232
References
Alexander H, Jenkins BD, Rynearson TA et al (2015) Metatranscriptome analyses indicate resource
partitioning between diatoms in the field. Proc Natl Acad Sci U S A 112:E2182–E2190
Allen LZ, Allen EE, Badger JH et al (2012) Influence of nutrients and currents on the genomic
composition of microbes across an upwelling mosaic. ISME J 6:1403–1414
Avaniss-Aghajani E, Jones K, Chapman D et al (1994) A molecular technique for identification of
bacteria using small subunit ribosomal RNA sequences. BioTechniques 17:144–146
Brown MV, Fuhrman JA (2005) Marine bacterial microdiversity as revealed by internal transcribed
spacer analysis. Aquat Microb Ecol 41:15–23
Chow C-ET, Sachdeva R, Cram JA et al (2013) Temporal variability and coherence of euphotic zone
bacterial communities over a decade in the Southern California Bight. ISME J 7:2259–2273
DeLong EF (2009) The microbial ocean from genomes to biomes. Nature 459:200–206
Doblin MA, Petrou K, Sinutok S et al (2016) Nutrient uplift in a cyclonic eddy increases diversity,
primary productivity and iron demand of microbial communities relative to a western boundary
current. PeerJ 4:e1973
Dorigo U, Volatier L, Humbert J-F (2005) Molecular approaches to the assessment of biodiversity
in aquatic microbial communities. Water Res 39:2207–2218
Falkowski PG, Fenchel T, Delong EF (2008) The microbial engines that drive Earth’s biogeochemical cycles. Science 320:1034–1039
Field CB, Behrenfeld MJ, Randerson JT et al (1998) Primary production of the biosphere: integrating terrestrial and oceanic components. Science 281:237–240
Gilbert JA, Steele JA, Caporaso JG et al (2012) Defining seasonal marine microbial community
dynamics. ISME J 6:298–308
Giovannoni S, Cary SC (1993) Probing marine systems with ribosomal RNAs. Oceanography
6:95–104
Giovannoni SJ, Vergin KL (2012) Seasonality in ocean microbial communities. Science
335:671–676
Gong J, Dong J, Liu X et al (2013) Extremely high copy numbers and polymorphisms of the
rDNA operon estimated from single cell analysis of oligotrich and peritrich ciliates. Protist
164:369–379
Hamsher SE, Evans KM, Mann DG et al (2011) Barcoding diatoms: exploring alternatives to
COI-5P. Protist 162:405–422
Hoppenrath M, Leander BS (2010) Dinoflagellate phylogeny as inferred from heat shock protein
90 and ribosomal gene sequences. PLoS One 5:e13220
Keeling PJ, Burki F, Wilcox HM et al (2014) The Marine Microbial Eukaryote Transcriptome
Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the
oceans through transcriptome sequencing. PLoS Biol 12:e1001889
Malviya S, Scalco E, Audic S et al (2016) Insights into global diatom distribution and diversity in
the world’s ocean. Proc Natl Acad Sci U S A 113(11):E1516–E1525
Marchetti A, Schruth DM, Durkin CA et al (2012) Comparative metatranscriptomics identifies
molecular bases for the physiological responses of phytoplankton to varying iron availability.
