Research Initiative on Bahamian Stromatolites (RIBS) Contributions
A1. Reid, R.P., Macintyre, I.G., Steneck, R.S., Browne, K.M., and Miller, T.E., 1995. Stromatolites in the Exuma Cays, Bahamas: Uncommonly common. Facies, v. 33, p. 1-18. Also cover page of this issue.
A2. Pinckney, J., Paerl, H.W., Reid, R.P. and Bebout, B. 1995. Ecophysiology of stromatolitic mats, Stocking Island, Exuma Cays, Bahamas. Microbial Ecology, v. 29, p. 19-37.
A3. Macintyre, I.G., Reid, R.P., and Steneck, R.S. 1996. Growth history of stromatolites in a fringing Holocene reef, Stocking Island, Bahamas. Journal of Sedimentary Research, v. 66, p.231-242.
A4. Pinckney, J.L. and Reid, R.P. 1997. Productivity and community composition of stromatolitic microbial mats in the Exuma Cays, Bahamas. Facies, v. 36, p. 204-207.
A5. Steneck, R.S., Macintyre, I.G. and Reid, R.P. 1997. Unique algal ridge systems of Exuma Cays, Bahamas. Coral Reefs v. 16, p. 29-37.
A6.Steneck, R. S., Miller, T. E., Reid, R. P. and Macintyre, I. G. 1998. Ecological controls on stromatolite development in a modern reef environment: a test of the ecological refuge paradigm. Carbonates and Evaporites, v. 13, p. 48-65.
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#1. Visscher, P.T., Reid, R.P., Bebout, B.M., Hoeft, S.E., Macintyre, I.G., and Thompson, J. Jr.. 1998. Formation of lithified micritic laminae in modern marine stromatolites (Bahamas): the role of sulfur cycling. American Mineralogist, v. 83, p. 1482-1491.
#2. Decho, A.W. 1999. Imaging an alginate polymer gel matrix using atomic force microscopy. Carbohydrate Research. v. 315 p. 330-333.
#3. Visscher, P.T., Gritzer, R.F., Leadbetter, E.R.. 1999. Low-molecular weight sulfonates: a major substrate for sulfate reducers in marine microbial mats. Applied and Environmental Microbiology, v. 65, p. 3272-3278.
# 4. Reid, R.P., Macintyre, I.G., Steneck, 1999, A microbialite/algal ridge fringing reef complex, Highborne Cay, Bahamas. Atoll Research Bulletin No. 466, p. 1-18.
#5. Decho, A.W. and T. Kawaguchi. 1999. Confocal imaging of in situ natural microbial communities and their extracellular polymeric secretions (EPS) using nanoplast resin. BioTechniques v. 27, p. 1246-1251.
#6. Decho, A.W. 1999. "Microbial Biofilms in Intertidal Systems: An Overview" Continental Shelf Res. 20: 1257-1273.
#7. Macintyre, I.G., Prufert-Bebout, L. and Reid, R.P. 2000. The role of endolithic cyanobacteria in the formation of lithified laminae in Bahamian stromatolites. Sedimentology, v. 47, p. 915-921.
#8. Kawaguchi, T. and A.W. Decho 2000. Biochemical characterization of cyanobacterial extracellular polymers (EPS) from modern marine stromatolites. Preparative Biochemistry and BioTechnology v. 30, p. 321-330.
#9. Visscher, P.T., Reid, R.P. and Bebout, B.M. 2000. Microscale observations of sulfate reduction: correlation of microbial activity with lithified micritic laminae in modern marine stromatolites. Geology v. 28, p. 919-922.
#10. Reid, R.P., Visscher, P.T., Decho, A.W., Stolz, J.K., Bebout, B.M., Dupraz, C., Macintyre, I.G., Paerl, H.W., Pinckney, J.L., Prufert-Bebout, L., Steppe, T.F., and DesMarais, D.J. 2000, The role of microbes in accretion, lamination and lithification of modern marine stromatolites. Nature v. 406, p. 989-992.
#11. Steppe, T.F., Pinckney, J., Dyble, J., Paerl, H.W. 2001. Diazotrophy in modern marine Bahamian stromaolites. Microbial Ecology v. 41, p. 36-44.
