Rumen-like methanogens identified from the crop of the folivorous South American bird, the hoatzin (Opisthocomus hoazin)

ISME Journal

Volumn 3, Issue 10, 2009, Pages 1120-1126

  Wright, André Denis G ^a   Northwood, Korinne S ^a   Obispo, Nestor E ^b  

^a CSIRO   (Australia)

^b INSTITUTO NACIONAL DE INVESTIGACIONES AGRÍCOLAS INIA   (Venezuela)

Author keywords

Aves; Methane; Methanobrevibacter; Rumen; Ruminants

Indexed keywords

ARCHAEAL DNA; ARCHAEAL RNA; METHANE; RIBOSOME DNA; RNA 16S;

ANIMAL; ARCHAEBACTERIUM; ARTICLE; AVIAN CROP; BIRD; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; RNA GENE; SEQUENCE HOMOLOGY; VENEZUELA;

ANIMALS; ARCHAEA; BIRDS; CLUSTER ANALYSIS; CROP, AVIAN; DNA, ARCHAEAL; DNA, RIBOSOMAL; GENES, RRNA; METHANE; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, ARCHAEAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; VENEZUELA;

ANIMALIA; ARCHAEA; AVES; BOVIDAE; CILIOPHORA; METHANOBREVIBACTER; METHANOBREVIBACTER RUMINANTIUM; METHANOSPHAERA STADTMANAE; OPISTHOCOMIDAE; OPISTHOCOMUS HOAZIN; PROTOZOA;

EID: 70349469604     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2009.41     Document Type: Article

References (39)

