Planctomycetes diversity associated with macroalgae

FEMS Microbiology Ecology

Volumn 78, Issue 2, 2011, Pages 366-375

  Lage, Olga Maria ^a,b   Bondoso, Joana ^a,b  

^a UNIVERSITY OF PORTO   (Portugal)

^b UNIVERSITY OF PORTO   (Portugal)

Author keywords

16S rRNA gene; Biofilms; Isolation method; Planctomycetes macroalgae association

Indexed keywords

BACTERIUM; BIOFILM; CATALYSIS; COASTAL ZONE; COMMUNITY STRUCTURE; EPIPHYTE; INTERSPECIFIC INTERACTION; MACROALGA; RNA; SPECIES DIVERSITY; TAXONOMY;

ARTICLE; BACTERIUM; BIODIVERSITY; CLASSIFICATION; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PORTUGAL; SEAWEED; SYMBIOSIS;

BACTERIA; BASE SEQUENCE; BIODIVERSITY; MOLECULAR SEQUENCE DATA; PHYLOGENY; PORTUGAL; SEAWEED; SYMBIOSIS;

PORTUGAL;

BLASTOPIRELLULA; OTUS; PLANCTOMYCES; PLANCTOMYCETES; RHODOPIRELLULA; RHODOPIRELLULA BALTICA;

EID: 84860418423     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2011.01168.x     Document Type: Article

References (73)

