Detection of protease genes in field soil applied with liquid livestock feces and speculation on their function and origin

REFERENCES

• Akiba , Y and Katoh , K . 1986 . Microbial ecology of Bacillus thuringiensis; V Selective medium for Bacillus thuringiensis vegetative cells . Appl. Entomol. Zool , 21 : 210 – 215 .
   Web of Science ®Google Scholar
• Avrahami , S , Conrad , R and Braker , G . 2002 . Effect of soil ammonium concentration on N2O release and on the community structure of ammonia oxidizers and denitrifiers . Appl. Environ. Microbiol , 68 : 5685 – 5692 .
   PubMed Web of Science ®Google Scholar
• Braker , G , Zhou , J , Wu , L , Devol , AH and Tiedje , JM . 2000 . Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in pacific northwest marine sediment communities . Appl. Environ. Microbiol , 66 : 2096 – 2104 .
   PubMed Web of Science ®Google Scholar
• Braunagel , SC and Benedik , MJ . 1990 . The metalloprotease gene of Serratia marcescens strain SM6 . Mol. Gen. Genet , 222 : 446 – 451 .
   PubMedGoogle Scholar
• Caplan , JA and Fahey , JM . 1982 . Plate-clearing technique to screen mixed microbial population for protein degraders . Soil Biol. Biochem , 14 : 373 – 375 .
   Web of Science ®Google Scholar
• Decedue , CJ , Broussard , EA , Larson , AD and Braymer , HD . 1979 . Purification and characterization of the extracellular proteinase of Serratia marcescens . Biochim. Biophys. Acta , 569 : 293 – 301 .
   PubMedGoogle Scholar
• Hayano , K and Tubaki , K . 1985 . Origin and properties of β-glucosidase activity of tomato-field . Soil Biol. Biochem , 17 : 553 – 557 .
   Web of Science ®Google Scholar
• Ichishima , E . 1972 . Purification and characterization a new type of acid carboxypeptidase . Biochim. Biophys. Acta , 258 : 274 – 288 .
   PubMedGoogle Scholar
• Kandeler , E , Eder , G and Sobotik , M . 1994 . Microbial biomass, N mineralization, and the activities of various enzymes in relation to nitrate leaching and root distribution in a slurry-amended grassland . Biol. Fertil. Soils , 18 : 7 – 12 .
   Web of Science ®Google Scholar
• Khan , AA and Cerniglia , CE . 1994 . Detection of Pseudomonas aeruginosafrom clinical and environmental samples by amplification of exotoxin A gene using PCR . Appl. Environ. Microbiol , 60 : 3739 – 3745 .
   PubMed Web of Science ®Google Scholar
• Ladd , JN and Butler , JHA . 1972 . Short-term assays of soil proteolytic enzyme activities using proteins and dipeptide derivatives as substrates . Soil Biol. Biochem , 4 : 19 – 30 .
   Google Scholar
• Lee , IS , Wakabayashi , S Miyata , K . 1984 . Serratia protease. Amino acid sequences of both termini, the 53 residues in the middle region containing the sole methionine residue, and a probable zinc-binding region . J. Biochem , 96 : 1409 – 1418 .
   PubMed Web of Science ®Google Scholar
• Mammeri , H , Poirel , L , Bemer , P , Drugeon , H and Nordmann , P . 2004 . Resistance to cefepime and cefpirome due to a 4-amino-acid deletion in the chromosome-encoded AmpC ß-lactamase of a Serratia marcescens clinical isolate . Antimicrob. Agents Chemother , 48 : 716 – 720 .
   PubMed Web of Science ®Google Scholar
• Martin , JP . 1950 . Use of acid, rose Bengal and streptomycin in the plate method for estimating soil fungi . Soil Sci , 69 : 215 – 232 .
   Web of Science ®Google Scholar
• Nakahama , K , Yoshimura , K Marumoto , R . 1986 . Cloning and sequencing of Serratia protease gene . Nucleic Acids Res , 14 : 5843 – 5855 .