#12. Paerl, H.W., Steppe, T.F., Reid, R.P. 2001. Bacterially-mediated precipitation in marine stromatolites. Environmental Microbiology v. 3, p. 123-130 see also cover page).
#13. Stolz, J.F, Feinstein, T.N., Salsi, J., and Reid, R.P. 2001. Microbial role in sedimentation and lithification in a modern marine stromatolite: a TEM perspective. American Minerologist v. 86, p. 826-833
#14. Visscher, P.T., Hoeft, S.E., Surgeon, T.M.L., Rogers, D.R., Bebout, B.M., Thompson, J.S. Jr., Reid, R.P. 2002. Microelectrode measurements in stromatolites: Unraveling the Earth's past? in Taillefert, M., and Rozan, T. (eds), ACS Symposium Series 220. Environmental Electrochemical Analyses of Trace Metal Biogeochemistry, ,. Cambridge Univ.Press, New York, p. 265-282.
#15. Stolz, J.F. 2003. Structure in marine biofilms. In Krumbein, W.E., Paterson D. M. and Zavarzin G. A. (eds) Fossil and Recent Biofilms- a natural history of life on Earth -Kluwer Academic Publishers p. 65-76.
#16. Decho, A.W. 2003. The extracellular polymeric (EPS) matrix and calcification within modern marine stromatolite. In: Krumbein, W.E., Paterson D. M. and Zavarzin G. A. (eds) Fossil and Recent Biofilms- a natural history of life on Earth -Kluwer Academic Publishers p. 227-240.
#17. Reid R.P., Dupraz, C., Visscher, P.T., Sumner, D.Y. 2003. Microbial processes forming modern marine stromatolites: microbe-mineral interactions with a three-billion-year rock record. In Krumbein, W.E., Paterson D. M. and Zavarzin G. A. (eds) Fossil and Recent Biofilms a natural history of life on Earth -Kluwer Academic Publishers, p. 103-118.
#18. Andres, M.S., Reid, R.P. Dupraz, C. Bahamian Stromatolites. Brochure for distribution in the Bahamas. 3rd edition, 2005.
#19. Kawaguchi, T. and Decho, A.W. 2002. In-situ microspatial imaging using two-photon and confocal laser scanning microscopy of bacteria and its extracellular polymeric secretions (EPS) within marine stromatolites. Marine BioTechnology 4: 127-131.
#20. Kawaguchi, T. & Decho, A.W. 2002. A laboratory investigation of cyanobacterial extracellular polymeric secretions (EPS) in influencing CaCO3 polymorphism. Journal of Crystal Growth 240: 230-235.
#21. Kawaguchi, T. and Decho, A.W. 2001 Visualization of microbial community and their extracellular polymeric secretions (EPS) in situ in modern marine stromatolites by two photon and confocal scanning laser microscopy. Microscopy Today Issue #01-8: 26-27.
#22. Kawaguchi, T. and Decho, A.W. 2001. Potential roles of extracellular polymeric secretions (EPS) in regulating calcification: a study of marine stromatolites, Bahamas. 2001. Thalassas 17(2): 11-19.
#23. Kawaguchi, T. & Decho, A.W. 2002 In situ analysis of carboxyl (-COOH) and sulfhydryl (-SH) groups of extracellular polymeric secretions (EPS) by confocal laser scanning microscopy. Analytical Biochemistry 304:266-267.
#23b. Kawaguchi, T. and Decho, A.W. 2002. Isolation and biochemical characterization of extracellular polymers (EPS) from modern soft marine stromatolites: inhibitory effects on CaCO3 precipitation. Preparative BioChemistry BioTechnology. 32: 51-63.
#24. Dupraz, C., Visscher, P.T., Baumgartner, L.K., Reid, R.P. 2004. Microbe-mineral interactions: early carbonate precipitation in a hypersaline lake (Eleuthera Island, Bahamas). Sedimentology v. 51, p. 745-765.
#24b. Kawaguchi, T., H. Al-Sayegh, and Decho, A.W. 2003. Development of an indirect competitive enzyme-linked immunosorbent assay to detect extracellular polymeric substances (EPS) secreted by the marine stromatolite-forming cyanobacteria, Schizothrix sp. Journal of Immunoassay and Immunochemistry 24: 29-39.
