Viral Distribution and Life Strategies in the Bach Dang Estuary, Vietnam

Microbial Ecology

Volumn 62, Issue 1, 2011, Pages 143-154

  Bettarel, Yvan ^a   Bouvier, Thierry ^a   Agis, Martin ^a   Bouvier, Corinne ^a   van Chu, Thuoc ^b   Combe, Marine ^a   Mari, Xavier ^a   Nghiem, Minh Ngoc ^c   Nguyen, Thuy Thanh ^d   Pham, Thu The ^b   Pringault, Olivier ^a   Rochelle Newall, Emma ^e   Torréton, Jean Pascal ^a   Tran, Huy Quang ^d  

^a UNIVERSITÉ MONTPELLIER 2   (France)

^b Institute of Marine Environment and Resources (IMER)   (Viet Nam)

^c INSTITUTE OF BIOTECHNOLOGY   (Viet Nam)

^d NATIONAL INSTITUTE OF HYGIENE AND EPIDEMIOLOGY   (Viet Nam)

^e INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

Author keywords

[No Author keywords available]

Indexed keywords

FRESH WATER; SEA WATER; SODIUM CHLORIDE;

ARTICLE; CLASSIFICATION; GENETICS; ISOLATION AND PURIFICATION; MOLECULAR GENETICS; PHYLOGENY; VIET NAM; VIRAL PHENOMENA AND FUNCTIONS; VIROLOGY; VIRUS; VIRUS LATENCY;

FRESH WATER; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEAWATER; SODIUM CHLORIDE; VIETNAM; VIRUS LATENCY; VIRUS PHYSIOLOGICAL PROCESSES; VIRUSES;

BETAPROTEOBACTERIA; GAMMAPROTEOBACTERIA; MIRIDAE; MYOVIRIDAE; PROKARYOTA;

EID: 79960585266     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-011-9835-6     Document Type: Article

References (63)

