Erratum: Proteomic analysis of skeletal organic matrix from the stony coral Stylophora pistillata (Proceedings of the National Academy of Sciences of the United States of America (2013) 110 (3788-3793) DOI: 10.1073/pnas.1301419110);Proteomic analysis of skeletal organic matrix from the stony coral stylophora pistillata

Proceedings of the National Academy of Sciences of the United States of America

Volumn 110, Issue 10, 2013, Pages 3788-3793

  Drake, Jeana L ^a   Mass, Tali ^a   Haramaty, Liti ^a   Zelzion, Ehud ^a   Bhattacharya, Debashish ^a   Falkowski, Paul G ^a  

^a RUTGERS UNIVERSITY   (United States)

Author keywords

Acid rich proteins; Cadherin; Carbonic anhdyrase; Collagen

Indexed keywords

ACID PROTEIN; CALCIUM CARBONATE; MATRIX PROTEIN; TRANSCRIPTOME;

AMINO ACID SEQUENCE; ARTICLE; BIOMINERALIZATION; CELL ADHESION; CONTROLLED STUDY; CORAL; GENOME; HOST CELL; INVERTEBRATE; LIQUID CHROMATOGRAPHY; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; PROTEIN STRUCTURE; PROTEOMICS; SKELETON; STYLOPHORA PISTILLATA; TANDEM MASS SPECTROMETRY; VERTEBRATE;

EID: 84874620937     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1305081110     Document Type: Erratum

References (61)

