, K. M., Brusetti, L., Wright, A.-D. G., and Sundset, M. A. (2010). Ecological characterisation of the colonic microbiota in arctic and sub-arctic seals. Microbial Ecology, 60, 320-330.
Grice, E. A., Kong, H. H., Renaud, G., Young, A. C., Bouffard, G. G., Blakesley, R. W., Wolfsberg, T. G., Turner, M. L., and Segre, J. A. (2008). A diversity profile of the human skin microbiota. Genome Research, 18(7), 1043-1050.
Handelsman, J., Rondon, M. R., Brady, S. F., Clardy, J., and Goodman, R. M. (1998). Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products. Chemistry & Biology, 5(10), R245-R249.
Holman, D. B., Brunelle, B. W., Trachsel, J., and Allen, H. K. (2017). Meta-analysis to define a core microbiota in the swine gut. MSystems, 2(3), e00004-00017.
Hopkins, M., Sharp, R., and Macfarlane, G. (2001). Age and disease related changes in intestinal bacterial populations assessed by cell culture, 16S rRNA abundance, and community cellular fatty acid profiles. Gut, 48(2), 198-205.
Huttenhower, C., Gevers, D., Knight, R., Abubucker, S., Badger, J. H., Chinwalla, A. T., Creasy, H. H., Earl, A. M., FitzGerald, M. G., Fulton, R. S., et al.(2012). Structure, function and diversity of the healthy human microbiome. Nature, 486(7402), 207-214.
Jakubiec-Krzesniak, K., Rajnisz-Mateusiak, A., Guspiel, A., Ziemska, J., and Solecka, J. (2018). Secondary metabolites of actinomycetes and their antibacterial, antifungal and antiviral properties. Polish Journal of Microbiology, 67(3), 259-272.
Krawczyk, B., Wityk, P., Gałęcka, M., and Michalik, M. (2021). The many faces of Enterococcus spp. commensal, probiotic and opportunistic pathogen. Microorganisms, 9(9), 1900.
Kuo, J., Yang, Y.-T., Lu, M.-C., Wong, T.-Y., Sung, P.-J., and Huang, Y.-S. (2019). Antimicrobial activity and diversity of bacteria associated with Taiwanese marine sponge Theonella swinhoei. Annals of Microbiology, 69, 253-265.
Ley, R. E., Hamady, M., Lozupone, C., Turnbaugh, P. J., Ramey, R. R., Bircher, J. S., Schlegel, M. L., Tucker, T. A., Schrenel, M. D., Knight, R., and Gordon, J. I. (2008). Evolution of mammals and their gut microbes. Science, 320(5883), 1647-1651.
Ley, R. E., Turnbaugh, P. J., Klein, S., and Gordon, J. I. (2006). Human gut microbes associated with obesity. Nature, 444(7122), 1022-1023.
Lo, C. I., Mishra, A. K., Padhmanabhan, R., Samb Ba, B., Sow, A. G., Robert, C., Couderc, C., Faye, N., Raoult, D., Fournier, P. E., and Fenollar, F. (2013). Non-contiguous finished genome sequence and description of Clostridium dakarense sp. nov. Standards in Genomic Sciences, 9, 14-27.
Long-Smith, C., O'Riordan, K. J., Clarke, G., Stanton, C., Dinan, T. G., and Cryan, J. F. (2020). Microbiota-gut-brain axis: new therapeutic opportunities. Annual Review of Pharmacology and Toxicology, 60, 477-502.
Magnúsdóttir, S., Ravcheev, D., de Crécy-Lagard, V., and Thiele, I. (2015). Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes. Frontiers in Genetics, 6, 148.
Martiny, J. B. H., Bohannan, B. J., Brown, J. H., Colwell, R. K., Fuhrman, J. A., Green, J. L., Horner-Devine, M. C., Kane, M., Krumins, J. A., Kuske, C. R., Morin, P. J., Naeem, S., Øvreås, L., Reysenbach, A. L., Smith, V. H., and Kuske, C. R. (2006). Microbial biogeography: putting microorganisms on the map. Nature Reviews Microbiology, 4(2), 102-112.
Mazmanian, S. K., Liu, C. H., Tzianabos, A. O., and Kasper, D. L. (2005). An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system. Cell, 122(1), 107-118.
Metges, C. C. (2000). Contribution of microbial amino acids to amino acid homeostasis of the host. The Journal of Nutrition, 130(7), 1857S-1864S.
Miller, D. L., Brazer, S., Murdoch, D., Reller, L. B., and Corey, G. R. (2001). Significance of Clostridium tertium bacteremia in neutropenic and nonneutropenic patients: review of 32 cases. Clinical Infectious Diseases, 32(6), 975-978.