Proc Natl Acad Sci U S A 109:E317–E325
Mazard S, Ostrowski M, Partensky F et al (2012) Multi-locus sequence analysis, taxonomic resolution and biogeography of marine Synechococcus. Environ Microbiol 14:372–386
Messer LF, Mahaffey C, Robinson CM et al (2016) High levels of heterogeneity in diazotroph diversity and activity within a putative hotspot for marine nitrogen fixation. ISME
J 10(6):1499–1513
Mock T, Samanta MP, Iverson V et al (2008) Whole-genome expression profiling of the marine
diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses. Proc Natl
Acad Sci U S A 105:1579–1584
D.R. Varkey and M.A. Doblin
References
Alexander H, Jenkins BD, Rynearson TA et al (2015) Metatranscriptome analyses indicate resource
partitioning between diatoms in the field. Proc Natl Acad Sci U S A 112:E2182–E2190
Allen LZ, Allen EE, Badger JH et al (2012) Influence of nutrients and currents on the genomic
composition of microbes across an upwelling mosaic. ISME J 6:1403–1414
Avaniss-Aghajani E, Jones K, Chapman D et al (1994) A molecular technique for identification of
bacteria using small subunit ribosomal RNA sequences. BioTechniques 17:144–146
Brown MV, Fuhrman JA (2005) Marine bacterial microdiversity as revealed by internal transcribed
spacer analysis. Aquat Microb Ecol 41:15–23
Chow C-ET, Sachdeva R, Cram JA et al (2013) Temporal variability and coherence of euphotic zone
bacterial communities over a decade in the Southern California Bight. ISME J 7:2259–2273
DeLong EF (2009) The microbial ocean from genomes to biomes. Nature 459:200–206
Doblin MA, Petrou K, Sinutok S et al (2016) Nutrient uplift in a cyclonic eddy increases diversity,
primary productivity and iron demand of microbial communities relative to a western boundary
current. PeerJ 4:e1973
Dorigo U, Volatier L, Humbert J-F (2005) Molecular approaches to the assessment of biodiversity
in aquatic microbial communities. Water Res 39:2207–2218
Falkowski PG, Fenchel T, Delong EF (2008) The microbial engines that drive Earth’s biogeochemical cycles. Science 320:1034–1039
Field CB, Behrenfeld MJ, Randerson JT et al (1998) Primary production of the biosphere: integrating terrestrial and oceanic components. Science 281:237–240
Gilbert JA, Steele JA, Caporaso JG et al (2012) Defining seasonal marine microbial community
dynamics. ISME J 6:298–308
Giovannoni S, Cary SC (1993) Probing marine systems with ribosomal RNAs. Oceanography
6:95–104
Giovannoni SJ, Vergin KL (2012) Seasonality in ocean microbial communities. Science
335:671–676
Gong J, Dong J, Liu X et al (2013) Extremely high copy numbers and polymorphisms of the
rDNA operon estimated from single cell analysis of oligotrich and peritrich ciliates. Protist
164:369–379
Hamsher SE, Evans KM, Mann DG et al (2011) Barcoding diatoms: exploring alternatives to
COI-5P. Protist 162:405–422
Hoppenrath M, Leander BS (2010) Dinoflagellate phylogeny as inferred from heat shock protein
90 and ribosomal gene sequences. PLoS One 5:e13220
Keeling PJ, Burki F, Wilcox HM et al (2014) The Marine Microbial Eukaryote Transcriptome
Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the
oceans through transcriptome sequencing. PLoS Biol 12:e1001889
Malviya S, Scalco E, Audic S et al (2016) Insights into global diatom distribution and diversity in
the world’s ocean. Proc Natl Acad Sci U S A 113(11):E1516–E1525
Marchetti A, Schruth DM, Durkin CA et al (2012) Comparative metatranscriptomics identifies
molecular bases for the physiological responses of phytoplankton to varying iron availability.
Proc Natl Acad Sci U S A 109:E317–E325
Mazard S, Ostrowski M, Partensky F et al (2012) Multi-locus sequence analysis, taxonomic resolution and biogeography of marine Synechococcus. Environ Microbiol 14:372–386
Messer LF, Mahaffey C, Robinson CM et al (2016) High levels of heterogeneity in diazotroph diversity and activity within a putative hotspot for marine nitrogen fixation. ISME
J 10(6):1499–1513
Mock T, Samanta MP, Iverson V et al (2008) Whole-genome expression profiling of the marine
diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses. Proc Natl
Acad Sci U S A 105:1579–1584
D.R. Varkey and M.A. Doblin