1. Lowenstam HA, Weiner S (1989) On Biomineralization (Oxford Univ Press, New York, NY).
2. Dove PM, Yoreo JJD, Weiner S, eds (2003) Reviews in Mineralogy and Geochemistry: Biomineralizaiton (Mineralogical Society of America, Washington, DC), Vol 54, p 381.
3. Dobbs FC, Zimmerman RC, Drake LA (2004) Occurrence of intracellular crystals in leaves of Thalassia testudinum. Aquat Bot 80(1):23-28.
4. Drescher B, Dillaman RM, Taylor AR (2012) Coccolithogenesis In Scyphosphaera apsteinii (Prymnesiophyceae). J Phycol 48(6):1343-1361.
5. Boonrungsiman S, et al. (2012) The role of intracellular calcium phosphate in osteoblast- mediated bone apatite formation. Proc Natl Acad Sci USA 109(35):14170-14175.
6. Wainwright SA (1963) Skeletal organization in the coral, Pocillopora damicornis. Q J Microsc Sci s3-104(66):169-183.
7. Weiner S, Hood L (1975) Soluble protein of the organic matrix of mollusk shells: a potential template for shell formation. Science 190(4218):987-989.
8. Addadi L, Joester D, Nudelman F, Weiner S (2006) Mollusk shell formation: A source of new concepts for understanding biomineralization processes. Chemistry 12(4): 980-987.
9. Asenath-Smith E, Li H, Keene EC, Seh ZW, Estroff LA (2012) Crystal growth of calcium carbonate in hydrogels as a model of biomineralization. Adv Funct Mater 22(14): 2891-2914.
10. Beniash E (2011) Biominerals-Hierarchical nanocomposites: The example of bone. Wiley Interdiscip Rev Nanomed Nanobiotechnol 3(1):47-69.
11. Marks MH, Bear RS, Blake CH (1949) X-ray diffraction evidence of collagen-type protein fibers in the Echinodermata, Coelenterata and Porifera. J Exp Zool 111(1): 55-78.
12. Goldberg WM (1974) Evidence of a sclerotized collagen from the skeleton of a gorgonian coral. Comp Biochem Physiol B 49(3):525-529.
13. Hunter GK, Goldberg HA (1993) Nucleation of hydroxyapatite by bone sialoprotein. Proc Natl Acad Sci USA 90(18):8562-8565.
14. He G, Dahl T, Veis A, George A (2003) Nucleation of apatite crystals in vitro by selfassembled dentin matrix protein 1. Nat Mater 2(8):552-558.
15. Gotliv B-A, et al. (2005) Asprich: A novel aspartic acid-rich protein family from the prismatic shell matrix of the bivalve Atrina rigida. ChemBioChem 6(2):304-314.
16. Suzuki M, et al. (2009) An acidic matrix protein, Pif, is a key macromolecule for nacre formation. Science 325(5946):1388-1390.
17. Takeuchi T, Sarashina I, Iijima M, Endo K (2008) In vitro regulation of CaCO(3) crystal polymorphism by the highly acidic molluscan shell protein Aspein. FEBS Lett 582(5): 591-596.
18. Shinzato C, et al. (2011) Using the Acropora digitifera genome to understand coral responses to environmental change. Nature 476(7360):320-323.
19. Murdock DJE, Donoghue PCJ (2011) Evolutionary origins of animal skeletal biomineralization. Cells Tissues Organs 194(2-4):98-102.
20. Knoll AH (2003) Biomineralization and evolutionary history. Rev Mineral Geochem 54(1):329-356.
21. Marin F (2007) Unusually acidic proteins in biomineralization. Handbook of Biomineralization, eds Baurlein E, Picket-Heaps J (Max Planck Institute for Biochemistry), pp 273-286.
22. Veron J (1986) Corals of Australia and the Indo-Pacific (Univ of Hawaii Press, Honolulu, HI), p 644.
23. Clode PL, Marshall AT (2002) Low temperature FESEM of the calcifying interface of a scleractinian coral. Tissue Cell 34(3):187-198.
24. Goffredo S, et al. (2011) The skeletal organic matrix from Mediterranean coral Balanophyllia europaea influences calcium carbonate precipitation. PLoS ONE 6(7): e22338.
25. Young SD (1971) Organic material from scleractinian coral skeletons - I. Variation in composition between several species. Comp Biochem Physiol 40B(1):113-120.
26. Ducklow HW, Mitchell R (1979) Composition of mucus released by coral reef coelenterates. Limnol Oceanogr 24(4):706-714.
27. Watanabe T, Fukuda I, China K, Isa Y (2003) Molecular analyses of protein components of the organic matrix in the exoskeleton of two scleractinian coral species. Comp Biochem Physiol B Biochem Mol Biol 136(4):767-774.
28. 2-driven acidification during the initiation of calcification. Mol Ecol 21(10):2440-2454.
29. Kaniewska P, et al. (2012) Major cellular and physiological impacts of ocean acidification on a reef building coral. PLoS ONE 7(4):e34659.
30. Sunagawa S, DeSalvo MK, Voolstra CR, Reyes-Bermudez A, Medina M (2009) Identification and gene expression analysis of a taxonomically restricted cysteine-rich protein family in reef-building corals. PLoS ONE 4(3):e4865.
31. Hayward DC, et al. (2011) Differential gene expression at coral settlement and metamorphosis-A subtractive hybridization study. PLoS ONE 6(10):e26411.
