Ecological Characterisation of the Colonic Microbiota in Arctic and Sub-Arctic Seals

Microbial Ecology

Volumn 60, Issue 2, 2010, Pages 320-330

  Glad, Trine ^a   Kristiansen, Vibeke Fam ^a   Nielsen, Kaare M ^a,b   Brusetti, Lorenzo ^c   Wright, André Denis G ^d   Sundset, Monica A ^a  

^a UNIVERSITY OF TROMSØ   (Norway)

^b Research Park   (Norway)

^c FREE UNIVERSITY OF BOZEN BOLZANO   (Italy)

^d UNIVERSITY OF VERMONT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; RNA 16S;

ANIMAL; ARCHAEBACTERIUM; ARTICLE; BACTERIUM; CLASSIFICATION; COLON; DNA SEQUENCE; GENE LIBRARY; GENETICS; ISOLATION AND PURIFICATION; METAGENOME; MICROBIAL VIABILITY; MICROBIOLOGY; PHOCA; PHYLOGENY;

ANIMALS; ARCHAEA; BACTERIA; COLON; GENE LIBRARY; METAGENOME; MICROBIAL VIABILITY; PHYLOGENY; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEALS, EARLESS; SEQUENCE ANALYSIS, DNA;

BACTERIA (MICROORGANISMS); BACTEROIDETES; CYSTOPHORA (MAMMALIA); FIRMICUTES; FUSOBACTERIA; PROTEOBACTERIA;

EID: 77956871887     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-010-9690-x     Document Type: Article

References (59)