1. Allan EL, Froneman PW (2008) Spatial and temporal patterns in bacterial abundance, production and viral infection in a temporarily open/closed southern African estuary. Estuar Coast Shelf Sci 77: 731-742.
2. Almeida MA, Cunha MA, Dias JM (2007) Bacterial productivity distribution during a rainy year in an estuarine system. Microb Ecol 53: 208-220.
3. Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, Carlson C, Chan AM, Haynes M, Kelley S, Liu H, Mahaffy JM, Mueller JE, Nulton J, Olson R, Parsons R, Rayhawk S, Suttle CA, Rohwer F (2006) The marine viromes of four oceanic regions. PLoS Biol 4: 2121-2131.
4. Auguet JC, Montanié H, Delmas D, Hartmann HJ, Huet V (2005) Dynamic of virioplankton abundance and its environmental control in the Charente estuary (France). Microb Ecol 50: 337-349.
5. Auguet JC, Montanie H, Lebaron P (2006) Structure of virioplankton in the Charente estuary (France): transmission electron microscopy versus pulsed field gel electrophoresis. Microb Ecol 51: 197-208.
6. Bench SR, Hanson TE, Williamson KE, Ghosh D, Radosovich M, Wang K, Wommack KE (2007) Metagenomic characterization of Chesapeake Bay virioplankton. Appl Environ Microb 73: 7629-7641.
7. Bettarel Y, Bouvy M, Dumont C, Sime-Ngando T (2006) Virus-bacterium interactions in water and sediment of West African inland aquatic systems. Appl Environ Microbiol 72: 5274-5282.
8. Bettarel Y, Arfi R, Bouvier T, Bouvy M, Briand E, Colombet J, Corbin D, Sime-Ngando T (2008) Virioplankton distribution and activity in a tropical eutrophicated Bay. Estuar Coast Shelf Sci 3: 425-429.
9. Bettarel Y, Desnues A, Rochelle-Newall E (2010) Lytic failure in cross-inoculation assays between phages and prokaryotes from three aquatic sites of contrasting salinity. FEMS Microbiol Lett 311: 113-118.
10. Bettarel Y, Bouvier T, Bouvier C, Carré C, Desnues A, Domaizon I, Jacquet S, Robin A, Sime-Ngando T (2011) Ecological traits of planktonic viruses and prokaryotes along a full salinity gradient. FEMS Microbiol Ecol. doi: 10. 1111/j. 1574-6941. 2011. 01054. x.
11. Bouvier T, del Giorgio PA (2002) Compositional changes in free-living bacterial communities along the salinity gradient in two temperate estuaries. Limnol Oceanogr 47: 453-470.
12. Breitbart M, Felts B, Kelley S, Mahaffy JM, Nulton J, Salamon P, Rohwer F (2004) Diversity and population structure of a near-shore marine-sediment viral community. Proc R Soc London Ser B Biol Sci 271: 565-574.
13. Buchen-Osmond C (2003) Taxonomy and classification of viruses. In: Manual of Clinical Microbiology, 8th ed, Vol 2. ASM Press, Washington DC, pp 1217-1226.
14. Bühring SI, Elvert M, Witte U (2005) The microbial community structure of different permeable sandy sediments characterized by the investigation of bacterial fatty acids and fluorescence in situ hybridization. Env Microbiol 7: 281-293.
15. Cissoko M, Desnues A, Bouvy M, Sime-Ngando T, Verling E, Bettarel Y (2008) Effects of freshwater and seawater mixing on virio-and bacterioplankton in a tropical estuary. Freshwat Biol 53: 1154-1162.
16. Cochlan WP, Wikner J, Steward GF, Smith DC, Azam F (1993) Distribution of viruses, bacteria and chlorophyll a in neritic, oceanic and estuarine environments. Mar Ecol Prog Ser 92: 77-87.
17. Cottrell MT, Kirchman DL (2000) Natural assemblages of marine proteobacteria and members of the Cytophaga-Flavobacter cluster consuming low-and high-molecular-weight dissolved organic matter. Appl Env Microbiol 66: 1692-1697.
18. Eaton AD, Clesceri LS, Rice EW, Greenburg AE, Franson MAH (1995) Standard methods for the examination of water and wastewater (19th Edition), Baltimore, Maryland: American Public Health Association. 1325 p.
19. Filippini M, Buesing N, Gessner MO (2008) Temporal dynamics of freshwater bacterio-and virioplankton along a littoral-pelagic gradient. Freshwat Biol 53: 1114-1125.
