A method of isolating the collagen (I) α2 chain carboxytelopeptide for species identification in bone fragments

Analytical Biochemistry

Volumn 374, Issue 2, 2008, Pages 325-334

  Buckley, Michael ^a   Collins, Matthew ^a   Thomas Oates, Jane ^a  

^a UNIVERSITY OF YORK   (United Kingdom)

Author keywords

Archaeology; Bacterial collagenase; Collagen; Gelatin; Mass spectrometry; Meat and bone meal; Species variability; Telopeptide

Indexed keywords

COLLAGEN; MASS SPECTROMETRY; MIXTURES; PEPTIDES; PHASE SEPARATION;

ARCHAEOLOGY; COLLAGENASE; GELATIN; MEAT AND BONE MEAL; SPECIES VARIABILITY; TELOPEPTIDE;

BACTERIA;

CARBOXYTELOPEPTIDE; CLOSTRIDIOPEPTIDASE A; COLLAGEN; PEPTIDE DERIVATIVE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; BONE; CLOSTRIDIUM HISTOLYTICUM; HUMAN; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN ISOLATION; SOLID PHASE EXTRACTION; SPECIES IDENTIFICATION;

BACTERIA (MICROORGANISMS); CLOSTRIDIUM HISTOLYTICUM;

EID: 39149092338     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2007.12.002     Document Type: Article

References (54)

