Mathews F, Orros M, McLaren G, Gelling M, Foster R. Keeping fit on the ark: assessing the suitability of captive-bred animals for release. Biol Conserv. 2005;121(4):569–77.
Article
Google Scholar
Fischer J, Lindenmayer DB. An assessment of the published results of animal relocations. Biol Conserv. 2000;96(1):1–11.
Article
Google Scholar
Snyder NFR, Derrickson SR, Beissinger SR, Wiley JW, Smith TB, Toone WD, Miller B. Limitations of captive breeding in endangered species recovery. Conserv Biol. 1996;10(2):338–48.
Article
Google Scholar
Toone WD, Wallace MP. In: Olney PJS, Mace GM, Feistner ATC, editors. The extinction in the wild and reintroduction of the California condor (Gymnogyps californianus), in creative conservation: interactive management of wild and captive animals. Dordrecht: Springer Netherlands; 1994. p. 411–9.
Google Scholar
Spalton JA, Lawerence MW, Brend SA. Arabian oryx reintroduction in Oman: successes and setbacks. Oryx. 2009;33(2):168–75.
Article
Google Scholar
Miller B, Biggins D, Hanebury L, Vargas A. In: Olney PJS, Mace GM, Feistner ATC, editors. Reintroduction of the black-footed ferret (Mustela nigripes), in creative conservation: interactive management of wild and captive animals. Dordrecht: Springer Netherlands; 1994. p. 455–64.
Google Scholar
Seddon PJ, Armstrong DP, Maloney RF. Developing the science of reintroduction biology. Conserv Biol. 2007;21(2):303–12.
Article
Google Scholar
Kinross JM, Darzi AW, Nicholson JK. Gut microbiome-host interactions in health and disease. Genome Med. 2011;3(3):14.
Article
Google Scholar
Cho I, Blaser MJ. The human microbiome: at the interface of health and disease. Nat Rev Genet. 2012;13(4):260.
Article
CAS
Google Scholar
Kau AL, Ahern PP, Griffin NW, Goodman AL, Gordon JI. Human nutrition, the gut microbiome and the immune system. Nature. 2011;474(7351):327.
Article
CAS
Google Scholar
Flint HJ, Scott KP, Louis P, Duncan SH. The role of the gut microbiota in nutrition and health. Nat Rev Gastroenterol Hepatol. 2012;9(10):577.
Article
CAS
Google Scholar
Cryan JF, Dinan TG. Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour. Nat Rev Neurosci. 2012;13(10):701.
Article
CAS
Google Scholar
Devaraj S, Hemarajata P, Versalovic J. The human gut microbiome and body metabolism: implications for obesity and diabetes. Clin Chem. 2013;59(4):617–28.
Article
CAS
Google Scholar
Hartstra AV, Bouter KE, Bäckhed F, Nieuwdorp M. Insights into the role of the microbiome in obesity and type 2 diabetes. Diabetes Care. 2015;38(1):159–65.
Article
CAS
Google Scholar
Frank DN, Robertson CE, Hamm CM, Kpadeh Z, Zhang T, Chen H, Zhu W, Sartor RB, Boedeker EC, Harpaz N. Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases. Inflamm Bowel Dis. 2011;17(1):179–84.
Article
Google Scholar
Fava F, Danese S. Intestinal microbiota in inflammatory bowel disease: friend of foe? World J Gastroenterol: WJG. 2011;17(5):557.
Article
CAS
Google Scholar
DiBaise JK, Zhang H, Crowell MD, Krajmalnik-Brown R, Decker GA, Rittmann BE. Gut microbiota and its possible relationship with obesity. Mayo Clin Proc. 2008;83(4).
Article
Google Scholar
Honda K, Littman DR. The microbiome in infectious disease and inflammation. Annu Rev Immunol. 2012;30:759–95.
Article
CAS
Google Scholar
Clayton JB, Vangay P, Huang H, Ward T, Hillmann BM, Al-Ghalith GA, Travis DA, Long HT, Van Tuan B, Van Minh V. Captivity humanizes the primate microbiome. Proc Natl Acad Sci. 2016;113(37):10376–81.
Article
CAS
Google Scholar
Kohl KD, Skopec MM, Dearing MD. Captivity results in disparate loss of gut microbial diversity in closely related hosts. Conserv Physiol. 2014;2(1):cou009.
Article
Google Scholar
McKenzie VJ, Song SJ, Delsuc F, Prest TL, Oliverio AM, Korpita TM, Alexiev A, Amato KR, Metcalf JL, Kowalewski M. The effects of captivity on the mammalian gut microbiome. Integr Comp Biol. 2017;57(4):690–704.
Article
Google Scholar
Cheng Y, Fox S, Pemberton D, Hogg C, Papenfuss AT, Belov K. The Tasmanian devil microbiome—implications for conservation and management. Microbiome. 2015;3(1):76.
