Lake Pavin History, geology, biogeochemistry, and sedimentology of a deep meromictic maar lake

(Chris Devlin) #1
243

(Project VIRULAC) and ANR Programme Biodiversité (Project
AQUAPHAGE). We thank M. G. Weinbauer for critical and proofread-
ing of the manuscript.


References


Ackermann HW (2007) 5500 phages examined in the electron micro-
scope. Arch Virol 152:227–243
Bergh Ø, Børsheim KY, Bratbak G, Heldal M (1989) High abundance
of viruses found in aquatic environments. Nature 340:467–468
Bettarel Y, Sime-Ngando T, Amblard C, Laveran H (2000) A compari-
son of methods for counting viruses in aquatic systems. App
Environ Microbiol 66:2283–2289
Bettarel Y, Sime-Ngando T, Amblard C, Carrias J-F, Sargos D,
Lavandier P, Garabetian F (2002) The functional importance of bac-
teriophages in the microbial loop of an oligomesotrophic lake over
a diel cycle. Ann Limnol 38:263–269
Bettarel Y, Amblard C, Sime-Ngando T, Carrias JF, Sargos D,
Garabetian F, Laveran H (2003a) Viral lysis, fl agellate grazing
potential and bacterial production in Lake Pavin : a short-term
study. Microb Ecol 45:119–127
Bettarel Y, Sime-Ngando T, Amblard C, Carrias JF, Portelli C (2003b)
Virioplankton and microbial communities in aquatic systems: a sea-
sonal study in two lakes of differing trophy. Freshw Biol 48:810–822
Bettarel Y, Sime-Ngando T, Amblard C, Dolan J (2004) Viral activity in
two contrasting lake ecosystems. Appl Environ Microbiol
70:2941–2951
Bettarel Y, Sime-Ngando T, Bouvy M, Arfi R, Amblard C (2005) Low
consumption of virus-sized particles by heterotrophic nanofl agel-
lates in two lakes of the French Massif Central. Aquat Microb Ecol
39:205–209
Binder B (1999) Reconsidering the relationship between viral induced
bacterial mortality and frequency of infected cells. Aquat Microb
Ecol 18:207–215
Borrel G, Colombet J, Robin A, Lehours A-C, Prangishvili D, Sime-
Ngando T (2012) Unexpected and novel putative viruses in the sedi-
ments of a deep-dark permanently anoxic freshwater habitat. ISME
J 6:2119–2127
Børsheim KY, Bratbak G, Heldal M (1990) Enumeration and biomass
estimation of planktonic bacteria and viruses by transmission elec-
tron microscopy. Appl Environ Microbiol 56:352–356
Bratbak G, Heldal M (1993) Total count of viruses in aquatic environ-
ments. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Current
methods in aquatic microbial ecology. Lewis Publishers, London,
pp 135–138
Brum JR, Schenck RO, Sullivan MB (2013) Global morphological
analysis of marine viruses shows minimal regional variation and
dominance of non-tailed viruses. ISME J 7:1738–1751
Brussaard CPD (2004) Optimization of procedures for counting viruses
by fl ow cytometry. Appl Environ Microbiol 70:1506–1513
Clerissi C, Desdevises Y, Grimsley N (2012) Prasinoviruses of the
marine green alga Ostreococcus tauri are mainly species-specifi c.
J Virol 86:4611–4619
Colombet J, Sime-Ngando T (2012a) Seasonal depth-related gradients
in virioplankton: lytic activity and comparison with protistan graz-
ing potential in Lake Pavin (France). Microb Ecol 64:67–78
Colombet J, Sime-Ngando T (2012b) Use of PEG, polyethylene glycol,
to characterize the diversity of environmental viruses. In: Méndez-
Vilas A (ed) Current microscopy contributions to advances in sci-
ence and technology, vol 1. Formatex Research Center, Badajoz,
pp 316–322
Colombet J, Sime-Ngando T, Cauchie HM, Fonty G, Hoffmann L,
Demeure G (2006) Depth-related gradients of viral activity in Lake
Pavin. Appl Environ Microbiol 72:4440–4445