1. Armstrong E, Rogerson A & Leftley JW (2000) The abundance of heterotrophic protists associated with intertidal seaweeds. Estuar Coast Shelf S50: 415-424.
2. Bartsch I, Wiencke C, Bischof Ket al. (2008) The genus Laminariasensu lato: recent insights and developments. Eur J Phycol 43: 1-86.
3. Bengtsson MM & Ovreas L (2010) Planctomycetes dominate biofilms on surfaces of the kelp Laminaria hyperborea. BMC Microbiol10: 261.
4. Bengtsson MM, Sjøtun K & Øvreås L (2010) Seasonal dynamics of bacterial biofilms on the kelp Laminaria hyperborea. Aquat Microb Ecol60: 71-83.
5. Bondoso J, Albuquerque L, Nobre MF, Lobo-da-Cunha A, da Costa MS & Lage OM (2011) Aquisphaera giovannonii gen. nov., sp. nov. a novel planctomycete isolated from a freshwater aquarium. Int J Syst Evol Micr DOI: DOI: 10.1099/ijs.0.027474-0
6. Borneman J & Triplett EW (1997) Molecular microbial diversity in soils from eastern Amazonia: evidence for unusual microorganisms and microbial population shifts associated with deforestation. Appl Environ Microb 63: 2647-2653.
7. Buckley DH, Huangyutitham V, Nelson TA, Rumberger A & Thies JE (2006) Diversity of Planctomycetes in soil in relation to soil history and environmental heterogeneity. Appl Environ Microb72: 4522-4531.
8. Chipman L, Podgorski D, Green S, Kostka J, Cooper W & Huettel M (2010) Decomposition of plankton-derived dissolved organic matter in permeable coastal sediments. Limnol Oceanogr55: 857-871.
9. Chouari R, Le Paslier D, Daegelen P, Ginestet P, Weissenbach J & Sghir A (2003) Molecular evidence for novel planctomycete diversity in a municipal wastewater treatment plant. Appl Environ Microb69: 7354-7363.
10. Cohen-Bazire G, Sistrom WR & Stanier RY (1957) Kinetic studies of pigment synthesis by non-sulphur purple bacteria. J Cell Compar Physl49: 25-68.
11. Daims H, Brühl A, Amann R, Schleifer KH & Wagner M (1999) The domain-specific probe EUB338 is insufficient for the detection of all Bacteria: development and evaluation of a more comprehensive probe set. Syst Appl Microbiol 22: 434-444.
12. DeLong EF, Franks DG & Alldredge L (1993) Phylogenetic diversity of aggregate-attached vs. free-living marine bacterial assemblages. Limnol Oceanogr38: 924-934.
13. Derakshani M, Lukow T & Liesack W (2001) Novel bacterial lineages at the (sub)division level as detected by signature nucleotide-targeted recovery of 16S rRNA genes from bulk soil and rice roots of flooded rice microcosms. Appl Environ Microb67: 623-631.
14. Dimitrieva GY, Crawford RL & Yuksel GU (2006) The nature of plant growth-promoting effects of a pseudoalteromonad associated with the marine algae Laminaria japonica and linked to catalase excretion. J Appl Microbiol100: 1159-1169.
15. Elshahed MS, Youssef NH, Luo Qet al. (2007) Phylogenetic and metabolic diversity of Planctomycetes from anaerobic, sulfide- and sulfur-rich Zodletone Spring, Oklahoma. Appl Environ Microb73: 4707-4716.
16. Fuerst JA (1995) The Planctomycetes: emerging models for microbial ecology, evolution and cell biology. Microbiology 141: 1493-1506.
17. Fuerst JA, Gwilliam HG, Lindsay M, Lichanska A, Belcher C, Vickers JE & Hugenholtz P (1997) Isolation and molecular identification of planctomycete bacteria from postlarvae of the giant tiger prawn, Penaeus monodon. Appl Environ Microb63: 254-262.
18. Fukunaga Y, Kurahashi M, Sakiyama Y, Ohuchi M, Yokota A & Harayama S (2009) Phycisphaera mikurensis gen. nov., sp. nov., isolated from a marine alga, and proposal of Phycisphaeraceae fam. nov., Phycisphaerales ord. nov. and Phycisphaerae classis nov. in the phylum Planctomycetes. J Gen Appl Microbiol55: 267-275.
19. Gade D, Schlesner H, Glockner FO, Amann R, Pfeiffer S & Thomm A (2004) Identification of Planctomycetes with order-, genus-, and strain-specific 16S rRNA-targeted probes. Microb Ecol47: 243-251.
20. Glöckner FO, Kube M, Bauer Met al. (2003) Complete genome sequence of the marine planctomycete Pirellula sp. strain 1. P Natl Acad Sci USA100: 8298-8303.
21. Hellio C, De La Broise D, Dufosse L, Le Gal Y & Bourgougnon N (2001) Inhibition of marine bacteria by extracts of macroalgae: potential use for environmentally friendly antifouling paints. Mar Environ Res 52: 231-247.
22. Hempel M, Blume M, Blindow I & Gross EM (2008) Epiphytic bacterial community composition on two common submerged macrophytes in brackish water and freshwater. BMC Microbiol8: 58.
23. Holmstrom C, James S, Egan S & Kjelleberg S (1996) Inhibition of common fouling organisms by marine bacterial isolates with special reference to the role of pigmented bacteria. Biofouling10: 251-259.