Article
Google Scholar
Amato KR, Yeoman CJ, Kent A, Righini N, Carbonero F, Estrada A, Gaskins HR, Stumpf RM, Yildirim S, Torralba M. Habitat degradation impacts black howler monkey (Alouatta pigra) gastrointestinal microbiomes. ISME J. 2013;7(7):1344.
Article
CAS
Google Scholar
Liukkonen-Anttila T, Saartoala R, Hissa R. Impact of hand-rearing on morphology and physiology of the capercaillie (Tetrao urogallus). Comp Biochem Physiol A Mol Integr Physiol. 2000;125(2):211–21.
Article
CAS
Google Scholar
Wienemann T, Schmitt-Wagner D, Meuser K, Segelbacher G, Schink B, Brune A, Berthold P. The bacterial microbiota in the ceca of Capercaillie (Tetrao urogallus) differs between wild and captive birds. Syst Appl Microbiol. 2011;34(7):542–51.
Article
Google Scholar
Seiler C, Angelstam P, Bergmann H-H. Conservation releases of captive-reared grouse in Europe–what do we know and what do we need. Cahiers d’Ethologie. 2000;20:235–52.
Google Scholar
Jesús-Laboy D, Kassandra M, Godoy-Vitorino F, Piceno YM, Tom LM, Pantoja-Feliciano IG, Rivera-Rivera MJ, Andersen GL, Domínguez-Bello MG. Comparison of the fecal microbiota in feral and domestic goats. Genes. 2012;3(1):1–18.
Article
Google Scholar
Alfano N, Courtiol A, Vielgrader H, Timms P, Roca AL, Greenwood AD. Variation in koala microbiomes within and between individuals: effect of body region and captivity status. Sci Rep. 2015;5:10189.
Article
CAS
Google Scholar
Loh R, Bergfeld J, Hayes D, O'hara A, Pyecroft S, Raidal S, Sharpe R. The pathology of devil facial tumor disease (DFTD) in Tasmanian devils (Sarcophilus harrisii). Vet Pathol. 2006;43(6):890–5.
Article
CAS
Google Scholar
Pye RJ, Pemberton D, Tovar C, Tubio JM, Dun KA, Fox S, Darby J, Hayes D, Knowles GW, Kreiss A. A second transmissible cancer in Tasmanian devils. Proc Natl Acad Sci. 2016;113(2):374–9.
Article
CAS
Google Scholar
Lazenby BT, Tobler MW, Brown WE, Hawkins CE, Hocking GJ, Hume F, Huxtable S, Iles P, Jones ME, Lawrence C. Density trends and demographic signals uncover the long-term impact of transmissible cancer in Tasmanian devils. J Appl Ecol. 2018;55(3):1368–79.
Article
Google Scholar
Hogg C, Lee A, Hibbard C. Managing a metapopulation: intensive to wild and all the places in between. In: Hoogs SFCJ, Pemberton D, Belov K, editors. Saving the Tasmanian Devil: recovery through science based managment. in press. Melbourne: CSIRO Publishing.
Wise P, Lee D, Peck S, Clarke J, Thalmann S, Hockley J, Schaap D, Pemberton D. The conservation introduction of Tasmanian devils to Maria Island National Park: a response to devil facial tumor disease (DFTD). Glob Re-introduction Perspect. 2016:166–71.
Fox S, Seddon PJ. Wild devil recovery: managing devil in the presence of disease. In: Hoogs SFCJ, Pemberton D, Belov K, editors. Saving the Tasmanian Devil: recovery through science based management. in press. Melbourne: CSIRO publishing. p. 141–8.
Wise P, Peck S, Clarke J, Hogg CJ. Conservation introduction of Tasmanian devils to Maria Island: a managed response to DFTD. In: Hoogs SFCJ, Pemberton D, Belov K, editors. Saving the Tasmanian Devil: recovery through science based management. in press. Melboune: CSIRO Publishing.
Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, Gordon JI. An obesity-associated gut microbiome with increased capacity for energy harvest. nature. 2006;444(7122):1027.
Article
Google Scholar
Le Chatelier E, Nielsen T, Qin J, Prifti E, Hildebrand F, Falony G, Almeida M, Arumugam M, Batto J-M, Kennedy S. Richness of human gut microbiome correlates with metabolic markers. Nature. 2013;500(7464):541.
Article
Google Scholar
Izzard S, Barnard O, Schaap D. Managing and maintaining wild temperament and behaviours in captivity. In: Hoogs SFCJ, Pemberton D, Belov K, editors. Saving the Tasmanian Devil: recovery through science based management. in press. Melbourne: CSIRO Publishing.