Colombet J, Robin A, Lavie L, Bettarel Y, Cauchie HM, Sime-Ngando
T (2007) Virioplankton ‘pegylation’: use of PEG (polyethylene gly-
col) to concentrate and purify viruses in pelagic ecosystems.
J Microbiol Methods 71:212–219
Colombet J, Charpin M, Robin A, Portelli C, Amblard C, Cauchie HM,
Sime-Ngando T (2009) Seasonal depth-related gradients in virio-
plankton: standing stock and relationships with microbial commu-
nities in Lake Pavin (France). Microb Ecol 58:728–736
Duhamel S, Jacquet S (2006) Flow cytometric analysis of bacteria and
virus-like particles in lakes. J Microbiol Methods 64:316–322
Edwards RA, Rohwer F (2005) Viral metagenomics. Nat Rev Microbiol
3:504–510
Fischer UR, Velimirov B (2002) High control of bacterial production by
viruses in a eutrophic oxbow lake. Aquat Microb Ecol 27:1–12
Fuhrman JA (1999) Marine viruses and their biogeochemical and eco-
logical effects. Nature 399:541–548
Fuhrman JA, Noble RT (1995) Viruses and protists cause similar mor-
tality in coastal seawater. Limnol Oceanogr 40:1236–1242
González JM, Suttle CA (1993) Grazing by marine nanofl agellates on
viruses and virus-sized particles: ingestion and digestion. Mar Ecol
Prog Ser 94:1–10
Harris JM, Chess RB (2003) Effect of pegylation on pharmaceuticals.
Nat Rev Drug Discov 2:214–221
Hennes KP, Simon M (1995) Signifi cance of bacteriophages for con-
trolling bacterioplankton growth in a mesotrophic lake. Appl
Environ Microbiol 61:333–340
Hennes KP, Suttle CA (1995) Direct counts of viruses in natural waters
and laboratory cultures by epifl uorescence microscopy. Limnol
Oceanogr 40:1050–1055
Hewson I, Ng G, Li WF, LaBarre BA, Aguirre I, Barbosa JG, Breitbart
M, Greco AW, Kearns CM, Looi A, Schaffner LR, Thompson PD,
Hairston NG Jr (2013) Metagenomic identifi cation, seasonal
dynamics, and potential transmission mechanisms of a Daphnia -
associated single-stranded DNA virus in two temperate lakes.
Limnol Oceano 58:1605–1620
Hofer JS, Sommaruga R (2001) Seasonal dynamics of viruses in an
alpine lake: importance of fi lamentous forms. Aquat Microb Ecol
26:1–11
Hugenholtz P, Goebel BM, Pace NR (1998) Impact of culture-
independent studies on the emerging phylogenetic view of bacterial
diversity. J Bacteriol 180:4765–4774
Jardillier L, Bettarel Y, Bardot C, Amblard C, Sime-Ngando T, Debroas
D (2005) Effects of viruses and predators on the prokaryotic com-
munity composition. Microb Ecol 50:557–569
Lehours A-C, Bardot C, Thenot A, Debroas D, Fonty G (2005)
Anaerobic microbial communities in Lake Pavin, a unique meromic-
tic lake in France. Appl Environ Microbiol 71:7389–7400
Lindell D, Jaffe JD, Johnson ZI, Church GM, Chisholm SW (2005)
Photosynthesis in marine viruses yield proteins during host infec-
tion. Nature 438:86–89
Łoś M, Węgrzyn G (2012) Pseudolysogeny. Adv Virus Res
82:339–349
Mackinder LC, Worthy CA, Biggi G, Hall M, Ryan KP, Varsani A,
Harper GM, Wilson WH, Brownlee C, Schroeder DC (2009) A uni-
cellular algal virus Emiliana huxleyi virus 86, exploits an animal-
like infection strategy. J Gen Virol 90:2306–2316
Marie D, Partensky F, Jacquet S, Vaulot D (1997) Enumeration and cell-
cycle analysis of natural populations of marine picoplankton by
fl ow cytometry using the nucleic-acid stain SYBR Green I. Appl
Environ Microbiol 63:186–193
Marie D, Brussaard CPD, Thyrhaug R, Bratbak G, Vaulot D (1999)
Enumeration of marine viruses in culture and natural samples by
fl ow cytometry. Appl Environ Microbiol 65:45–52
Mathias CB, Kirschner KT, Velimirov B (1995) Seasonal variations of
virus abundance and virus control of the bacterial population in
backwater system of the Danube River. Appl Environ Microbiol
61:3734–3740

14 Ecology of Viruses in Lake Pavin


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