   PubMed Web of Science ®Google Scholar
• Saito , H and Miura , T . 1963 . Preparation of transforming DNA by phenol treatment . Biochim. Biophys. Acta , 72 : 619 – 629 .
   PubMed Web of Science ®Google Scholar
• Schraft , H and Griffiths , MW . 1995 . Specific oligonucleotide primers for detection of lecithinase-positive Bacillusspp. by PCR . Appl. Environ. Microbiol , 61 : 98 – 102 .
   PubMed Web of Science ®Google Scholar
• Tebbe , CC and Vahjen , W . 1993 . Interference of humic acids and DNA extracted directly from soil in detection and transformation of recombinant DNA from bacteria and a yeast . Appl. Environ. Microbiol , 59 : 2657 – 2665 .
   PubMed Web of Science ®Google Scholar
• Tsai , YL and Olson , BH . 1991 . Rapid method for direct extraction of DNA from soil and sediments . Appl. Environ. Microbiol , 57 : 1070 – 1074 .
   PubMed Web of Science ®Google Scholar
• Viebrock , A and Zumft , WG . 1988 . Molecular cloning, heterologous expression, and primary structure of the structural gene for the copper enzyme nitrous oxide reductase from denitrifying Pseudomonas stutzeri . J. Bacteriol , 170 : 4658 – 4668 .
   PubMed Web of Science ®Google Scholar
• Waksman , SA and Fred , EB . 1922 . A tentative outline of the plate method for determining the number of microorganisms in soil . Soil Sci , 14 : 27 – 28 .
   Google Scholar
• Watanabe , K , Asakawa , S and Hayano , K . 1994 . Evaluation of extracellular protease activities of soil bacteria . Soil Biol. Biochem , 26 : 479 – 482 .
   Web of Science ®Google Scholar
• Watanabe , K and Hayano , K . 1993a . Distribution and identification of proteolytic Bacillus spp. in paddy field . Can. J. Microbiol , 39 : 674 – 680 .
   PubMed Web of Science ®Google Scholar
• Watanabe , K and Hayano , K . 1993b . Source of soil protease in paddy field . Can. J. Microbiol , 39 : 1035 – 1040 .
   Web of Science ®Google Scholar
• Watanabe , K and Hayano , K . 1994 . Estimate of the source of soil protease in upland fields . Biol. Fertil. Soils , 18 : 341 – 346 .
   Web of Science ®Google Scholar
• Watanabe , K , Koga , N and Niimi , H . 2006 . Bacterial community shift in field soil by annual application of liquid livestock feces . JARQ , 40 : 31 – 36 .
   Web of Science ®Google Scholar
• Watanabe , K and Niimi , H . 2005 . Changes in soil protease activity and numbers of culturable bacteria in upland fields by the application of liquid livestock feces . Soil. Sci. Plant Nutr , 51 : 491 – 496 .
   Web of Science ®Google Scholar
• Watanabe , K and Okuda , M . Method and system for searching for relationships between base sequences in genesJapanese . patent3,431,135; US patent, 7,006,924 . 2003 .
   Google Scholar
• Watanabe , K , Okuda , M and Koga , N . 2008 . A newly developed system based on multiple enzyme restriction fragment length polymorphism–An application to proteolytic bacterial flora analysis . Soil .Sci. Plant Nutr , 54 : 202 – 213 .
   Web of Science ®Google Scholar
• Watanabe , K , Sakai , J and Hayano , K . 2003 . Bacterial extracellular protease activities in field soils under different fertilizer managements . Can. J. Microbiol , 49 : 305 – 312 .
   PubMed Web of Science ®Google Scholar
• Watanabe , K , Sakai , J , Munch , JC and Tebbe , CC . Preparation of DNA primers and probes for the detection of metalloprotease genes in soil . Proc. of the International Symposium-Exploration of Microbial Diversity Divers . June , Goslar, Germany. pp. 61
   Google Scholar
• Watanabe , K . 2008 . Application of multiple enzyme restriction fragment length polymorphism analysis and microchip electrophoresis for estimation of antibiotic tolerant bacterial group . J. Pestic. Sci , 33 : 249 – 260 .
   Web of Science ®Google Scholar