Hawkins CE, Baars C, Hesterman H, Hocking GJ, Jones ME, Lazenby B, Mann D, Mooney N, Pemberton D, Pyecroft S, Restani M, Wiersma J. Emerging disease and population decline of an island endemic, the Tasmanian devil Sarcophilus harrisii. Biol Conserv. 2006;131(2):307–24.
Article
Google Scholar
Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet C, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F. QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science. PeerJ Preprints. 2018. No. e27295v1.
Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP. DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods. 2016;13(7):581.
Article
CAS
Google Scholar
Mandal S, Van Treuren W, White RA, Eggesbø M, Knight R, Peddada SD. Analysis of composition of microbiomes: a novel method for studying microbial composition. Microb Ecol Health Dis. 2015;26(1):27663.
PubMed
Google Scholar
Eigeland KA, Lanyon JM, Trott DJ, Ouwerkerk D, Blanshard W, Milinovich GJ, Gulino L-M, Martinez E, Merson S, Klieve AV. Bacterial community structure in the hindgut of wild and captive dugongs (Dugong dugon). Aquat Mamm. 2012;38(4):402.
Article
Google Scholar
Maurice CF, Knowles SC, Ladau J, Pollard KS, Fenton A, Pedersen AB, Turnbaugh PJ. Marked seasonal variation in the wild mouse gut microbiota. The ISME journal. 2015;9(11):2423.
Article
CAS
Google Scholar
Bobbie CB, Mykytczuk N, Schulte-Hostedde AI. Temporal variation of the microbiome is dependent on body region in a wild mammal (Tamiasciurus hudsonicus). FEMS Microbiol Ecol. 2017;93(7).
Song SJ, Lauber C, Costello EK, Lozupone CA, Humphrey G, Berg-Lyons D, Caporaso JG, Knights D, Clemente JC, Nakielny S. Cohabiting family members share microbiota with one another and with their dogs. elife. 2013;2:e00458.
Article
Google Scholar
Hyde ER, Navas-Molina JA, Song SJ, Kueneman JG, Ackermann G, Cardona C, Humphrey G, Boyer D, Weaver T, Mendelson JR. The oral and skin microbiomes of captive komodo dragons are significantly shared with their habitat. Msystems. 2016;1(4):e00046–16.
Article
Google Scholar
Llewellyn MS, McGinnity P, Dionne M, Letourneau J, Thonier F, Carvalho GR, Creer S, Derome N. The biogeography of the Atlantic salmon (Salmo salar) gut microbiome. ISME J. 2015;10(5):1280.
Article
Google Scholar
Lowrey L, Woodhams DC, Tacchi L, Salinas I. Topographical mapping of the rainbow trout (Oncorhynchus mykiss) microbiome reveals a diverse bacterial community in the skin with antifungal properties. Appl Environ Microbiol. 2015. https://doi.org/10.1128/AEM.01826-15.
Article
CAS
Google Scholar
Bano N, deRae Smith A, Bennett W, Vasquez L, Hollibaugh JT. Dominance of mycoplasma in the guts of the Long-jawed Mudsucker, Gillichthys mirabilis, from five California salt marshes. Environ Microbiol. 2007;9(10):2636–41.
Article
CAS
Google Scholar
King GM, Judd C, Kuske CR, Smith C. Analysis of stomach and gut microbiomes of the eastern oyster (Crassostrea virginica) from coastal Louisiana, USA. PLoS One. 2012;7(12):e51475.
Article
CAS
Google Scholar
Givens CE, Ransom B, Bano N, Hollibaugh JT. Comparison of the gut microbiomes of 12 bony fish and 3 shark species. Mar Ecol Prog Ser. 2015;518:209–23.
Article
Google Scholar
Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, Gordon JI. Evolution of mammals and their gut microbes. Science. 2008;320(5883):1647–51.
Article
CAS
Google Scholar
Pemberton D, Renouf D. A field-study of communication and social-behavior of the Tasmanian devil at feeding sites. Aust J Zool. 1993;41(5):507–26.
Article
Google Scholar
Webster NS, Cobb RE, Soo R, Anthony SL, Battershill CN, Whalan S, Evans-Illidge E. Bacterial community dynamics in the marine sponge Rhopaloeides odorabile under in situ and ex situ cultivation. Mar Biotechnol. 2011;13(2):296–304.
Article
CAS
Google Scholar
Becker MH, Richards-Zawacki CL, Gratwicke B, Belden LK. The effect of captivity on the cutaneous bacterial community of the critically endangered Panamanian golden frog (Atelopus zeteki). Biol Conserv. 2014;176:199–206.
Article
Google Scholar
Cheng Y, Makara M, Peel E, Fox S, Papenfuss AT, Belov K. Tasmanian devils with contagious cancer exhibit a constricted T-cell repertoire diversity. Commun Biol. 2019;2(1):99.
Article
Google Scholar