1 Genomics in the Discovery and Monitoring
31
Rosel PE, Kocher TD (2002) DNA-based identification of larval cod in stomach contents of
predatory fishes. J Exp Mar Biol Ecol 267:75–88
Rothberg JM, Leamon JH (2008) The development and impact of 454 sequencing. Nat Biotech
26:1117–1124
Santaclara FJ, Espineira M, Vieites JM (2007) Molecular detection of Xenostrobus securis and
Mytillus galloprovincialis larvae in galician coast (Spain). Mar Biotechnol 9:722–732
Santelli CM, Orcutt BN, Banning E et al (2008) Abundance and diversity of microbial life in ocean
crust. Nature 453:653–656
Savolainen R, Cowan RS, Vogler AP (2005) DNA barcoding of life. Phil Trans R Soc Lond B
360:1805–1980
Scherer-Lorenzen M (2005) Biodiversity and ecosystem functioning: basic principles. In: Wilhelm
Barthlott, K Eduard L, Stefan P (eds) Biodiversity: structure and function. Encyclopedia of Life
Support Systems (EOLSS), Developed under the Auspices of the UNESCO, Eolss Publishers,
Oxford. [http://www.eolss.net]
Schratzberger M, Warr K et al (2007) Functional diversity of nematode communities in the
southwestern North Sea. Mar Environ Res 63(4):368–389
Shanks AL, Brink L (2005) Upwelling, downwelling, and cross-shelf transport of bivalve larvae:
test of a hypothesis. Mar Ecol Prog Ser 302:1–12
Shearer TL, Coffroth MA (2006) Genetic identification of Caribbean scleractinian coral recruits at
the flower garden banks and the florida keys. Mar Ecol Prog Ser 306:133–142
Shearer TL, Coffroth MA (2008) Barcoding corals: limited by interspecific divergence, not
intraspecific variation. Mol Ecol Res 8:247–255
Sigler MF, Hulbert LB, Lunsford CR et al (2006) Diet of Pacific sleeper shark, a potential Steller
sea lion predator, in the north-east Pacific Ocean. J Fish Biol 69:392–405
Simon N, Campbell L, Ornolfsdottir E et al (2000) Oligonucleotide probes for the identification
of three algal groups by dot biot and fluorescent whole-cell hybridization. J EuR Microbial
47:76–84
Smith CR, Austen MC et al (2000) Global change and biodiversity linkages across the sedimentwater interface. Bioscience 50(12):1108–1120
Snelgrove PVR, Austen MC et al (2000) Linking biodiversity above and below the marine
sediment-water interface. BioScience 50(12):1076–1088
Snelgrove P, Blackburn TH et al (1997) The importance of marine sediment biodiversity in
ecosystem processes. Ambio 26:578–583
Sogin ML, Morrison HG et al (2006) Microbial diversity in the deep sea and the underexplored
“rare biosphere”. Proc Natl Acad Sci USA 103:12115–12120
Stein JL, Marsh TL et al (1996) Characterization of uncultivated prokaryotes: isolation and analysis of a 40-kilobase-pair genome fragment from a planktonic marine archaeon. J Bacteriol
178(3):591–599
Suzuki MT, Preston CM et al (2004) Phylogenetic screening of ribosomal RNA gene-containing
clones in Bacterial Artificial Chromosome (BAC) libraries from different depths in Monterey
Bay. Microb Ecol 48(4):473–488
Taylor MI, Fox C, Rico I, Rico C (2002) Species-specific TaqMan probes for simultaneous
identification of (Gadus morhua L.), haddock (Melanogrammus aeglefinus L.) and whiting
(Merlangius merlangus L. Mol Ecol Notes 2:599–601
Tzeneva VA, Heilig HG, van Vliet WA, Akkermans AD, de Vos WM, Smidt H (2008) 16S rRNA
targeted DGGE fingerprinting of microbial communities. Methods Mol Biol 410:335–349
Umina PA, Weeks AR, Kearney MR et al (2005) A rapid shift in classic clinical pattern in
Drosophila reflecting climate change. Science 308:691–693
Underwood AJ, Fairweather PG (1989) Supply-side ecology and marine benthic assemblages.