#25. Reid, R.P., James, N.P., Macintyre, I.G., Dupraz, C.P., Burne, R.V. 2003. Shark Bay stromatolites: microfabrics and reinterpretation of origins. Facies v. 49, p. 45-53.
#26. Visscher, P.T. and Stolz, J.F. 2005. Microbial mats as bioreactors: populations, processes, and products. Palaeogeography, Palaeoclimatology, Palaeoecologyv, 219, p. 87-100.
#27. Petrisor, A.I., T. Kawaguchi, A.W. Decho. 2004 Quantifying CaCO3 microprecipitates within developing surface mats of marine stromatolites using GIS and Digital Image Analysis. Geomicrobiology 21: 491-496.
#28. Decho, A.W. Visscher, P.T. and Reid, R.P. 2005. Production and cycling of natural microbial exopolymers (EPS) within a marine stromatolite. Palaeogeography, Palaeoclimatology, Palaeoecologyv, 219, p. 71-86.
#29 Petrisor, A.I.,,A. Cuc, A.W. Decho. 2004. Reconstruction and computation of microscale
biovolumes using geographical information systems: potential difficulties. Research in
Microbiology 155: 447-454.
#30Petrisor, A.I., A.W. Decho. 2004. Using geographical informationtechniques to quantify the spatial structure of endolithic boring processes within sediment grains of marine stromatolites. Journal of Microbiological Methods 56: 173-180.
#31 Andres, M.S. and Reid, R.P.. 2006 . Growth Morphologies of Modern Marine Stromatolites: A Case Study from Highborne Cay, Bahamas. Sedimentary Geology; 185, p. 319-328.
#32 Dupraz, C.D. and Visscher, P.T. 2005. Microbial Lithification in Marine Stromatolites and Hypersaline Mats. Trends in Microbial Ecology. V. 13, p. 429-438.
#33. Baumgartner, L.K., Reid, R.P., Dupraz, C., Decho, A.W., Buckley, D.H., Spear, J.R., Przekop, K.M., Visscher, P.T. (2006), Sulfate reducing bacteria in microbial mats: changing paradigms, new discoveries, Sedimentary Geology, v. 185, p. 131-145.
#34 Littler, D.S., Littler, M.M., Macintyre, I.G., Bowlin, E., Andres, M.S. and Reid, R.P. 2005. Guide to the dominant macroalgae of the stromatolite fringing reef complex, Highborne Cay, Bahamas. Atoll Research Bulletin, nos. 532, November 2005, p 67-91.
# 35 Andres, M.S., Sumner, D.Y., Reid, R.P., Swart, P.K. 2006. Isotopic Fingerprints of Microbial Respiration in Aragonite from Bahamian Stromatolites. Geology v. 34, p. 973-976.
#36 Andres, M.S, Reid, R.P., Bowlin, E. , Gaspar, A.P. and Eisenhauer, A. 2009. Microbes versus metazoans as dominant reef builders: insights from modern marine environments in the Exuma Cays, Bahamas. Perspectives in Sedimentary Geology: A Tribute to the Career of Robert Nathan Ginsburg, IAS Special Publication 41, p. 149-165.
#37 Kromkamp,J.C., Perkins, R., Dijkman,N., Consalvey,M., Andres, M., Reid, R.P. 2007. Resistance to burial of cyanobacteria in stromatolites. Aquatic Microbial Ecology v. 48, p. 123-130.
# 38. Perkins, R.G., Kromkamp, J.C. and Reid, R.P. 2007. How do stromatolite photosynthetic communities tolerate natural sand burial events? Possible involvement of light and oxygen in photochemical reactivation. Mar Ecol Prog Ser. v. 349, p. 23-32.
#39 Braisssant, O., Decho, A.W., Dupraz, C., Glunk, C., Przekop, K.M., and Visscher, P.T. 2007. Exopolymeric substances of sulfate-reducing bacteria: Interactions with calcium at alkaline pH and implication for formation of carbonate minerals. Geobiology v. 5, p. 401-411.