Montalto, M., Arancio, F., Izzi, D., Cuoco, L., Curigliano, V., Manna, R., and Gasbarrini, G. (2002). Probiotics: history, definition, requirements and possible therapeutic applications. Annali Italiani di Medicina Interna, 17(3), 157-165.
Mountzouris, K., Tsitrsikos, P., Palamidi, I., Arvaniti, A., Mohnl, M., Schatzmayr, G., and Fegeros, K. (2010). Effects of probiotic inclusion levels in broiler nutrition on growth performance, nutrient digestibility, plasma immunoglobulins, and cecal microflora composition. Poultry Science, 89(1), 58-67.
Murray, P. R., Baron, E. J., Pfaller, M. A., Tenover, F. C., Yolken, R. H., and Morgan, D. R. (1995). Manual of Clinical Microbiology (6th edn). Trends in Microbiology, 3(11), 449-449.
Musso, G., Gambino, R., and Cassader, M. (2011). Interactions between gut microbiota and host metabolism predisposing to obesity and diabetes. Annual Review of Medicine, 62, 361-380.
Nelson, T. M., Rogers, T. L., and Brown, M. V. (2013). The gut bacterial community of mammals from marine and terrestrial habitats. Public Library of Science One, 8(12), e83655.
Neuman, C., Hatje, E., Zarkasi, K. Z., Smullen, R., Bowman, J. P., and Katouli, M. (2016). The effect of diet and environmental temperature on the faecal microbiota of farmed Tasmanian Atlantic Salmon (Salmo salar). Aquaculture Research, 47(2), 660-672.
Olsen, U., International Human Genome Sequencing Consortium (2001). Initial sequencing and analysis of the human genome. Nature, 409(6822), 860-921.
Parry, D. (1949). The structure of whale blubber, and a discussion of its thermal properties. Journal of Cell Science, 3(9), 13-25.
Plaza-Diaz, J., Ruiz-Ojeda, F. J., Gil-Campos, M., and Gil, A. (2019). Mechanisms of action of probiotics. Advances in Nutrition, 10(1), S49-S66.
Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., Yamada, T., et al. (2010). A human gut microbial gene catalogue established by metagenomic sequencing. Nature, 464(7285), 59-65.
Rijkers, G. T., Bengmark, S., Enck, P., Haller, D., Herz, U., Kalliomaki, M., Kudo, S., Lenoir-Wijnkoop, I., Mercenier, A., Myllyluoma, E., Rabot, S., Rafter, J., Szajewska, H., Watzl, B., Wells, J., Wolvers, D., and Myllyluoma, E. (2010). Guidance for substantiating the evidence for beneficial effects of probiotics: current status and recommendations for future research. The Journal of Nutrition, 140(3), 671S-676S.
Ringø, E., and Strøm, E. (1994). Microflora of Arctic charr, Salvelinus alpinus (L.): gastrointestinal microflora of free‐living fish and effect of diet and salinity on intestinal microflora. Aquaculture Research, 25(6), 623-629.
Roberfroid, M. (2000). Prebiotics and probiotics: Are they functional food ingredients. Modern Nutrition. Florida, USA: CRC press.
Roeselers, G., Mittge, E. K., Stephens, W. Z., Parichy, D. M., Cavanaugh, C. M., Guillemin, K., and Rawls, J. F. (2011). Evidence for a core gut microbiota in the zebrafish. International Society for Microbial Ecology , 5(10), 1595-1608.
Salazar, J., Durán, P., Díaz, M. P., Chacín, M., Santeliz, R., Mengual, E., Gutiérrez, E., León, X. O., Díaz, A., Bernal, M., Escalona, D., Parra Hernández, L. A., and Bernal, M. (2023). Exploring the relationship between the gut microbiota and ageing: a possible age modulator. International Journal of Environmental Research and Public Health, 20(10), 5845.
Sanders, J. G., Beichman, A. C., Roman, J., Scott, J. J., Emerson, D., McCarthy, J. J., and Girguis, P. R. (2015). Baleen whales host a unique gut microbiome with similarities to both carnivores and herbivores. Nature Communications, 6(1), 8285.
Savage, D. C. (1977). Microbial ecology of the gastrointestinal tract. Annual Review of Microbiology, 31(1), 107-133.
Šeol, B., Gomerčić, M. Đ., Naglić, T., Gomerčić, T., Galov, A., and Gomerčić, H. (2006). Isolation of Clostridium tertium from a Striped Dolphin (Stenella coeruleoalba) in the Adriatic Sea. Journal of Wildlife Diseases, 42(3), 709-711.
Shanahan, F. (2002). The host–microbe interface within the gut. Best Practice & Research Clinical Gastroenterology, 16(6), 915-931.