20. Gupta RS (2000) The phylogeny of proteobacteria: relationships to other eubacterial phyla and eukaryotes. FEMS Microbiol Rev 24: 367-402.
21. Gupta RS (2005) Protein signatures distinctive of alpha proteobacteria and its subgroups and a model for alpha-proteobacterial evolution. Critic Rev Microbiol 31: 101-135.
22. Helton RR, Wommack KE (2009) Seasonal dynamics and metagenomic characterization of estuarine viriobenthos assemblages by randomly amplified polymorphic DNA PCR. Appl Environ Microbiol 75: 2259-2265.
23. Hewson I, O'Neil JM, Fuhrman JA, Dennison WC (2001) Virus-like particle distribution and abundance in sediments and overlying water along eutrophication gradients in two subtropical estuaries. Limnol Oceanogr 47: 1734-1746.
24. Holm-Hansen O, Lorenzen CJ, Holmes RW, Strickland JDH (1965) Fluorometric determination of chlorophyll. J Cons Int Explor Mer 30: 3-15.
25. Jiang SC, Paul JH (1994) Seasonal and diel abundance of viruses and occurrence of lysogeny/bacteriocinogeny in the marine environment. Mar Ecol Prog Ser 104: 163-172.
26. Kukkaro P, Bamford DH (2009) Virus-host interactions in environments with a wide range of ionic strengths. Environ Microbiol Reports 1: 71-77.
27. Laws EA, Archie JW (1981) Appropriate use of regression analysis in marine biology. Mar Biol 65: 13-16.
28. Legendre L, Legendre P (1983) Numerical ecology, developments in environmental modeling, 3. Elsevier, New York, p 419.
29. Long A, McDaniel LD, Mobberley J, Paul JH (2008) Comparison of lysogeny (prophage induction) in heterotrophic bacterial and Synechococcus populations in the Gulf of Mexico and Mississippi River plume. ISME J 2: 132-144.
30. Lozupone CA, Knight R (2007) Global patterns in bacterial diversity. Proc Natl Acad Sci USA 104: 11436-11440.
31. Maurice CF, Bouvier T, Comte J, Guillemette F, del Giorgio PA (2010) Seasonal variations of phage life strategies and bacterial physiological states in three northern temperate lakes. Environ Microbiol 12: 628-641.
32. Maurice CF, Mouillot D, Bettarel Y, Sarmento H, De Wits R, Bouvier T (2011) Disentangling the relative influence of bacterioplankton phylogeny and metabolism on lysogeny in reservoirs and lagoons. The ISME J. doi: 10. 1038/ismej. 2010. 181.
33. Montanié H, Hartmann HJ, Crottereau C, Trichet C (2002) Virus-like particle analysis in a seston-rich coastal pond using transmission electron microscopy. Aquat Microb Ecol 28: 105-115.
34. Painchaud J, Lefaivre D, Therriault JC, Legendre L (1995) Physical processes controlling bacterial distribution and variability in the upper St. Lawrence estuary. Estuaries 18: 433-444.
35. Parada V, Herndl GJ, Weinbauer MG (2006) Viral burst size of heterotrophic prokaryotes in aquatic systems. J Mar Biol Ass UK 86: 613-621.
36. Patel A, Noble RT, Steele JA, Schwalbach MS, Hewson I, Fuhrman JA (2007) Virus and prokaryote enumeration from planktonic aquatic environments by epifluorescence microscopy with SYBR Green I. Nat Protoc 2: 269-276.
37. Pernthaler A, Pernthaler J, Amann RI (2004) Sensitive multi-color fluorescence in situ hybridization for the identification of environmental microorganisms. In: Kowalchuk G et al. (eds.) Molecular microbial ecology manual, 2nd edn. Kluwer Academic publishers, the Netherlands, 3: 711-726.
38. Pradeep Ram AS, Sime-Ngando T (2010) Resources drive trade-off between viral lifestyles in the plankton: evidence from freshwater microbial microcosms. Environ Microbiol 12: 467-479.
39. Pradeep Ram AS, Arnous B, Danger M, Carrias J-F, Lacroix G, Sime-Ngando T (2010) High and differential viral infection rates within bacterial 'morphopopulations' in a shallowsand pit lake (Lac de Creteil, France). FEMS Microbiol Ecol. doi: 10. 1111/j. 1574-941. 2010. 00920. x.
40. Riley GA (1939) Correlations in aquatic ecology with an example of their application to problems of plankton productivity. J Mar Res 2: 56-73.