24. Hu YF, Fu CZ, Yin YSet al. (2010) Construction and preliminary analysis of a Deep-Sea Sediment Metagenomic Fosmid Library from Qiongdongnan Basin, South China Sea. Mar Biotechnol12: 719-727.
25. Hwang CY, Zhang GI, Kang SH, Kim HJ & Cho BC (2009) Pseudomonas pelagia sp. nov., isolated from a culture of the Antarctic green alga Pyramimonas gelidicola. Int J Syst Evol Micr59: 3019-3024.
26. Ivanova EP, Alexeeva YV, Flavier Set al. (2004) Formosa algae gen. nov., sp. nov., a novel member of the family Flavobacteriaceae. Int J Syst Evol Micr54: 705-711.
27. Jensen PR, Kauffman CA & Fenical W (1996) High recovery of culturable bacteria from the surfaces of marine algae. Mar Biol126: 1-7.
28. Krieg NR, Staley JT, Brown DRet al. (2010) The Bacteroidetes, Spirochaetes, Tenericutes (Mollicutes), Acidobacteria, Fibrobacteres, Fusobacteria, Dictyoglomi, Gemmatimonadetes, Lentisphaerae, Verrucomicrobia, Chlamydiae, and Planctomycetes. Springer, New York.
29. Kulichevskaya IS, Pankratov TA & Dedysh SN (2006) Detection of representatives of the Planctomycetes in Sphagnum peat bogs by molecular and cultivation methods. Microbiology75: 329-335.
30. Kulichevskaya IS, Baulina OI, Bodelier PLE, Rijpstra WIC, Damsté JSS & Dedysh SN (2009) Zavarzinella formosa gen. nov., sp. nov., a novel stalked, Gemmata-like planctomycete from a Siberian peat bog. Int J Syst Evol Micr59: 357-364.
31. Kuske CR, Barns SM & Busch JD (1997) Diverse uncultivated bacterial groups from soils of the arid Southwestern United States that are present in many geographic regions. Appl Environ Microb63: 3614-3621.
32. Lachnit T, Meske D, Wahl M, Harder T & Schmitz R (2011) Epibacterial community patterns on marine macroalgae are host-specific but temporally variable. Environ Microbiol13: 655-665.
33. Lane DJ (1991) 16S/23S rRNA sequencing. Nucleic Acid Techniques in Bacterial Systematics (Stackebrandt E & Goodfellow M, eds), pp. 115-175. John Wiley and Sons, New York.
34. Lee HS, Kwon KK, Yang SH, Bae SS, Park CH, Kim SJ & Lee JH (2008) Description of Croceitalea gen. nov. in the family Flavobacteriaceae with two species, Croceitalea eckloniae sp. nov. and Croceitalea dokdonensis sp. nov., isolated from the rhizosphere of the marine alga Ecklonia kurome. Int J Syst Evol Micr58: 2505-2510.
35. Lonhienne TG, Sagulenko E, Webb RIet al. (2010) Endocytosis-like protein uptake in the bacterium Gemmata obscuriglobus. P Natl Acad Sci USA107: 12883-12888.
36. Manes CLD, West N, Rapenne S & Lebaron P (2011) Dynamic bacterial communities on reverse-osmosis membranes in a full-scale desalination plant. Biofouling27: 47-58.
37. Marshall K, Joint I, Callow ME & Callow JA (2006) Effect of marine bacterial isolates on the growth and morphology of axenic plantlets of the green alga Ulva linza. Microb Ecol52: 302-310.
38. Matsuo Y, Imagawa H, Nishizawa M & Shizuri Y (2005) Isolation of an algal morphogenesis inducer from a marine bacterium. Science307: 1598.
39. Maximilien R, de Nys R, Holmstrom Cet al. (1998) Chemical mediation of bacterial surface colonisation by secondary metabolites from the red alga Delisea pulchra. Aquat Microb Ecol15: 233-246.
40. Michel G, Nyval-Collen P, Barbeyron T, Czjzek M & Helbert W (2006) Bioconversion of red seaweed galactans: a focus on bacterial agarases and carrageenases. Appl Microbiol Biot 71: 23-33.
41. Miyashita M, Fujimura S, Nakagawa Y, Nishizawa M, Tomizuka N, Nakagawa T & Nakagawa J (2010) Flavobacterium algicola sp. nov., isolated from marine algae. Int J Syst Evol Micr60: 344-348.
42. Morris RM, Longnecker K & Giovannoni SJ (2006) Pirellula and OM43 are among the dominant lineages identified in an Oregon coast diatom bloom. Environ Microbiol8: 1361-1370.
43. Musat N, Werner U, Knittel Ket al. (2006) Microbial community structure of sandy intertidal sediments in the North Sea, Sylt-Rømø Basin, Wadden Sea. Syst Appl Microbiol29: 333-348.
44. Nedashkovskaya OI, Suzuki M, Lee JS, Lee KC, Shevchenko LS & Mikhailov VV (2009) Pseudozobellia thermophila gen. nov., sp. nov., a bacterium of the family Flavobacteriaceae, isolated from the green alga Ulva fenestrata. Int J Syst Evol Micr59: 806-810.
45. Neef A, Amann R, Schlesner H & Schleifer K-H (1998) Monitoring a widespread bacterial group: in situ detection of planctomycetes with 16S rRNA-targeted probes. Microbiology 144: 3257-3266.
46. Nocker A, Lepo JE & Snyder RA (2004) Influence of an oyster reef on development of the microbial heterotrophic community of an estuarine biofilm. Appl Environ Microb70: 6834-6845.
47. Pernthaler AJ, Pernthaler J & Amann R (2002) Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Appl Environ Microb68: 3094-3101.