1. Thomas R.H., Schaffner W., Wilson A.C., and Pääbo S. DNA phylogeny of the extinct marsupial wolf. Nature 340 (1989) 465-467
2. Higuchi R., Bowman B., Freiberger M., Ryder O.A., and Wilson A.C. DNA sequences from the quagga, an extinct member of the horse family. Nature 312 (1984) 282-284
3. Fleischer R.C., Olson S.L., James H.F., and Cooper A.C. Identification of the extinct Hawaiian eagle (Haliaeetus) by mtDNA sequence analysis. Auk 117 (2000) 1051-1056
4. Greenwood A.D., Capelli C., Possnert G., and Paabo S. Nuclear DNA sequences from late Pleistocene megafauna. Mol. Biol. Evol. 16 (1999) 1466-1473
5. Nielsen-Marsh C.M., Ostrom P.H., Gandhi H., Shapiro B., Cooper A., Hauschka P.V., and Collins M.J. Exceptional preservation of bison bones >55 ka as demonstrated by protein and DNA sequences. Geology 30 (2002) 1099-1102
6. Yang D.Y., Woiderski J.R., and Driver J.C. DNA analysis of archaeological rabbit remains from the American Southwest. J. Archaeol. Sci. 32 (2005) 567-578
7. Chiappini B., Brambilla G., Agrimi U., Vaccari G., Aarts H.J.M., Berben G., Frezza D., and Giambra V. Real-time polymerase chain reaction approach for quantitation of ruminant-specific DNA to indicate a correlation between DNA amount and meat and bone meal heat treatments. J. AOAC Intl. 88 (2005) 1399-1403
8. Toyoda A., Nakajo M., Kawachi H., Matsui T., and Yano H. PCR detection of bovine mitochondrial DNA derived from meat and bone meal in feed. J. Food Protect. 67 (2004) 2829-2832
9. Cheng Y.H., Wen C.M., Ding S.T., Kao C.C., and Kuo T.Y. Detecting meat-and-bone meal in ruminant's feeds by species-specific PCR. J. Anim. Feed Sci. 12 (2003) 849-858
10. Tajima K., Enishi O., Amari M., Mitsumori M., Kajikawa H., Kurihara M., Yanai S., Matsui H., Yasue H., Mitsuhashi T., Kawashima T., and Matsumoto M. PCR detection of DNAs of animal origin in feed by primers based on sequences of short and long interspersed repetitive elements. Biosci. Biotechnol. Biochem. 66 (2002) 2247-2250
11. Lahiff S., Glennon M., O'Brien L., Lyng J., Smith T., Maher M., and Shilton N. Species-specific PCR for the identification of ovine, porcine, and chicken species in meat and bone meal (MBM). Mol. Cell. Probes 15 (2001) 27-35
12. Bellagamba F., Moretti V.M., Comincini S., and Valfre F. Identification of species in animal feedstuffs by polymerase chain reaction-restriction fragment length polymorphism analysis of mitochondrial DNA. J. Agric. Food Chem. 49 (2001) 3775-3781
13. Halstead P. Pastoralism or household herding? Problems of scale and specialization in early Greek animal husbandry. World Archaeol. 28 (1996) 20-42
14. Albarella U. The mystery of husbandry: Medieval animals and the problem of integrating historical and archaeological evidence. Antiquity 73 (1999) 867-875
15. Mainland I., and Halstead P. The economics of sheep and goat husbandry in Norse Greenland. Arctic Anthropol. 42 (2005) 103-120
16. Coope G.R., Gibbard P.L., Hall A.R., Preece R.C., Robinson J.E., and Sutcliffe A.J. Climatic and environmental reconstructions based on fossil assemblages from Middle Devensian (Weichselian) deposits of the River Thames at South Kensington, Central London, UK. Quat. Sci. Rev. 16 (1997) 1163-1195
17. van Kolfschoten T. The Eemian mammal fauna of Central Europe. Geologie En Mijnbouw [Netherlands Journal of Geosciences] 79 (2000) 269-281
18. Doherr M.G. Etiology, transmission, and epidemiological situation of BSE in Europe. Praktische Tierarzt 83 (2002) 156-161
19. P. Vermeulen, V. Baeten, P. Dardenne, The Stratfeed Project: A European initiative to tackle the problematic detection of MBM in compound feed, in: P. Dardenne (Ed.), Stratfeed: Strategies and methods to detect and quantify mammalian tissues in feedingstuffs, European Communities, Luxembourg, 2005.
20. Brown T.A., and Brown K. Ancient DNA and the archaeologist. Antiquity 66 (1992) 10-23
21. Haile J., Holdaway R., Oliver K., Bunce M., Gilbert M.T.P., Nielsen R., Munch K., Ho S.Y.W., Shapiro B., and Willerslev E. Ancient DNA chronology within sediment deposits: Are paleobiological reconstructions possible and is DNA leaching a factor?. Mol. Biol. Evol. 24 (2007) 982-989
22. Leonard J.A., Shanks O., Hofreiter M., Kreuz E., Hodges L., Ream W., Wayne R.K., and Fleischer R.C. Animal DNA in PCR reagents plagues ancient DNA research. J. Archaeol. Sci. 34 (2007) 1361-1366
23. Lindahl T., and Nyberg B. Rate of depurination of native deoxyribonucleic acid. Biochemistry 11 (1972) 3610-3618
24. Perez-Marin D.C., Garrido-Varo A., Guerrero-Ginel J.E., and Gomez-Cabrera A. Near-infrared reflectance spectroscopy (NIRS) for the mandatory labelling of compound feedingstuffs: Chemical composition and open-declaration. Anim. Feed Sci. Technol. 116 (2004) 333-349
25. V. Baeten, A. M. Reiner, G. Sinnaeve, P. Dardenne, Analysis of feedingstuffs by near-infrared microscopy (NIRM): Detection and quantification of meat and bone meal (MBM), in: Proceedings of the 6th International Symposium on Food Authenticity and Safety, FASIS, Nantes, France, 2001.
26. Cattaneo C., Gelsthorpe K., Phillips P., and Sokol R.J. Detection of blood proteins in ancient human bone using ELISA: A comparative study of the survival of IgG and albumin. Intl. J. Osteoarchaeol. 2 (1992) 3103-3107