Shendure, J., and Ji, H. (2008). Next-generation DNA sequencing. Nature Biotechnology, 26(10), 1135-1145.
Speirs, G., Warren, R., and Ramp, A. (1988). Clostridium tertium septicemia in patients with neutropenia. Journal of Infectious Diseases, 158(6), 1336-1340.
Struntz, D., Mclellan, W. A., Dillaman, R., Blum, J. E., Kucklick, J. R., and Pabst, D. A. (2004). Blubber development in bottlenose dolphins (Tursiops truncatus). Journal of Morphology, 259(1), 7-20.
Suau, A., Bonnet, R., Sutren, M., Godon, J.-J., Gibson, G. R., Collins, M. D., and Doré, J. (1999). Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Applied and Environmental Microbiology, 65(11), 4799-4807.
Sullam, K. E., Essinger, S. D., Lozupone, C. A., O’connor, M. P., Rosen, G. L., Knight, R., Kilham, S. S., and Russell, J. A. (2012). Environmental and ecological factors that shape the gut bacterial communities of fish: a meta‐analysis. Molecular Ecology, 21(13), 3363-3378.
Suzuki, A., Segawa, T., Sawa, S., Nishitani, C., Ueda, K., Itou, T., Asahina, K., Suzuki, M. (2019). Comparison of the gut microbiota of captive common bottlenose dolphins Tursiops truncatus in three aquaria. Journal of Applied Microbiology, 126(1), 31-39.
Thursby, E., and Juge, N. (2017). Introduction to the human gut microbiota. Biochemical Journal, 474(11), 1823-1836.
Tsuchiya, C., Sakata, T., and Sugita, H. (2008). Novel ecological niche of Cetobacterium somerae, an anaerobic bacterium in the intestinal tracts of freshwater fish. Letters in Applied Microbiology, 46(1), 43-48.
Umesaki, Y., Okada, Y., Matsumoto, S., Imaoka, A., and Setoyama, H. (1995). Segmented filamentous bacteria are indigenous intestinal bacteria that activate intraepithelial lymphocytes and induce MHC class II molecules and fucosyl asialo GM1 glycolipids on the small intestinal epithelial cells in the ex‐germ‐free mouse. Microbiology and Immunology, 39(8), 555-562.
van Kessel, M. A., Dutilh, B. E., Neveling, K., Kwint, M. P., Veltman, J. A., Flik, G., , Jetten, M. S., Klaren, P. H., and Op den Camp, H. J. (2011). Pyrosequencing of 16S rRNA gene amplicons to study the microbiota in the gastrointestinal tract of carp (Cyprinus carpio L.). AMB Express, 1(1), 1-9.
Vemuri, R., Gundamaraju, R., Shastri, M. D., Shukla, S. D., Kalpurath, K., Ball, M., Tristram, S., Shankar, E. M., Ahuja, K., and Eri, R. (2018). Gut microbial changes, interactions, and their implications on human lifecycle: an ageing perspective. BioMed Research International, 2018.
Waksman, S. A., Schatz, A., and Reynolds, D. M. (2010). Production of antibiotic substances by actinomycetes. Annals of the New York Academy of Sciences, 1213(1), 112.
Weinstock, G. M. (2012). Genomic approaches to studying the human microbiota. Nature, 489(7415), 250-256.
Wilson, D. E., and Reeder, D. M. (2005). Mammal Species of the World (Vol. 1). MD, USA : JHU press.
Wu, G. D., Chen, J., Hoffmann, C., Bittinger, K., Chen, Y.-Y., Keilbaugh, S. A., Bewra, M., Knights, D., Walters, W. A., Knight, R., Sinha, R., Gilroy, E., Gupta, K., Baldassano, R., Nessel, L., Li, H., Bushman, F. D., and Knight, R. (2011). Linking long-term dietary patterns with gut microbial enterotypes. Science, 334(6052), 105-108.
Wu, S., Wang, G., Angert, E. R., Wang, W., Li, W., and Zou, H. (2012). Composition, diversity, and origin of the bacterial community in grass carp intestine. Public Library of Science One, 7(2), e30440.
Zhou, Z., Tang, L., Yan, L., Jia, H., Xiong, Y., Shang, J., Shao, C., Zhang, Q., Wang, H., He, L., Hu, D., and Zheng, L. (2022). Wild and captive environments drive the convergence of gut microbiota and impact health in threatened equids. Frontiers in Microbiology, 13, 832410.
衛生福利部,(2018)。訂定「原料『糞腸球菌(Enterococcus faecalis)』及『屎腸球菌(Enterococcus faecium)』之使用限制」,並自中華民國一百零八年七月一日生效。衛授食字第1071302587。https://www.fda.gov.tw/
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