48. Pimentel-Elardo S, Wehrl M, Friedrich AB, Jensen PR & Hentschel U (2003) Isolation of planctomycetes from Aplysina sponges. Aquat. Microb. Ecol33: 239-245.
49. Rabus R, Gade D, Helbig Ret al. (2002) Analysis of N-acetylglucosamine metabolism in the marine bacterium Pirellula sp. strain 1 by a proteomic approach. Proteomics2: 649-655.
50. Rusch A, Huettel M, Reimers CE, Taghon GL & Fuller CM (2003) Activity and distribution of bacterial populations in Middle Atlantic Bight shelf sands. FEMS Microbiol Ecol44: 89-100.
51. Rusch DB, Halpern AL, Sutton Get al. (2007) The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol 5: e77.
52. Santarella-Mellwig R, Franke J, Jaedicke Aet al. (2010) The compartmentalized bacteria of the Planctomycetes-Verrucomicrobia-Chlamydiae superphylum have membrane coat-like proteins. PLoS Biol8: e1000281.
53. Schlesner H (1986) Pirella marina sp. nov., a budding, peptidoglycan-less bacterium from brackish water. Syst Appl Microbiol8: 177-180.
54. Schlesner H (1989) Planctomyces brasiliensis sp. nov., a halotolerant bacterium from a salt pit. Syst Appl Microbiol12: 159-161.
55. Schlesner H (1994) The development of media suitable for the microorganisms morphologically resembling Planctomyces spp., Pirellula spp., and other Planctomycetales from various aquatic habitats using dilute media. Syst Appl Microbiol17: 135-145.
56. Schlesner H, Rensmann C, Tindall BJ, Gade D, Rabus R, Pfeiffer S & Hirsch P (2004) Taxonomic heterogeneity within the Planctomycetales as derived by DNA-DNA hybridization, description of Rhodopirellula baltica gen. nov., sp. nov., transfer of Pirellula marina to the genus Blastopirellula gen. nov. as Blastopirellula marina comb. nov. and emended description of the genus Pirellula. Int. J. Syst. Evol. Microbiol54: 1567-1580.
57. Stackebrandt E & Ebers J (2006) Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 33: 152-155.
58. Staley JT (1973) Budding bacteria of the Pasteuria-Blastobacter group. Can J Microbiol19: 609-614.
59. Staufenberger T, Thiel V, Wiese J & Imhoff JF (2008) Phylogenetic analysis of bacteria associated with Laminaria saccharina. FEMS Microbiol Ecol64: 65-77.
60. Tamura K, Dudley J, Nei M & Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599.
61. Thompson JD, Higgins DG & Gibson TJ (1994) Clustal-W - improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res22: 4673-4680.
62. Tujula NA, Crocetti GR, Burke C, Thomas T, Holmstrom C & Kjelleberg S (2010) Variability and abundance of the epiphytic bacterial community associated with a green marine Ulvacean alga. ISME J4: 301-311.
63. Wagner M & Horn M (2006) The Planctomycetes, Verrucomicrobia, Chlamydiae and sister phyla comprise a superphylum with biotechnological and medical relevance. Curr Opin Biotech17: 241-249.
64. Wallner G, Amann R & Beisker W (1993) Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms. Cytometry14: 136-143.
65. Wang J, Jenkins C, Webb RI & Fuerst JA (2002) Isolation of Gemmata-like and Isosphaera-like planctomycete bacteria from soil and freshwater. Appl Environ Microb68: 417-422.
66. Wang R, Xiao H, Zhang P, Qu L, Cai H & Tang X (2007) Allelopathic effects of Ulva pertusa, Corallina pilulifera and Sargassum thunbergii on the growth of the dinoflagellates Heterosigma akashiwo and Alexandrium tamarense. J Appl Phycol19: 109-121.
67. Ward N, Staley JT, Fuerst JA, Giovannoni S, Schlesner H & Stackebrandt E (2006) The order Planctomycetales, including the genera Planctomyces, Pirellula, Gemmata and Isosphaera and the Candidatus genera Brocadia, Kuenenia and Scalindua. The Prokaryotes: A Handbook on the Biology of Bacteria, Vol. 7 (Dworkin M, Falkow S, Rosenberg E, Schleifer KH & Stackebrandt E, eds), pp. 757-793. Springer, New York.
68. Webster NS & Bourne D (2007) Bacterial community structure associated with the Antarctic soft coral, Alcyonium antarcticum. FEMS Microbiol Ecol59: 81-94.
69. (T) to changing environmental conditions. BMC Genomics10: 410.
70. Wiese J, Thiel V, Nagel K, Staufenberger T & Imhoff JF (2009) Diversity of antibiotic-active bacteria associated with the brown alga Laminaria saccharina from the Baltic Sea. Mar Biotechnol11: 287-300.
71. Winkelmann N & Harder J (2009) An improved isolation method for attached-living Planctomycetes of the genus Rhodopirellula. J Microbiol Meth77: 276-284.
72. Zengler K, Toledo G, Rappe M, Elkins J, Mathur EJ, Short JM & Keller M (2002) Cultivating the uncultured. P Natl Acad Sci USA99: 15681-15686.
73. Zobell CE (1941) Studies on marine bacteria. I. The cultural requirements of heterotrophic aerobes. J Mar Res4: 42-75.