Methanogens and methanogenesis in the rumens and ceca of lambs fed two different high-grain-content diets

Applied and Environmental Microbiology

Volumn 79, Issue 6, 2013, Pages 1777-1786

  Popova, M ^a   Morgavi, D P ^a   Martin, C ^a  

^a UNIVERSITÉ CLERMONT AUVERGNE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CLONE LIBRARY; COPY NUMBER; DEGRADABILITY; DIGESTIVE TRACT; EX SITU; IN-VIVO; METABOLIC ACTIVITY; METHANE EMISSIONS; METHANE PRODUCTION; METHANOGENESIS;

DIGESTIVE SYSTEM; MAMMALS; METHANE; NUTRITION; STARCH;

METHANOGENS;

ARCHAEAL DNA; BACTERIAL DNA; METHANE;

DEGRADATION; DIET; DIGESTION; METABOLISM; METHANE; METHANOGENESIS; SHEEP; STARCH;

ANIMAL; ARCHAEON; ARTICLE; BACTERIUM; BIODIVERSITY; CECUM; CEREAL; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; DENATURING GRADIENT GEL ELECTROPHORESIS; DIET; DNA SEQUENCE; GENETICS; MAIZE; METABOLISM; METHODOLOGY; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; RUMINANT STOMACH; SHEEP; WHEAT;

ANIMALS; ARCHAEA; BACTERIA; BIODIVERSITY; CECUM; CEREALS; CLUSTER ANALYSIS; DENATURING GRADIENT GEL ELECTROPHORESIS; DIET; DNA, ARCHAEAL; DNA, BACTERIAL; METHANE; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMERASE CHAIN REACTION; RUMEN; SEQUENCE ANALYSIS, DNA; SHEEP; TRITICUM; ZEA MAYS;

EID: 84874800498     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.03115-12     Document Type: Article

References (44)