1. Achá SJ, Kühn I, Mbazima G, Colque-Navarro P, Möllby R (2005) Changes of viability and composition of the Escherichia coli flora in faecal samples during long time storage. J Microbiol Meth 63: 229-238.
2. Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59: 143-169.
3. Berg I, Haug T, Nilssen KT (2002) Harbour Seal (Phoca vitulina) diet in Vesterålen, North Norway. Sarsia 87: 451-461.
4. Bigg MA (1981) Harbour seal. In: Ridgeway SH, Harrison RJ (eds) Handbook of marine mammals, vol. 2. Academic Press, London, pp 1-27.
5. Bjerrum L, Engberg RM, Leser TD, Jensen BB, Finster K, Pedersen K (2006) Microbial community composition of the ileum and cecum of broiler chickens as revealed by molecular and culture-based techniques. Poult Sci 85: 1151-1164.
6. Bogomolni AL, Gast RJ, Ellis JC, Dennett M, Pugliares KR, Lentell BJ, Moore MJ (2008) Victims or vectors: a survey of marine vertebrate zoonoses from coastal waters of the Northwest Atlantic. Dis Aquat Organ 81: 13-38.
7. Bonner WN (1981) Grey seal. In: Ridgeway SH, Harrison RJ (eds) Handbook of marine mammals, vol. 2. Academic Press, London, pp 111-144.
8. TEM genes in Arctic environments and agricultural soil and rhizosphere. Microb Ecol Health Dis 20: 27-36.
9. Carattoli A, Lovari S, Franco A, Cordaro G, Di Matteo P, Battisti A (2005) Extended-spectrum beta-lactamases in Escherichia coli isolated from dogs and cats in Rome, Italy, from 2001 to 2003. Antimicrob Agents Chemother 49: 833-835.
10. Cole JR, Chai B, Farris RJ, Wang Q, Kulam-Syed-Mohideen AS, McGarrell DM, Bandela AM, Cardenas E, Garrity GM, Tiedje JM (2007) The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucl Acids Res 35: D169-D172.
11. Costa D, Poeta P, Saenz Y, Vinue L, Rojo-Bezares B, Jouini A, Zarazaga M, Rodrigues J, Torres C (2006) Detection of Escherichia coli harbouring extended-spectrum beta-lactamases of the CTX-M, TEM and SHV classes in faecal samples of wild animals in Portugal. J Antimicrob Chemother 58: 1311-1312.
12. Denman S, McSweeney C (2006) Development of a real-time PCR assay for monitoring anaerobic fungal and cellulolytic bacterial populations within the rumen. FEMS Microbiol Ecol 58: 572-582.
13. Denman S, Tomkins N, McSweeney C (2007) Quantitation and diversity analysis of ruminal methanogenic populations in response to the antimethanogenic compound bromochloromethane. FEMS Microbiol Ecol 62: 313-322.
14. Ehlers B, Strauch E, Goltz M, Kubsch D, Wagner H, Maidhof H, Bendiek J, Appel B, Buhk HJ (1997) Nachweis gentechnischer Veränderungen in Mais mittels PCR. Bundesgesundheitsbl 40: 118-121.
15. Folkow LP, Martensson PE, Blix AS (1996) Annual distribution of hooded seals (Cystophora cristata) in the Greenland and Norwegian Seas. Polar Biol 16: 179-189.
16. Forster PM, Ramaswamy V (2007) Changes in atmospheric constituents and in radiative forcing. In: Solomon S, Qin D, Manning M, Chen Z, Marquis M, Averyt KB, Tignor M, Miller HL (eds) Climate change 2007: the physical science basis: contribution of working group I to the fourth assessment report of the intergovernmental panel on climate change. Cambridge University Press, Cambridge.
17. Furushita M, Shiba T, Maeda T, Yahata M, Kaneoka A, Takahashi Y, Torii K, Hasegawa T, Ohta M (2003) Similarity of tetracycline resistance genes isolated from fish farm bacteria to those from clinical isolates. Appl Environ Microbiol 69: 5336-5342.
18. Gilliver MA, Bennett M, Begon M, Hazel SM, Hart CA (1999) Enterobacteria: antibiotic resistance found in wild rodents. Nature 401: 233-234.
19. Glad T, Bernhardsen P, Nielsen KM, Brusetti L, Andersen M, Aars J, Sundset MA (2010) Bacterial diversity in faeces from polar bear (Ursus maritimus) in Arctic Svalbard. BMC Microbiol 10: 10. doi: 10. 1186/1471-2180-1110-1110.
20. Glad T, Klingenberg C, Flaegstad T, Ericson JU, Olsvik Ø (2001) Rapid detection of the methicillin-resistance gene, mecA, in coagulase-negative staphylococci. Scand J Infect Dis 33: 502-506.
21. Good IJ (1953) The population frequencies of species and the estimation of population parameters. Biometrika Trust 40: 237-264.
22. Guglielmetti E, Korhonen JM, Heikkinen J, Morelli L, Wright Av (2009) Transfer of plasmid-mediated resistance to tetracycline in pathogenic bacteria from fish and aquaculture environments. FEMS Microbiol Lett 293: 28-34.
23. Hammond PS, Hall AJ, Prime JH (1994) The diet of grey seals around Orkney and other islands and mainland sites in north-eastern Scotland. J Appl Ecol 31: 340-350.
24. Haug T, Nilssen KT, Lindblom L (2000) First independent feeding of harp (Phoca groenlandica) and hooded seals (Cystophora cristata) pups in the Greenland Sea. NAMMCO Sci Publ 2: 29-39.
25. Henriksen G, Gjertz I, Kondakov A (1997) A review of the distribution and abundance of harbour seals (Phoca vitulina), on Svalbard, Norway, and in the Barents Sea. Mar Mammal Sci 13: 157-163.
26. Henriksen G, Moen K (1997) Interaction between seal and salmon fisheries in Tana River and Tanafjord, Finnmark, north Norway, and possible consequences for the harbour seal Phoca vitulina. Fauna Norvegica Serie A 18: 21-31.
27. Huber T, Faulkner G, Hugenholtz P (2004) Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20: 2317-2319.
28. Jensen BB (1996) Methanogenesis in monogastric animals. Environ Monit Assess 42: 99-112.
29. Kim S-R, Nonaka L, Suzuki S (2004) Occurrence of tetracycline resistance genes tet(M) and tet(S) in bacteria from marine aquaculture sites. FEMS Microbiol Lett 237: 147-156.