#40 Eckman J.E., Andres, M.S., Marinelli, R.L., Bowlin, E., Reid, R.P. Aspden, R.J. and Paterson, D.M. 2008. Wave and sediment dynanmics along a shallow sub-tidal sandy beach inhabited by modern marine stromatolites. Geobiology. v. 6., p. 21-32.
#41 Desnues, C.G., Rodriguez-Brito, B., Rayhawk, S., Kelley, S., Tran, T., Haynes,, M., Liu, H., Hall, D., Angly, F.E., Edwards, R.A., Thurber, R.V., Reid, R.P., Siefert, J., Souza, V., Valentine, D., Swan, B., Breitbart, M.,& Rohwer, F. 2008. Biodiversity and biogeography of phages in modern stromatolites and thrombolites. Nature v. 452 , p. 340-345.
#42 Kawaguchi, T., Y.P. Chen, R.S. Norman, A.W. Decho. 2008. Rapid Screening of Quorum Sensing signal N-acyl homoserine Lactones by an In Vitro Cell-Free Assay. Applied Environ. Microbiol. v 74, p. 3667-3671.
#43 Paterson, D.M., Aspden, R., Visscher, P.T., Consalvey. M., Andres, M.S. , Decho, A.W. Stolz, J. and Reid, R.P. 2008. Light-dependant biostabilisation of sediments by stromatolite assemblages. PLOS ONE 3(9): e3176.
#44 Decho, A.W., Visscher, P.T., Ferry, J., Kawaguchi, T., He, L., Przekop, K.M., Norman, R.S., Reid, R.P. (2009) Autoinducers extracted from microbial mats reveal a surprising diversity of N-acylhomoserine lactones (AHL) and abundance changes that may relate to diel pH. Environmental Microbiology, v 11, p. 409-420.
#45 Franks, J. and Stolz, J.F., 2008. Flat Laminated Microbial Mat Communities. Earth Science Reviews, v. 96, p. 163-172.
#46 Foster. J.S., Green, S.J., Ahrendt, S.R., Golubic, S., Reid, R.P. Hetherington, K.L., and Bebout, L. 2009. Molecular and morphological characterization of cyanobacterial diversity in the stromatolites of Highborne Cay, Bahamas. ISME Journal v. 3, p. 573-587.
#47 Dupraz, C., Reid, R.P.,Braissant. O., Decho, A.W., Norman, R.S. and Visscher, P.T. 2009. Processes of carbonate precipitation in modern microbial mats. Earth Science Reviews, v. 96, p. 141–162.
#48 Havemann, S.A. and Foster, J.S. 2008. Comparative characterization of the microbial diversities of an artificial microbialite model and a natural stromatolite. Applied and Environmental Microbiology, v. 74, p. 7410-7421.
#49 Franks, J., Reid, R.P., Aspden, R.J., Underwood, G.J.C., Paterson, D.M., Stolz, J.F. 2010. Ooid accreting diatom communites from the modern marine stromatolites at Highborne Cay, Bahamas. In Seckbach, J., and Oren, A., (ed.) “Microbial Mats: Modern and Ancient Microorganisms in Stratifed Systems”, Cellular Origin, Life in Extreme Habitats and Astrobiology Series v. 14, Springer Publishing, New York, p. 277-285.
#50 Paterson, D.M., Aspden, R.J., Reid, R. P. 2010. Biodynamics of modern marine stromatolties. In Seckbach, J., and Oren, A., (ed.) “Microbial Mats: Modern and Ancient Microorganisms in Stratifed Systems”, Cellular Origin, Life in Extreme Habitats and Astrobiology Series v. 14, Springer Publishing, New York, p. 225-235.
#51 Dupraz, C., R.P. Reid, and P.T. Visscher. 2011. Modern Microbialites. In Reitner, J. and Thiel, V. (eds) Encyclopedia of Geobiology, Springer, Berlin. p. 617-635 .
#52 Larson, F., Lubarsky, H., Gerbersdorf, S.U., Paterson, D.M. 2009. Surface adhesion measurementsin aquatic biofilms using magnetic particle induction: MagPI. Limnology and Oceanography Methods, v. 7, p. 490-497.
