Methodological Approaches Used to Assess Fish Gastrointestinal Communities - Aquaculture Nutrition: Gut Health, Probiotics and Prebiotics - page 121

Asfie, M., Yoshijima, T. and Sugita, H. (2003) Characterization of the goldfish fecal microflora by the fluores-
cent in situ hybridization method. Fisheries Science 69 , 21-26.
Askarian, F., Sperstad, S., Merrifield, D.L., Ray, A.K. and Ringø, E. (2012) The effect of different feeding
regimes on enzymatic activities of Atlantic cod ( Gadus morhua L.) gut microbiota. Aquaculture Research
44 , 841-846.
Aubin, J., Gatesoupe, F.-J., Labbé, L. and Lebrun, L. (2005) Trial of probiotics to prevent the vertebral col-
umn compression syndrome in rainbow trout ( Oncorhynchus mykiss Walbaum). Aquaculture Research 36 ,
758-767.
Auty, M.A.E., Gardiner, G.E., McBrearty, S.J., O'Sullivan, E.O., Mulvihill, D.M., Collins, J.K., Fitzgerald,
G.F., Stanton, C. and Ross, R.P. (2001) Direct insitu viability assessment of bacteria in probiotic dairy prod-
ucts using viability staining in conjunction with confocal scanning laser microscopy. AppliedEnvironmental
Microbiology 67 , 420-425.
Avella, M.A., Olivotto, I., Silvi, S., Place, A.R. and Carnevali, O. (2010) Effect of dietary probiotics on
clownfish: a molecular approach to define how lactic acid bacteria modulate development in a marine fish.
American Journal of Physiology: Regulatory, Integrative and Comparative Physiology 298 , 359-371.
Avella, M.A., Place, A., Du, S.-J., Williams, E., Silvi, S., Zohar, Y. and Carnevali, O. (2012) Lactobacillus
rhamnosus accelerates zebrafish backbone calcification and gonadal differentiation: effects on GnRH and
IGF systems. PLOS ONE 7 (9), e45572. DOI 10.1371/journal.pone.0045572.
Bagheri, T., Hedayati, S.A., Yavari, V., Alizade, M. and Farzanfar, A. (2008) Growth, survival and gut microbial
load of rainbow trout ( Oncorhynchus mykiss ) fry given diet supplemented with probiotic during the two
months of first feeding. Turkish Journal of Fisheries and Aquatic Sciences 8 , 43-48.
Balcázar, J.L., de Blas, I., Ruiz-Zarzuela, I., Vendrell, D., Calvo, A.C., Márquez, I., Gironés, O. and Muzquiz,
J.L. (2007a) Changes in intestinal microbiota and humoral immune response following probiotic adminis-
tration in brown trout ( Salmo trutta ). British Journal of Nutrition 97 , 522-527.
Balcázar, J.L., de Blas, I., Ruiz-Zarzuela, I., Vendrell, D., Gironés, O. and Muzquiz, J.L. (2007b) Enhancement
of the immune response and protection induced by probiotic lactic acid bacteria against furunculosis in
rainbow trout ( Oncorhynchus mykiss ). FEMS Immunology and Medical Microbiology 51 , 185-193.
Balcázar, J.L., Vendrell, D., de Blas, I., Ruiz-Zarzuela, I., Muzquiz, J.L. and Girone, O. (2008) Characterization
of probiotic properties of lactic acid bacteria isolated from intestinal microbiota of fish. Aquaculture 278 ,
188-191.
Balcázar, J.L., Vendrell, D., de Blas, I., Ruiz-Zarzuela, I. and Múzquiz, J.L. (2009) Effect of Lactococcuslactis
CLFP 100 and Leuconostoc mesenteroides CLFP 196 on Aeromonas salmonicida infection in brown trout
( Salmo trutta ). Journal of Molecular Microbiology and Biotechnology 17 , 153-157.
Bartram, A., Lynch, M.D.J., Stearns, J.C., Moreno-Hagelsieb, G. and Neufeld, J.D. (2011) Generation of
multi-million 16S rRNA gene libraries from complex microbial communities by assembling paired-end
Illumina reads. Applied Environmental Microbiology 77 , 3846-3852.
Ben Amor, K., Vaughan, E.E. and de Vos, W.M. (2007) Advanced molecular tools for the identification of
lactic acid bacteria. Journal of Nutrition 137 , 741S-747S.
Bjornsdottir, R., Johannsdottir, J., Coe, J., Smaradottir, H., Agustsson, T., Sigurgisladottir, S. and Gudmunds-
dottir, B.K. (2009) Survival and quality of halibut larvae ( Hippoglossus hippoglossus L.) in intensive farm-
ing: possible impact of the intestinal bacterial community. Aquaculture 286 , 53-63.
Bottari, B., Ercolini, D., Gatti, M. and Neviani, E. (2006) Application of FISH technology for microbiological
analysis: current state and prospects. Applied Microbiology and Biotechnology 73 , 485-494.
Boulos, L., Prevost, M., Barbeau, B., Coallier, J. and Desjardins, R. (1999) LIVE/DEAD ® Bac Light™: appli-
cation of a new rapid staining method for direct enumeration of viable and total bacteria in drinking water.
Journal of Microbiological Methods 37 , 77-86.
Cahill, M.C. (1990) Bacterial flora of fishes: a review. Microbial Ecology 19 , 21-41.
Callanan, M. (2005) Mining the probiotic genome: advanced strategies, enhanced benefits, perceived obstacles.
Current Pharmaceutical Design 11 , 25-36.
Carda-Diéguez, M., Mira, A. and Fouz, B. (2014) Pyrosequencing survey of intestinal microbiota diversity in
cultured sea bass ( Dicentrarchus labrax ) fed functional diets. FEMS Microbial Ecology 87 , 451-459.
Carnevali, O., de Vivo, L., Sulpizio, R., Gioacchini, G., Olivotto, I., Silvi, S. and Cresci, A. (2006) Growth
improvement by probiotic in European sea bass juveniles ( Dicentrarchus labrax , L.), with particular atten-
tion to IGF-1, myostatin and cortisol gene expression. Aquaculture 258 , 430-438.
Clements, K.D., Gleeson, V.P. and Slaytor, M. (1994) Short-chain fatty acid metabolism in temperate marine
herbivorous fish. Journal of Comparative Physiology B 164 , 372-377.