32. Sarashina I, Endo K (2006) Skeletal matrix proteins of invertebrate animals: Comparative analysis of their amino acid sequences. Paleontological Research 10(4):311-336.
33. Marie B, et al. (2012) Different secretory repertoires control the biomineralization processes of prism and nacre deposition of the pearl oyster shell. Proc Natl Acad Sci USA 109(51):20986-20991.
34. Mass T, et al. (2012) Aragonite precipitation by "proto-polyps" in coral cell cultures. PLoS ONE 7(4):e35049.
35. Mehr SFP, et al. De novo RNA-seq assembly and clustering of expressed proteins from uncharacterized corals. BMC Genomics.
36. Derycke L, et al. (2006) Soluble N-cadherin fragment promotes angiogenesis. Clin Exp Metastasis 23(3-4):187-201.
37. Nose A, Nagafuchi A, Takeichi M (1988) Expressed recombinant cadherins mediate cell sorting in model systems. Cell 54(7):993-1001.
38. Traylor-Knowles N, et al. (2011) Production of a reference transcriptome and transcriptomic database (PocilloporaBase) for the cauliflower coral, Pocillopora damicornis. BMC Genomics 12(1):585.
39. Ehrlich H (2010) Chitin and collagen as universal and alternative templates in biomineralization. Int Geol Rev 52(7-8):661-699.
40. Silver FH, Landis WJ (2011) Deposition of apatite in mineralizing vertebrate extracellular matrices: A model of possible nucleation sites on type I collagen. Connect Tissue Res 52(3):242-254.
41. Helman Y, et al. (2008) Extracellular matrix production and calcium carbonate precipitation by coral cells in vitro. Proc Natl Acad Sci USA 105(1):54-58.
42. Jackson DJ, et al. (2010) Parallel evolution of nacre building gene sets in molluscs. Mol Biol Evol 27(3):591-608.
43. Bertucci A, Tambutté S, Supuran CT, Allemand D, Zoccola D (2011) A new coral carbonic anhydrase in Stylophora pistillata. Mar Biotechnol (NY) 13(5):992-1002.
44. Moya A, et al. (2008) Carbonic anhydrase in the scleractinian coral Stylophora pistillata: Characterization, localization, and role in biomineralization. J Biol Chem 283(37):25475-25484.
45. Venn AA, et al. (2012) Impact of seawater acidification on pH at the tissue-skeleton interface and calcification in reef corals. Proc Natl Acad Sci USA 110(5):1634-1639.
46. Miyamoto H, et al. (1996) A carbonic anhydrase from the nacreous layer in oyster pearls. Proc Natl Acad Sci USA 93(18):9657-9660.
47. Zoccola D, et al. (2009) Specific expression of BMP2/4 ortholog in biomineralizing tissues of corals and action on mouse BMP receptor. Mar Biotechnol (NY) 11(2):260-269.
48. Vitt UA, Hsu SY, Hsueh AJW (2001) Evolution and classification of cystine knotcontaining hormones and related extracellular signaling molecules. Mol Endocrinol 15(5):681-694.
49. Puverel S, et al. (2005) Soluble organic matrix of two Scleractinian corals: Partial and comparative analysis. Comp Biochem Physiol B Biochem Mol Biol 141(4): 480-487.
50. Mann K, Wilt FH, Poustka AJ (2010) Proteomic analysis of sea urchin (Strongylocentrotus purpuratus) spicule matrix. Proteome Sci 8:33.
51. Veron JEN (2000) Corals of the World (Sea Challengers, Monterey, CA).
52. Jiang L, He L, Fountoulakis M (2004) Comparison of protein precipitation methods for sample preparation prior to proteomic analysis. J Chromatogr A 1023(2): 317-320.
53. Craig R, Beavis RC (2004) TANDEM: Matching proteins with tandem mass spectra. Bioinformatics 20(9):1466-1467.
54. Levy S, et al. (2007) The diploid genome sequence of an individual human. PLoS Biol 5(10):e254.
55. Armbrust EV, et al. (2004) The genome of the diatom Thalassiosira pseudonana: Ecology, evolution, and metabolism. Science 306(5693):79-86.
56. Sullivan JC, et al. (2006) StellaBase: The Nematostella vectensis genomics database. Nucleic Acids Res 34(Database issue):suppl 1):D495-D499.
57. Sodergren E, et al.; Sea Urchin Genome Sequencing Consortium (2006) The genome of the sea urchin Strongylocentrotus purpuratus. Science 314(5801):941-952.
58. Burki F, Nikolaev SI, Bolivar I, Guiard J, Pawlowski J (2006) Analysis of expressed sequence tags from a naked foraminiferan Reticulomyxa filosa. Genome 49(8): 882-887.
59. Ashkenazy H, Erez E, Martz E, Pupko T, Ben-Tal N (2010) ConSurf 2010: Calculating evolutionary conservation in sequence and structure of proteins and nucleic acids. Nucleic Acids Res 38(Web Server issue):suppl 2):W529-W533.
60. Roy A, Kucukural A, Zhang Y (2010) I-TASSER: A unified platform for automated protein structure and function prediction. Nat Protoc 5(4):725-738.
61. Kelley LA, Sternberg MJ (2009) Protein structure prediction on the Web: A case study using the Phyre server. Nat Protoc 4(3):363-371.