#53 Foster, J.S. and Mobberley, J.M. 2010. Past, present and future: microbial mats as models for astrobiological research. In Seckbach, J., and Oren, A., (ed.) “Microbial Mats: Modern and Ancient Microorganisms in Stratifed Systems”, Cellular Origin, Life in Extreme Habitats and Astrobiology Series v. 14, Springer Publishing, New York, p. 565-582.
#54 Foster, J.S. and Green, S.J. 2011. Microbial diversity in modern stromatolites. In Seckback, J, and Tewari, V., Stromatolites- Interaction of microbes with sediments. Springer Publishing, New York, p. 383-405.
#55 Stolz, J.F., Reid,R.P., Visscher, P.T., Decho, A.W., Norman, S., Franks, J., Przekop, K., Bowlin, E.M, Foster, J., Aspden, R.J., Paterson, D.M., Underwood, G.J.C.; Prufert- Bebout, L., 2009. The microbial mat communities of modern marine stromatolites at Highborne Cay, Bahamas. Atoll Research Bulletin, v. 567, p. 1-29.
#56 Reid. R.P., Gaspar, A.P., Bowlin, E. Custals, L. and Andres, M.S. 2011. Microbialites and sediments: a two year record of burial and exposure of stromatolites and thrombolites at Highborne Cays, Bahamas. In . Seckbach, J., Tewari, V. (ed). Stromatolites- Interaction of microbes with sediments. Springer Publishing, New York, p. 407-425.
#57- Baumgartner, L.K., Spear, J.R., Daniel H. Buckley, D.H., Pace, N.R., ReidR.P., Visscher,. P.T. 2009. Microbial Diversity in Modern Marine Stromatolites, Highborne Cay, Bahamas. Environmental Microbiology, v. 11, p 2710-2719.
# 58. Planavsky N, Reid R.P., Andres M, Visscher P.T., Myshrall K.L., Lyons T.W., 2009. Formation and diagenesis of modern marine calcified cyanobacteria and implications for carbonate saturation in the ancient ocean. Geobiology v. 7, p. 566-576
# 59- Reid, R.P., Foster, J.S., Gudrun Radtke, G., Golubic. S. 2011. Modern Marine Stromatolites of Little Darby Island, Exuma Archipelago, Bahamas: Environmental setting, accretion mechanisms and role of euendoliths. In Reitner, J., Quéric, Nadia-Valérie Q., & Arp, G. (eds.) Advances in Stromatolite Geobiology, Lecture Notes in Earth Sciences, Springer Publishing, New York, p. 77-89.
#60. Myshrall, K.L., S.J. Green, J.M. Mobberley, S.A. Havemann, P.T. Visscher, R.P. Reid, and J.S. Foster (2010) Biogeochemical cycling and microbial diversity in the modern marine thrombolites of Highborne Cay, Bahamas. Geobiology. v. 8, p.337-354.DOI: 10.1111/j.1472-4669.2010.00245.x.
#61. Foster, J.S. and Shiel-Rolle N. 2011. Building scientific literacy through summer science camps: a strategy for design, implementation and assessment. Science Education International, v. 22: 85-98.
#62. Reid. R. P. 2011. Stromatolites. In Hopley. D. (ed.) Encyclopedia of Modern Coral Reefs, Springer, The Netherlands. p. 1045-1051.
#63. Bowlin, E.M., Klaus, J.S., Foster, J.S., Andres, M.S., Custals, L., Reid, R.P. 2012. Environmental controls on microbial community cycling in modern marine stromatolites. Sedimentary Geology v. 263-264, p. 45-55. Doi:10.1016/j.sedgeo.2011.08.002.
#64- Khodadad CLM, Foster JS (2012) Metagenomic and Metabolic Profiling of Nonlithifying and Lithifying Stromatolitic Mats of Highborne Cay, The Bahamas. PLoS ONE 7(5): e38229. doi:10.1371/journal.pone.0038229.
#65- Rupert G. Perkins, Jean-Luc Mouget, Jacco C. Kromkamp, John Stolz and R. Pamela Reid. 2012. Modern Stromatolite Phototrophic Communities: a comparative study of prokaryote and eukaryote phototrophs using variable chlorophyll fluorescence. FEMS Microbiol. Biol.Jun 4 2012. doi: 10.1111/j.1574-6941.2012.01421.x.