Trends Ecol Evol 4:16–19
Vadopalas B, Bouma JV, Jackels CR, Friedman CS (2006) Application of real-time PCR
for simultaneous identification and quantification of larval abalone. J Exp Mar Biol Ecol
334:219–228
31
Rosel PE, Kocher TD (2002) DNA-based identification of larval cod in stomach contents of
predatory fishes. J Exp Mar Biol Ecol 267:75–88
Rothberg JM, Leamon JH (2008) The development and impact of 454 sequencing. Nat Biotech
26:1117–1124
Santaclara FJ, Espineira M, Vieites JM (2007) Molecular detection of Xenostrobus securis and
Mytillus galloprovincialis larvae in galician coast (Spain). Mar Biotechnol 9:722–732
Santelli CM, Orcutt BN, Banning E et al (2008) Abundance and diversity of microbial life in ocean
crust. Nature 453:653–656
Savolainen R, Cowan RS, Vogler AP (2005) DNA barcoding of life. Phil Trans R Soc Lond B
360:1805–1980
Scherer-Lorenzen M (2005) Biodiversity and ecosystem functioning: basic principles. In: Wilhelm
Barthlott, K Eduard L, Stefan P (eds) Biodiversity: structure and function. Encyclopedia of Life
Support Systems (EOLSS), Developed under the Auspices of the UNESCO, Eolss Publishers,
Oxford. [http://www.eolss.net]
Schratzberger M, Warr K et al (2007) Functional diversity of nematode communities in the
southwestern North Sea. Mar Environ Res 63(4):368–389
Shanks AL, Brink L (2005) Upwelling, downwelling, and cross-shelf transport of bivalve larvae:
test of a hypothesis. Mar Ecol Prog Ser 302:1–12
Shearer TL, Coffroth MA (2006) Genetic identification of Caribbean scleractinian coral recruits at
the flower garden banks and the florida keys. Mar Ecol Prog Ser 306:133–142
Shearer TL, Coffroth MA (2008) Barcoding corals: limited by interspecific divergence, not
intraspecific variation. Mol Ecol Res 8:247–255
Sigler MF, Hulbert LB, Lunsford CR et al (2006) Diet of Pacific sleeper shark, a potential Steller
sea lion predator, in the north-east Pacific Ocean. J Fish Biol 69:392–405
Simon N, Campbell L, Ornolfsdottir E et al (2000) Oligonucleotide probes for the identification
of three algal groups by dot biot and fluorescent whole-cell hybridization. J EuR Microbial
47:76–84
Smith CR, Austen MC et al (2000) Global change and biodiversity linkages across the sedimentwater interface. Bioscience 50(12):1108–1120
Snelgrove PVR, Austen MC et al (2000) Linking biodiversity above and below the marine
sediment-water interface. BioScience 50(12):1076–1088
Snelgrove P, Blackburn TH et al (1997) The importance of marine sediment biodiversity in
ecosystem processes. Ambio 26:578–583
Sogin ML, Morrison HG et al (2006) Microbial diversity in the deep sea and the underexplored
“rare biosphere”. Proc Natl Acad Sci USA 103:12115–12120
Stein JL, Marsh TL et al (1996) Characterization of uncultivated prokaryotes: isolation and analysis of a 40-kilobase-pair genome fragment from a planktonic marine archaeon. J Bacteriol
178(3):591–599
Suzuki MT, Preston CM et al (2004) Phylogenetic screening of ribosomal RNA gene-containing
clones in Bacterial Artificial Chromosome (BAC) libraries from different depths in Monterey
Bay. Microb Ecol 48(4):473–488
Taylor MI, Fox C, Rico I, Rico C (2002) Species-specific TaqMan probes for simultaneous
identification of (Gadus morhua L.), haddock (Melanogrammus aeglefinus L.) and whiting
(Merlangius merlangus L. Mol Ecol Notes 2:599–601
Tzeneva VA, Heilig HG, van Vliet WA, Akkermans AD, de Vos WM, Smidt H (2008) 16S rRNA
targeted DGGE fingerprinting of microbial communities. Methods Mol Biol 410:335–349
Umina PA, Weeks AR, Kearney MR et al (2005) A rapid shift in classic clinical pattern in
Drosophila reflecting climate change. Science 308:691–693
Underwood AJ, Fairweather PG (1989) Supply-side ecology and marine benthic assemblages.
Trends Ecol Evol 4:16–19
Vadopalas B, Bouma JV, Jackels CR, Friedman CS (2006) Application of real-time PCR
for simultaneous identification and quantification of larval abalone. J Exp Mar Biol Ecol
334:219–228