1. Cracraft J. (1971). A new family of hoatzin-like birds (order Opisthocomiformes) from the Eocene of South America. Ibis 113: 229-233.
2. de Rijk P, de Wachter R. (1993). DCSE, an interactive tool for sequence alignment and secondary structure research. Comput Applic Biol Sci 9: 735-740.
3. Denman SE, McSweeney CS. (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.
4. Denman SE, Tomkins NW, McSweeney CS. (2007). Quantitation and diversity analysis of ruminal methanogenic populations in response to the antimethanogenic compound bromochloromelhane. FEMS Microbial Ecol 62: 313-322.
5. Dominguez-Bello MG, Lovera M, Suarez P, Michelangeli F. (1993). Microbial digestive symbionts of the crop of the hoatzin (Opisthocomus hoazin): An avian foregut fermenter. Physiolog Zool 66: 374-383.
6. Evans PN, Hinds LA, Sly LI, McSweeney CS, Morrison M, Wright A-DG. (2009). Community composition and density of methanogens in the foregut of the Tammar Wallaby (Macropus eugenii). Appl Environ Microbiol 75: 2598-2602.
7. Felsenstein J. (2004). PHYLIP (Phylogeny Inference Package) Documentation Files. Version 3.62c. Department of Genetics, University of Washington: Seattle, Washington.
8. Garcia-Amado MA, Michelangeli F, Gueneau P, Perez ME. (2007). Bacterial detoxification of saponins in the crop of the avian foregut fermenter Opisthocomus hoazin. J Ani Feed Sci 16: 82-85.
9. Godoy-Vitorino F, Ley RE, Gao Z, Pei Z, Ortiz-Zuazaga H, Pericchi LR et al. (2008). The crop bacterial community of the hoatzin, a neotropical folivorous flying bird. Appl Environ Microbiol 74: 5905-5912.
10. Grajal A, Parra O. (1995). Passage rates of digesta markers in the gut of the hoatzin, a folivorous bird with foregut fermentation. Condor 97: 675-683.
11. Grajal A, Strahl S, Parra R, Dominguez MG, Neher A. (1989). Foregut fermentation in the hoatzin, a neotropical leave-eating bird. Science 245: 1236-1238.
12. Hackett SJ, Kimball RT, Reddy S, Bowie RCK, Braun EL, Braun MJ et al. (2008). A phylogenetic study of birds reveals their evolutionary history. Science 320: 1763-1768.
13. Hook SE, Northwood KS, Wright A-DG, McBride BW. (2009). Long-term monensin supplementation does not significantly affect the quantity or diversity of methanogens in the rumen of the lactating dairy cow. Appl Environ Microbiol 75: 374-380.
14. Huber T, Faulkner G, Hugenholtz P. (2004). Bellerophon: A program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20: 2317-2319.
15. Irbis C, Ushida K. (2004). Detection of methanogens and proteobacteria from a single cell of rumen ciliate protozoa. J Gen Appl Microbiol 50: 203-212.
16. Kimura M. (1980). A simple method of estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16: 111-120.
17. König H. (1986). Chemical composition of cell envelopes of methanogenic bacteria isolated from human and animal feces. Syst Appl Microbiol 8: 159-162.
18. Miller TL, Lin C. (2002). Description of Methanobrevibacter gottschalkii sp. nov., Methanobrevibacter thaueri sp. nov., Methanobrevibacter woesei sp. nov. and Methanobrevibacter wolinii sp. nov. Int J Syst Evol Microbiol 52: 819-822.
19. Miller TL, Wolin MJ. (1986). Methanogens in human and animal digestive tracts. Syst Appl Microbiol 7: 223-229.
20. Miller TL, Wolin MJ, Kusel EA. (1986). Isolation and characterization of methanogens from animal feces. Syst Appl Microbiol 8: 234-238.
21. Pacheco MA, Garcia-Amado MA, Bosque C, Dominguez- Bello MG. (2004). Bacteria in the crop of the seedeating green-rumped parrotlet. Condor 106: 139-143.
22. Prothero DR, Foss SE. (2007). The Evolution of Artiodactyls. The Johns Hopkins University Press: Baltimore.
23. 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.
24. Saito N, Nei M. (1987). The neighbor-joining method: A new method for constructing phylogenetic trees. Mol Biol Evol 4: 406-425.
25. Schloss PD, Handelsman J. (2005). Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl Environ Microbiol 71: 1501-1506.
26. Sharp R, Ziemer CJ, Marshall DS, Stahl DA. (1998). Taxon-specific associations between protozoal and methanogen populations in the rumen and a model system. FEMS Microbiol Ecol 26: 71-78.
27. Shinzato N, Matsumoto T, Yamaoka I, Oshima T, Yamagishi A. (1999). Phylogenetic diversity of symbiotic methanogens living in the hindgut of the lower termite Reticulitermes speratus analysed by PCR and in situ hybridization. Appl Environ Microbiol 65: 837-840.
28. Skillman LC, Evans PN, Naylor GE, Morvan B, Jarvis GN, Joblin KN. (2004). 16S ribosomal DNA-directed PCR primers for ruminal methanogens and identification of methanogens colonising young lambs. Anaerobe 10: 277-285.
29. Skillman LC, Evans PN, Strompl C, Joblin KN. (2006). 16S rDNA directed PCR primers and detection of methanogens in the bovine rumen. Lett Appl Microbiol 42: 222-228.
30. Sundset MA, Edwards JE, Cheng YF, Senosiain RS, Fraile MN, Northwood KS et al. (2009). Molecular diversity of the rumen microbiome of Norwegian reindeer on natural summer pasture. Microbial Ecol 57: 335-348.
31. Sylvester JT, Karnati SKR, Yu Z, Morrison M, Firkins JL. (2004). Development of an assay to quantify rumen ciliate protozoal biomass in cows using real-time PCR. J Nutr 134: 3378-3384.
32. Tokura M, Chagan I, Ushida K, Kojima Y. (1999). Phylogenetic study of methanogens associated with rumen ciliates. Curr Microbiol 39: 123-128.
33. Whitford MF, Teather RM, Forster RJ. (2001). Phylogenetic analysis of methanogens from the bovine rumen. BMC Microbiol 2001: 1:5.
34. Wright A-DG, Auckland CH, Lynn DH. (2007). Molecular diversity of methanogens in feedlot cattle from Ontario and Prince Edward Island, Canada. Appl Environ Microbiol 73: 4206-4210.
35. Wright A-DG, Dehority BA, Lynn DH. (1997). Phylogeny of the rumen ciliates Entodinium, Epidinium and Polyplastron (Litostomatea: Entodiniomorphida) inferred from small subunit ribosomal RNA sequences. J Eukaryot Microbiol 44: 61-67.
36. Wright A-DG, Ma X, Obispo NE. (2008). Methanobrevibacter phylotypes are the dominant methanogens in sheep from Venezuela. Microbial Ecol 56: 390-394.
37. Wright A-DG, Pimm C. (2003). Improved strategy for presumptive identification of methanogens using 16S riboprinting. J Microbiol Methods 55: 337-349.
38. Wright A-DG, Toovey AF, Pimm CL. (2006). Molecular identification of methanogenic archaea from sheep in Queensland, Australia reveal more uncultured novel archaea. Anaerobe 12: 134-139.
39. Wright A-DG, Williams AJ, Winder B, Christophersen C, Rodgers S, Smith K. (2004). Molecular diversity of rumen methanogens from sheep in western Australia. Appl Environ Microbiol 70: 1263-1270.