#66. Tarhan, L.G., Planavsky, N.J., Laumer, C.E., Stolz, J.F. and Reid, R.P. 2013 Microbial mat controls on infaunal abundance and diversity in modern marine microbialites. Geobiology. DOI: 10.1111/gbi.12049
#67. Mobberley, J.M., Khodadad, C.L.M. and Foster, J.S. 2013. Metabolic potential of lithifying cyanobacteria-dominated thrombolitic mats. Photosynth Res. DOI10.1007/s11120-013-9890-6
#68. Petrisor, A.I., Szyjka, S., Kawaguchi, T., Visscher, P.T., Norman, R.S.and Decho, A.W. 2014. Changing Microspatial Patterns of Sulfate-Reducing Microorganisms (SRM) during Cycling of Marine Stromatolite Mats. Int. J. Mol. Sci. 2014, 15, 850-877; doi:10.3390/ijms15010850
#69. Casaburi,G., Duscher, A.A, Reid, R.P., and Foster, J.S. 2016.Characterization of the stromatolite microbiome fromLittle Darby Island, The Bahamas using predictive and whole shotgun metagenomic analysis.Environmental Microbiology18: 1452-1469.
#70.Mobberley, JM, CLM Khodadad, PT Visscher, RP Reid, P Hagan, JS Foster (2015) Inner workings of thrombolites: spatial gradients of metabolic activity as revealed by metatranscriptome profiling. Scientific Reports5, 12601; doi: 10.1038/srep12601
#71. Louyakis,A.S., Mobberley,J.M., Vitek, B.E. Visscher, P.T. Hagan, P.D., Reid, R.P., Kozdon, R., Orland, I,J., Valley, J.W., Planavsky, N.J., Casaburi, G. and Foster, J.S. (2017). A study of the microbial spatial heterogeneity of Bahamian thrombolites using molecular, geochemical and stable isotope analysis. Astrobiology v. 17(5): 413-430.
#72. Louyakis, AS, Gourlé,H Casaburi,G. Bonjawo,RME, Duscher, AA and FosterJS * (2018) A year in thelife of athrombolite:comparative metatranscriptomics reveals dynamic metabolic changes over diel andseasonal cyclesEnvironmentalMicrobiology 20:842-861. DOI:10.1111/1462-2920.14029
Theses
Baumgartner, L. K. 2006. Diversity and Lithification in Microbial Mats and Stromatolites. PhD Dissertation, University of Connecticut, Groton, CT.
Franks, J. 2007. Confocal and TEM Analysis of Microbial Communities in Modern Stromatolites at Highborne Cay, Bahamas. MS Thesis.
Gaspar, A.G. 2007. Stromatolites: Unique seascapes of the Bahamas- Multiscale mapping and management guidelines for a living example of an ancient ecosystem. MS Thesis, University of Miami, Coral Gables. 178 p.
Bowlin, E.M. 2011. Morphogenesis of Modern Marine Stromatolites: Process Oriented Studies of Microbe-Sediment Interactions. PhD Dissertation, University of Miami.
Myshrall, K.L. 2012. An Evaluation of Microbial Communities, Metabolisms, and Community Interactions in Modern Thrombolites. PhD Disseration, University of Connecticut.
Hamelin Stromatolite Contribution Series
Reid, R.P., James, N.P., Macintyre, I.G., Dupraz, C.P., Burne, R.V. 2003. Shark Bay stromatolites: microfabrics and reinterpretation of origins. Facies v. 49, p. 45-53.
Suosaari, E.P., Reid, R.P., Playford, P.E., Foster, J.S., Stolz, J.F., Casaburi, G., Hagan, P.D., Chirayath, V., Macintrye, I.G., Planavsky, N.J. and Eberli, G.P. 2016. New multi-scale perspectives on the stromatolites of Shark Bay, Western Australia. Nature: Scientific Reports,v.6, 20557; doi: 10.1038/srep20557
Suosaari, E.P., Reid, R.P., Abreu Araujo, T.A., Playford, P.E., Holley, D.K., McNamara, J.K., and Eberli, G.P. 2016. Environmental pressures influencing living stromatolites in Hamelin Pool, Shark Bay, Western Australia. PALAIOS v 31, p. 483-496.