41. Rochelle-Newall EJ, Fisher TR (2002) Chromophoric dissolved organic matter and dissolved organic carbon in Chesapeake Bay. Mar Chem 77: 23-41.
42. Rochelle-Newall EJ, Chu VT, Pringault O, Amouroux D, Arfi R, Bettarel Y, Bouvier T, Bouvier C, Got NTMH, Mari X, Navarro P, Duong TN, Cao TTT, Pham TT, Ouillon S, Torréton JP (2011) Phytoplankton diversity and productivity in a highly turbid, tropical coastal system (Bach Dang Estuary, Vietnam). Biogeosciences Discuss 8: 487-525. doi: 10. 5194/bgd-8-487-2011.
43. Sandaa RA, Skjoldal EF, Bratbak G (2003) Virioplankton community along a salinity gradient in a solar saltern. Extremophiles 7: 347-351.
44. Shiah FK, Ducklow HW (1994) Temperature and substrate regulation of bacterial abundance, production and specific growth rate in Chesapeake Bay, USA. Mar Ecol Prog Ser 103: 297-308.
45. imm434 lysogens. J Bacteriol 189: 3115-3123.
46. Sokal RR, Rohlf FJ (1995) Biometry: the principles and practice of statistics in biological research, 3rd edn. Freeman W. H. and Co., New York, pp 715-724.
47. Stopar D, Ceme A, Zigman M, Poljsak-Prijatelj M, Turk V (2003) Viral abundance and a high proportion of lysogens suggest that viruses are important members of the microbial community in the Gulf of Trieste. Microb Ecol 46: 249-256.
48. Straza TR, Cottrell MT, Ducklow MW, Kirchman DL (2009) Geographic and phylogenetic variation in bacterial biovolume as revealed by protein and nucleic acid staining. Appl Environ Microbiol 75: 4028-4034.
49. Suttle CA (2005) Viruses in the sea. Nature 437: 356-361.
50. Troussellier M, Schafer H, Batailler N, Bernard L, Courties C, Lebaron P, Muyzer G, Servais P, Vives-Rego J (2002) Bacterial activity and genetic richness along an estuarine gradient (Rhone River plume, France). Aquat Microb Ecol 28: 13-24.
51. Weinbauer MG, Peduzzi P (1994) Frequency, size and distribution of bacteriophages in different marine bacterial morphotypes. Mar Ecol Prog Ser 108: 11-20.
52. Weinbauer MG, Brettar I, Höfle MG (2003) Lysogeny and virus-induced mortality of bacterioplankton in surface, deep, and anoxic marine waters. Limnol Oceanogr 48: 169-177.
53. Weinbauer MG (2004) Ecology of prokaryotic viruses. FEMS Microbiol Rev 28: 127-181.
54. Weinbauer MG, Bettarel Y, Cattaneo R, Luef B, Maier C, Motegi C, Peduzzi P, Mari X (2009) Viral ecology of organic and inorganic particles in aquatic systems: avenues for further research. Aquat Microb Ecol 57: 321-341.
55. Wells LE, Deming JW (2006) Effects of temperature, salinity and clay particles on inactivation and decay of cold-active marine bacteriophage 9A. Aquat Microb Ecol 45: 31-39.
56. Wilhelm SW, Briden S, Suttle CA (2002) A dilution technique for the direct measurement of viral production: comparison in stratified and tidally mixed coastal waters. Microb Ecol 43: 168-173.
57. Williamson SJ, McLaughlin MR, Paul JH (2001) Interaction of the F{cyrillic}HSIC virus with its host: lysogeny or pseudolysogeny? Appl Environ Microbiol 67: 1682-1688.
58. Williamson SJ, Houchin LA, McDaniel L, Paul JH (2002) Seasonal variation in lysogeny as depicted by prophage induction in Tampa Bay, Florida. Appl Environ Microbiol 68: 4307-4314.
59. Willner D, Thurber RV, Rohwer F (2009) Metagenomic signatures of 86 microbial and viral metagenomes. Environ Microbiol 11: 1752-1766.
60. Wommack KE, Ravel J, Hill RT, Chun J, Colwell RR (1999) Population dynamics of Chesapeake Bay virioplankton: total-community analysis by pulsed-field gel electrophoresis. Appl Environ Microbiol 65: 231-240.
61. Wommack KE, Colwell RR (2000) Virioplankton: viruses in aquatic ecosystems. Microbiol Mol Biol Rev 64: 69-114.
62. Wösten JHM, de Willigen Tri NH, Lien TV, Smith SV (2003) Nutrient dynamics in mangrove areas of the Red River Estuary in Vietnam. Estuar Coast Shelf Sci 57: 65-72.
63. Yokokawa T, Nagata T, Cottrell MT, Kirchman DL (2004) Growth rate of the major phylogenetic bacterial groups in the Delaware estuary. Limnol Oceanogr 49: 1620-1629.