30. Kozak GK, Boerlin P, Janecko N, Reid-Smith RJ, Jardine C (2009) Antimicrobial resistance in Escherichia coli isolates from swine and wild small mammals in the proximity of swine farms and in natural environments in Ontario, Canada. Appl Environ Microbiol 75: 559-566.
31. Lane DJ (1991) 16S/23S rRNA sequencing. Nucleic acid techniques in bacterial systematics. In: Stackebrandt E, Goodfellow M (eds) Modern microbiological methods. Wiley, Chichester, p 133.
32. Lapierre L, Cornejo J, Borie C, Toro C, San Martin B (2008) Genetic characterization of antibiotic resistance genes linked to class 1 and class 2 integrons in commensal strains of Escherichia coli isolated from poultry and swine. Microb Drug Resist 14: 265-272.
33. Leser TD, Amenuvor JZ, Jensen TK, Lindecrona RH, Boye M, Moller K (2002) Culture-independent analysis of gut bacteria: the pig gastrointestinal tract microbiota revisited. Appl Environ Microbiol 68: 673-690.
34. Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, Gordon JI (2008) Evolution of mammals and their gut microbes. Science 320: 1647-1651.
35. Livermore DM (1995) Beta-lactamases in laboratory and clinical resistance. Clin Microbiol Rev 8: 557-584.
36. Mazel D, Davies J (1999) Antibiotic resistance in microbes. Cell Mol Life Sci 56: 742-754.
37. Mikkelsen B, Haug T, Nilssen KT (2002) Summer diet of grey seals (Halichoerus grypus) in Faroese waters. Sarsia 87: 462-471.
38. Mortensson PE, Nordoy ES, Messelt EB, Blix AS (1998) Gut length, food transit time and diving habit in phocid seals. Polar Biol 20: 213-217.
39. Nilssen KT, Haug T (2007) Status of grey seals (Halichoerus grypus) in Norway. NAMMCO Sci Publ 6: 23-31.
40. Olsen MA, Nilssen KT, Mathiesen SD (1996) Gross anatomy of the gastrointestinal system of harp seals (Phoca groenlandica). J Zool 238: 581-589.
41. Olsen MA, Aagnes TH, Mathiesen SD (1994) Digestion of herring by indigenous bacteria in the minke whale forestomach. Appl Environ Microbiol 60: 4445-4455.
42. Osterblad M, Norrdahl K, Korpimaki E, Huovinen P (2001) Antibiotic resistance: how wild are wild mammals? Nature 409: 37-38.
43. Potelov V, Nilssen KT, Svetochev V, Haug T (2000) Feeding habits of harp (Phoca groenlandica) and hooded seals (Cystophora cristata) during late winter, spring and early summer in the Greenland Sea. NAMMCO Sci Publ 2: 40-49.
44. Rizzotti L, La Gioia F, Dellaglio F, Torriani S (2009) Molecular diversity and transferability of the tetracycline resistance gene tet (M), carried on Tn916-1545 family transposons, in enterococci from a total food chain. Antonie Leeuwenhoek 96: 43-52.
45. Saengkerdsub S, Anderson RC, Wilkinson HH, Kim W-K, Nisbet DJ, Ricke SC (2007) Identification and quantification of methanogenic archaea in adult chicken ceca. Appl Environ Microbiol 73: 353-356.
46. Saenz Y, Brinas L, Dominguez E, Ruiz J, Zarazaga M, Vila J, Torres C (2004) Mechanisms of resistance in multiple-antibiotic-resistant Escherichia coli strains of human, animal, and food origins. Antimicrob Agents Chemother 48: 3996-4001.
47. Seveno N, Smalla K, van Elsas JD, Collard J-M, Karagouni A, Kallifidas D, Wellington E (2002) Occurrence and reservoirs of antibiotic resistance genes in the environment. Rev Med Microbiol 13: 15-27.
48. Singh G (2004) β-Lactams in the new millennium. Part-I: monobactams and carbapenems. Mini Rev Med Chem 4: 69-92.
49. Skillman LC, Toovey AF, Williams AJ, Wright A-DG (2006) Development and validation of a real-time PCR method to quantify rumen protozoa and examination of variability between Entodinium populations in sheep offered a hay-based diet. Appl Environ Microbiol 72: 200-206.
50. Sundset MA, Edwards J, Cheng Y, Senosiain R, Fraile M, Northwood KS, Præsteng K, Glad T, Mathiesen S, Wright A-DG (2009) Molecular diversity of the rumen microbiome of Norwegian reindeer on natural summer pasture. Microb Ecol 57: 335-348.
51. Sundset MA, Edwards JE, Cheng YF, Senosiain RS, Fraile MN, Northwood KS, Præsteng KE, Glad T, Mathiesen SD, Wright A-DG (2009) Rumen microbial diversity in Svalbard reindeer, with particular emphasis on methanogenic archaea. FEMS Microb Ecol 70: 553-562.
52. Sundset MA, Præsteng K, Cann I, Mathiesen SD, Mackie RI (2007) Novel rumen bacterial diversity in two geographically separated sub-species of reindeer. Microb Ecol 54: 424-438.
53. Sørum H (1999) Antibiotic resistance in aquaculture. Acta veterinaria Scand Suppl 92: 29-36.
54. Wang GC, Wang Y (1997) Frequency of formation of chimeric molecules as a consequence of PCR coamplification of 16S rRNA genes from mixed bacterial genomes. Appl Environ Microbiol 63: 4645-4650.
55. Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian Classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73: 5261-5267.
56. Woese CR, Kandler O, Wheelis ML (1990) Towards a natural system of organisms: proposals for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci 87: 4576-4579.
57. Wright A-DG, Northwood KS, Obispo NE (2009) Rumen-like methanogens identified from the crop of the folivorous South American bird, the hoatzin (Opisthocomus hoazin). ISME J 3: 1120-1126.
58. Yang S, Ma S, Chen J, Mao H, He Y, Xi D, Yang L, He T, Deng W (2009) Bacterial diversity in the rumen of Gayals (Bos frontalis), Swamp buffaloes (Bubalus bubalis) and Holstein cow as revealed by cloned 16S rRNA gene sequences. Mol Biol Rep 37: 2063-2073.
59. Zhu R, Liu Y, Xu H, Ma J, Gong Z, Zhao S (2008) Methane emissions from three seal animal colonies in the maritime Antarctic. Atmos Environ 42: 1197-1205.