Skip to content
Licensed Unlicensed Requires Authentication Published by De Gruyter July 30, 2016

The crystal structure of svabite, Ca5(AsO4)3F, an arsenate member of the apatite supergroup

  • Cristian Biagioni EMAIL logo , Ferdinando Bosi , Ulf Hålenius and Marco Pasero
From the journal American Mineralogist

Abstract

The crystal structure of svabite, ideally Ca5(AsO4)3F, was studied using a specimen from the Jakobsberg mine, Värmland, Sweden, by means of single-crystal X-ray diffraction data. The structure was refined to R1 = 0.032 on the basis of 928 unique reflections with Fo > 4σ(Fo) in the P63/m space group, with unit-cell parameters a = 9.7268(5), c = 6.9820(4) Å, V = 572.07(5) Å3. The chemical composition of the sample, determined by electron-microprobe analysis, is (in wt%, average of 10 spot analyses): SO3 0.49, P2O5 0.21, V2O5 0.04, As2O5 51.21, SiO2 0.19, CaO 39.31, MnO 0.48, SrO 0.03, PbO 5.19, Na2O 0.13, F 2.12, Cl 0.08, H2Ocalc 0.33, O (≡ F+Cl) –0.91, total 98.90. On the basis of 13 anions per formula unit, the empirical formula corresponds to (Ca4.66Pb0.16Mn0.04Na0.03)Σ4.89(As2.96S0.04Si0.02P0.02)Σ3.04O12 [F0.74(OH)0.24Cl0.01]. Svabite is topologically similar to the other members of the apatite supergroup: columns of face-sharing M1 polyhedra running along c are connected through TO4 tetrahedra with channels hosting M2 cations and X anions. The crystal structure of synthetic Ca5(AsO4)3F was previously reported as triclinic. On the contrary, the present refinement of the crystal structure of svabite shows no deviations from the hexagonal symmetry. An accurate knowledge of the atomic arrangement of this apatite-remediation mineral represents an improvement in our understanding of minerals able to sequester and stabilize heavy metals such as arsenic in polluted areas.


Special collection papers can be found online at http://www.minsocam.org/MSA/AmMin/special-collections.html.


Acknowledgments

We thank M. Serracino who assisted us during electron-microprobe analysis. MP acknowledges financial support from the University of Pisa (PRA_2015_0028). J. Hughes and J. Rakovan acted as reviewers, helping us in improving the manuscript.

References cited

Baikie, T., Mercier, P.H.J., Elcombe, M.M., Kim, J.Y., Le Page, Y., Mitchell, L.D., and White, Y.J. (2007) Triclinic apatites. Acta Crystallographica, B63, 251–256.10.1107/S0108768106053316Search in Google Scholar PubMed

Bauer, L.H., and Berman, H. (1930) Note on some Franklin minerals. American Mineralogist, 15, 340–348.Search in Google Scholar

Biagioni, C., and Pasero, M. (2013) The crystal structure of johnbaumite, Ca5(AsO4)3OH, the arsenate analogue of hydroxylapatite. American Mineralogist, 98, 1580–1584.10.2138/am.2013.4443Search in Google Scholar

Brese, N.E., and O’Keeffe, M. (1991) Bond-valence parameters for anion-anion bonds in solids. Acta Crystallographica, B48, 152–154.Search in Google Scholar

Bruker AXS Inc. (2004) APEX 2. Bruker Advanced X-ray Solutions, Madison, Wisconsin, U.S.A.Search in Google Scholar

Charlet, L., and Polya, D.A. (2006) Arsenic in shallow, reducing groundwaters in Southern Asia: An environmental health disaster. Elements, 2, 91–96.10.2113/gselements.2.2.91Search in Google Scholar

Dai, Y.S., and Harlow, G.E. (1991) Structural relationships of arsenate apatites with their anion-devoid intermetallic phase Ca5As3. Geological Society of America Annual Meeting, Program and Abstracts, 23, A219.Search in Google Scholar

Gaines, R.V., Skinner, H.C.W., Foord, E.E. Mason, B., and Rosenzweig, A. (1997) Dana’s New Mineralogy, 1819 p. Wiley, New York.Search in Google Scholar

Hamilton, W.C. (1964) Statistics in Physical Science. Estimation, hypothesis testing, and least squares, 230 p. The Ronald Press Company, New York.Search in Google Scholar

Hamilton, W.C. (1965) Significance tests on the crystallographic R factor. Acta Crystallographica, 18, 502–510.10.1107/S0365110X65001081Search in Google Scholar

Henderson, C.M.B., Bell, A.M.T., Charnock, J.M., Knight, K.S., Wendlandt, R.F., Plant, D.A., and Harrison, W.J. (2009) Synchrotron X-ray absorption spectroscopy and X-ray powder diffraction studies of the structure of johnbaumite [Ca10(AsO4)6(OH, F)2] and synthetic Pb-, Sr- and Ba-arsenate apatites and some comments on the crystal chemistry of the apatite structure type in general. Mineralogical Magazine, 73, 433–455.10.1180/minmag.2009.073.3.433Search in Google Scholar