1. O'Mara FP. 2011. The significance of livestock as a contributor to global greenhouse gas emissions today and in the near future. Anim. Feed Sci. Technol. 166:7-15.
2. Murray RM, Bryant AM, Leng RA. 1976. Rates of production of methane in the rumen and large intestine of sheep. Br. J. Nutr. 36:1-14.
3. Beauchemin KA, McAllister TA, McGinn SM. 2009. Dietary mitigation of enteric methane from cattle. CAB Rev. 4:1-18.
4. Wright A-DG, Williams AJ, Winder B, Christophersen CT, Rodgers SL, Smith KD. 2004. Molecular diversity of rumen methanogens from sheep in western Australia. Appl. Environ. Microbiol. 70:1263-1270.
5. Wright ADG, Kennedy P, O'Neill CJ, Toovey AF, Popovski S, Rea SM, Pimm CL, Klein L. 2004. Reducing methane emissions in sheep by immunization against rumen methanogens. Vaccine 22:3976-3985.
6. Beauchemin KA, McGinn SM. 2005. Methane emissions from feedlot cattle fed barley or corn diets. J. Anim. Sci. 83:653-661.
7. Martin C, Philippeau C, Michalet-Doreau B. 1999. Effect of wheat and corn variety on fiber digestion in beef steers fed high-grain diets. J. Anim. Sci. 77:2269-2278.
8. Michelland RJ, Monteils V, Zened A, Combes S, Cauquil L, Gidenne T, Hamelin J, Fortun-Lamothe L. 2009. Spatial and temporal variations of the bacterial community in the bovine digestive tract. J. Appl. Microbiol. 107:1642-1650.
9. Romero-Pérez GA, Ominski KH, McAllister TA, Krause DO. 2011. Effect of environmental factors and influence of rumen and hindgut biogeography on bacterial communities in steers. Appl. Environ. Microbiol. 77:258-268.
10. Martin C, Rouel J, Jouany JP, Doreau M, Chilliard Y. 2008. Methane output and diet digestibility in response to feeding dairy cows crude linseed, extruded linseed, or linseed oil. J. Anim. Sci. 86:2642-2650.
11. Van Soest PJ, Robertson JB, Lewis BA. 1991. Methods for dietary fiber, neutral detergent fiber, and nonstarch polysaccharides in relation to animal nutrition. J. Dairy Sci. 74:3583-3597.
12. AFNOR. 1985. Dosage de l'amidon. Méthode polarimétrique, p 123-125. In Aliments des animaux. Méthodes d'analyses fran çaises et communautaires, 2nd ed. Association Française de Normalisation, Paris, France.
13. Johnson K, Huyler M, Westberg H, Lamb B, Zimmerman P. 1994. Measurement of methane emissions from ruminant livestock using a sulfur hexafluoride tracer technique. Environ. Sci. Technol.28:359-362.
14. Lettat A, Noziére P, Silberberg M, Morgavi DP, Berger C, Martin C. 2010. Experimental feed induction of ruminal lactic, propionic, or butyric acidosis in sheep. J. Anim. Sci. 88:3041-3046.
15. Morgavi DP, Boudra H, Jouany JP, Graviou D. 2003. Prevention of patulin toxicity on rumen microbial fermentation by SH-containing reducing agents. J. Agric. Food Chem. 51:6906-6910.
16. Popova M, Martin C, Eugéne M, Mialon MM, Doreau M, Morgavi DP. 2011. Effect of fibre-and starch-rich finishing diets on methanogenic Archaea diversity and activity in the rumen of feedlot bulls. Anim. Feed Sci. Technol. 166:113-121.
17. Goering HK, Van Soest PJ. 1970. Forage fiber analysis (apparatus, reagents, procedures, and some applications). U.S. Agricultural Research Service, Washington, DC.
18. Popova M, Martin C, Morgavi DP. 2010. Improved protocol for highquality coextraction of DNA and RNA from rumen digesta. Folia Microbiol. (Praha). 55:368-372.
19. Schroeder A, Mueller O, Stocker S, Salowsky R, Leiber M, Gassmann M, Lightfoot S, Menzel W, Granzow M, Ragg T. 2006. The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol. Biol. 7:3. doi:10.1186/1471-2199-7-3.
20. Schmittgen TD, Livak KJ. 2008. Analyzing real-time PCR data by the comparative Ct method. Nat. Protoc. 3:1101-1108.
21. Fromin N, Hamelin J, Tarnawski S, Roesti D, Jourdain-Miserez K, Forestier N, Teyssier-Cuvelle S, Gillet F, Aragno M, Rossi P. 2002. Statistical analysis of denaturing gel electrophoresis (DGE) fingerprinting patterns. Environ. Microbiol. 4:634-643.
22. Luton PE, Wayne JM, Sharp RJ, Riley PW. 2002. The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. Microbiology 148:3521-3530.
23. Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32:1792-1797.
24. Gouy M, Guindon S, Gascuel O. 2010. SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol. Biol. Evol. 27:221-224.
25. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28:2731-2739.
26. 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.
27. Huber T, Faulkner G, Hugenholtz P. 2004. Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20:2317-2319.
28. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. 2009. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75:7537-7541.
29. Demeyer DI, Fiedler D, De Graeve KG. 1996. Attempted induction of reductive acetogenesis into the rumen fermentation in vitro. Reprod. Nutr. Dev. 36:233-240.
30. SAS Institute, Inc. 2003. Statistical analysis system, Windows version 9.1.2. SAS Institute, Inc., Cary, NC.
31. Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2Ct method. Methods 25:402-408.
32. Thauer RK. 1998. Biochemistry of methanogenesis: a tribute to Marjory Stephenson. 1998 Marjory Stephenson Prize Lecture. Microbiology 144(Pt 9):2377-2406.
33. Freitag TE, Prosser JI. 2009. Correlation of methane production and functional gene transcriptional activity in a peat soil. Appl. Environ. Microbiol. 75:6679-6687.
34. Mackie RI, Gilchrist FMC, Robberts AM, Hannah PE, Schwartz HM. 1978. Microbiological and chemical changes in the rumen during the stepwise adaptation of sheep to high concentrate diets. J. Agric. Sci. 90:241-254.
35. Morgavi DP, Forano E, Martin C, Newbold CJ. 2010. Microbial ecosystem and methanogenesis in ruminants. Animal 4:1024-1036.
36. Denman SE, Tomkins NW, McSweeney CS. 2007. Quantitation and diversity analysis of ruminal methanogenic populations in response to the antimethanogenic compound bromochloromethane. FEMS Microbiol. Ecol. 62:313-322.
37. Knight T, Ronimus RS, Dey D, Tootill C, Naylor G, Evans P, Molano G, Smith A, Tavendale M, Pinares-Patiño CS, Clark H. 2011. Chloroform decreases rumen methanogenesis and methanogen populations without altering rumen function in cattle. Anim. Feed Sci. Technol. 166:101-112.
38. Lin C, Raskin L, Stahl DA. 1997. Microbial community structure in gastrointestinal tracts of domestic animals: comparative analyses using rRNA-targeted oligonucleotide probes. FEMS Microbiol. Ecol. 22:281-294.
39. Zhou M, Hernandez-Sanabria E, Guan LL. 2009. Assessment of the microbial ecology of ruminal methanogens in cattle with different feed efficiencies. Appl. Environ. Microbiol. 75:6524-6533.
40. Wright A-D, Ma X, Obispo N. 2008. Methanobrevibacter phylotypes are the dominant methanogens in sheep from Venezuela. Microb. Ecol. 56: 390-394.
41. Paul K, Nonoh J, Mikulski L, Brune A. 2012. Methanoplasmatales, Thermoplasmatales-related archaea in termite guts and other environments, are the seventh order of methanogens. Appl. Environ. Microbiol. 78:8245-8253.
42. Frey JC, Pell AN, Berthiaume R, Lapierre H, Lee S, Ha JK, Mendell JE, Angert ER. 2010. Comparative studies of microbial populations in the rumen, duodenum, ileum and faeces of lactating dairy cows. J. Appl. Microbiol. 108:1982-1993.
43. Demeyer D. 1991. Differences in stoichiometry between rumen and hindgut fermentation. Adv. Anim. Physiol. Anim. Nutr. 22:50-61.
44. Michelland RJ, Monteils V, Combes S, Cauquil L, Gidenne T, Fortun-Lamothe L. 2010. Comparison of the archaeal community in the fermentative compartment and faeces of the cow and the rabbit. Anaerobe 16: 396-401.