27. Ostrom P.H., Schall M., Gandhi H., Shen T.L., Hauschka P.V., Strahler J.R., and Gage D.A. New strategies for characterizing ancient proteins using matrix-assisted laser desorption ionization mass spectrometry. Geochim. Cosmochim. Acta 64 (2000) 1043-1050
28. Collins M.J., Child A.M., van Duin A.T.C., and Vermeer C. Ancient osteocalcin: The most stable bone protein?. Ancient Biomol. 2 (1998) 223-238
29. Tuross N., and Stathoplos L. Ancient proteins in fossil bones. In: Zimmer E.A., White T.J., Cann R.L., and Wilson A.C. (Eds). Molecular Evolution: Producing the Biochemical Data vol. 224 (1993), Academic Press, San Diego 121-129
30. Poinar H.N., and Stankiewicz B.A. Protein preservation and DNA retrieval from ancient tissues. Proc. Natl. Acad. Sci USA 96 (1999) 8426-8431
31. Ostrom P.H., Gandhi H., Strahler J.R., Walker A.K., Andrews P.C., Leykam J., Stafford T.W., Kelly R.L., Walker D.N., Buckley M., and Humpula J. Unraveling the sequence and structure of the protein osteocalcin from a 42 ka fossil horse. Geochim. Cosmochim. Acta 70 (2006) 2034-2044
32. Kim S.H., Huang T.S., Seymour T.A., Wei C.I., Kempf S.C., Bridgman C.R., Momcilovic D., Clemens R.A., and An H.J. Development of immunoassay for detection of meat and bone meal in animal feed. J. Food Protect. 68 (2005) 1860-1865
33. Ocana M.F., Neubert H., Przyborowska A., Parker R., Bramley P., Halket J., and Patel R. BSE control: Detection of gelatine-derived peptides in animal feed by mass spectrometry. Analyst 129 (2004) 111-115
34. Fernandez Ocaña M., Jarvis J., Parker R., Bramley P.M., Halket J.M., Patel R.K.P., and Neubert H. C-terminal sequencing by mass spectrometry: Application to gelatine-derived proline-rich peptides. Proteomics 5 (2005) 1209-1216
35. Chu M.L., de Wet W., Bernard M., Ding J.F., Morabito M., Myers J., Williams C., and Ramirez F. Human pro α1 (I) collagen gene structure reveals evolutionary conservation of a pattern of introns and exons. Nature 310 (1984) 337-340
36. Jackson D.S., and Bentley J.P. On the significance of the extractable collagens. J. Cell Biol. 7 (1960) 37-42
37. Soberano M., and Schoellmann G. Specificity of bacterial collagenase: Studies with peptides newly synthesized using the solid-phase method. Biochim. Biophys. Acta 271 (1972) 133-144
38. Harris E., and Farrell M. Resistance to collagenase: A characteristic of collagen fibrils cross-linked by formaldehyde. Biochim. Biophys. Acta 278 (1972) 133-141
39. DeNiro M.J., and Weiner S. Use of collagenase to purify collagen from prehistoric bones for stable isotopic analysis. Geochim. Cosmochim. Acta 52 (1988) 2425-2431
40. Kadler K.E., Holmes D.F., Trotter J.A., and Chapman J. Collagen fibril formation. Biochem. J. 316 (1996) 1-11
41. Orgel J.P., Wess T.J., and Miller A. The in situ conformation and axial location of the intermolecular cross-linked non-helical telopeptides of type I collagen. Struct. Folding Des. 8 (2000) 137-142
42. Karolchik D., Baertsch R., Diekhans M., Furey T.S., Hinrichs A., Lu Y.T., Roskin K.M., Schwartz M., Sugnet C.W., and Thomas D.J. The UCSC Genome Browser Database. Nucleic Acids Res. 31 (2003) 51-54
43. Knott L., and Bailey A.J. Collagen cross-links in mineralizing tissues: A review of their chemistry, function, and clinical relevance. Bone 22 (1998) 181-187
44. Klarlund J.K., Tsiaras W., Holik J.J., Chawla A., and Czech M.P. Distinct polyphosphoinositide binding selectivities for pleckstrin homology domains of GRP1-like proteins based on diglycine versus triglycine motifs. J. Biol. Chem. 275 (2000) 32816-32821
45. Prigodich R.V., and Vesely M.R. Characterization of the complex between bovine osteocalcin and type I collagen. Arch. Biochem. Biophys. 345 (1997) 339-341
46. Currant A., and Jacobi R. A formal mammalian biostratigraphy for the Late Pleistocene of Britain. Quat. Sci. Rev. 20 (2001) 1707-1716
47. Schreve D.C. Differentiation of the British late Middle Pleistocene interglacials: The evidence from mammalian biostratigraphy. Quat. Sci. Rev. 20 (2001) 1693-1705
48. Stuart A.J., and Lister A.M. The mammalian faunas of Pakefield/Kessingland and Corton, Suffolk, UK: Evidence for a new temperate episode in the British early Middle Pleistocene. Quat. Sci. Rev. 20 (2001) 1677-1692
49. Stuart A.J. A comparison of the Middle Pleistocene mammal faunas of Voigstedt (Thuringia German Democratic Republic) and West Runton, Norfolk, England. Quartarpalaontologie Berlin 4 (1981) 155-163
50. Stuart A.J. The vertebrate fauna of the type Cromerian. Boreas 4 (1975) 63-76
51. Stuart A.J. Pleistocene Vertebrates in the British Isles (1982), Longman, London
52. Schweitzer M., Hill C.L., Asara J.M., Lane W.S., and Pincus S.H. Identification of immunoreactive material in mammoth fossils. J. Mol. Evol. 55 (2002) 696-705
53. Asara J.M., Schweitzer M.H., Freimark L.M., Phillips M., and Cantley L.C. Protein sequences from Mastodon and Tyrannosaurus Rex revealed by mass spectrometry. Science 316 (2007) 280-285
54. Collins M.J., Waite E.R., and van Duin A.C.T. Predicting protein decomposition: The case of aspartic-acid racemization kinetics. Phil. Trans. Roy. Soc. Lond. Ser. B 354 (1999) 51-64