Hughes, J.M., Cameron, M., and Crowley, K.D. (1989) Structural variation in natural F, OH, and Cl apatites. American Mineralogist, 74, 870–876.Search in Google Scholar

Hughes, J.M., Nekvasil, H., Ustunisik, G., Lindsley, D.H., Coraor, A.E., Vaughn, J., Phillips, B.L., McCubbin, F.M., and Woerner, W.R. (2014) Solid solution in the fluorapatite-chlorapatite binary system: High precision crystal structure refinements of synthetic F-Cl apatite. American Mineralogist, 99, 369–376.10.2138/am.2014.4644Search in Google Scholar

Krivovichev, S.V. (2012) Derivation of bond-valence parameters for some cation-oxygen pairs on the basis of empirical relationships between r0 and b. Zeitschrift für Kristallographie, 227, 575–579.10.1524/zkri.2012.1469Search in Google Scholar

Lee, Y. J., Stephens, P.W., Tang, Y., Li, W., Phillips, B.L., Parise, J.B., and Reeder, R.J. (2009) Arsenate substitution in hydroxylapatite: structural characterization of the Ca5(PxAs1–xO4)3OH solid solution. American Mineralogist, 94, 666–675.10.2138/am.2009.3120Search in Google Scholar

Lim, S.C., Baikie, T., Pramana, S.S., Smith, R., and White, T.J. (2011) Apatite metaprism twist angle (φ) as a tool for crystallochemical diagnosis. Journal of Solid State Chemistry, 184, 2978–2986.10.1016/j.jssc.2011.08.031Search in Google Scholar

Libowitzky, E. (1999) Correlation of O-H stretching frequencies and O-H···O hydrogen bond lengths in minerals. Monatshefte für Chemie, 130, 1047–1059.10.1007/978-3-7091-6419-8_7Search in Google Scholar

Malinko, S.V., Rumyantsev, G.S., and Sidorenko, G.A. (1966) Svabite from contact-metasomatic deposits of Siberia and the Urals. Doklady Akademii Nauk SSSR, 166, 134–137.Search in Google Scholar

Palache, C., Berman, H., and Frondel, C. (1951) The System of Mineralogy. Volume II, 7th ed., 1124 pp., Wiley, New York.Search in Google Scholar

Pasero, M., Kampf, A.R., Ferraris, C., Pekov, I.V., Rakovan, J., and White, T.J. (2010) Nomenclautre of the apatite supergroup minerals. European Journal of Mineralogy, 22, 163–179.10.1127/0935-1221/2010/0022-2022Search in Google Scholar

Pouchou, J.L., and Pichoir, F. (1991) Quantitative analysis of homogeneous or stratified microvolumes applying the model “PAP”. In K.F.J. Heinrich and D.E. Newbury, Eds., Electron Probe Quantitation, p. 31–75, Plenum Press, New York.10.1007/978-1-4899-2617-3_4Search in Google Scholar

Rakovan, J.F., and Pasteris, G.D. (2015) A technological gem: Materials, medical, and environmental mineralogy of apatite. Elements, 11, 195–200.10.2113/gselements.11.3.195Search in Google Scholar

Sheldrick, G.M. (2008) A short history of SHELX. Acta Crystallographica, A64, 112–122.10.1107/S0108767307043930Search in Google Scholar PubMed

Sjögren, H. (1891) Svabit, ett mineral af apatitgruppen från Harstigsgrufvan. Geologiska Föreningen i Stockholm Förhandlingar, 13, 789–796.Search in Google Scholar

Sjögren, H. (1892) Contributions to Swedish mineralogy. Part I: 7. Svabite a new member of the apatite group. Bulletin of the Geological Institution of the University of Upsala, 1, 50–56.Search in Google Scholar

Wang, K.L., Zhang, Y., and Naab, F.U. (2011) Calibration for IR measurements of OH in apatite. American Mineralogist, 96, 1392–1397.10.2138/am.2011.3756Search in Google Scholar

Wardojo, T.A., and Hwu, S.J. (1996) Chlorapatite: Ca5(AsO4)3Cl. Acta Crystallo-graphica, C52, 2959–2960.10.1107/S0108270196011006Search in Google Scholar

Welin, E. (1968) X-ray powder data for minerals from Långban and the related mineral deposits of Central Sweden. Arkiv för Mineralogi och Geologi, 4, 499–541.Search in Google Scholar

White, T.J., and Dong, Z. (2003) Structural derivation and crystal chemistry of apatites. Acta Crystallographica, B59, 1–16.10.1107/S0108768102019894Search in Google Scholar PubMed

White, T., Ferraris, C., Kim, J., and Madhavi, S. (2005) Apatite—An adaptive framework structure. Reviews in Mineralogy and Geochemistry, 57, 307–401.10.2138/rmg.2005.57.10Search in Google Scholar

Wilson, A.J.C. (1992) International Tables for Crystallography Volume C. Kluwer, Dordrecht.Search in Google Scholar

Received: 2015-11-27
Accepted: 2016-3-27
Published Online: 2016-7-30
Published in Print: 2016-8-1

© 2016 by Walter de Gruyter Berlin/Boston

Downloaded on 19.4.2024 from https://www.degruyter.com/document/doi/10.2138/am-2016-5636/html
Scroll to top button