220
Bowler C, Green BR, Moulton V, van Oosterhout C, Grigoriev IV (2017) Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature 541(7638):536–540
Matthijs M, Fabris M, Obata T, Foubert I, Franco‐Zorrilla JM, Solano R, Fernie AR, Vyverman W,
Goossens A (2017) The transcription factor bZIP14 regulates the TCA cycle in the diatom.
EMBO J 36(11):1559–1576
Nogales J, Gudmundsson S, Knight EM et al (2012) Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis. Proc Natl Acad Sci 109:2678–2683.
doi:10.1073/pnas.1117907109
Nunn BL, Aker JR, Shaffer SA et al (2009) Deciphering diatom biochemical pathways via wholecell proteomics. Aquat Microb Ecol Int J 55:241–253. doi:10.3354/ame01284
Nunn BL, Faux JF, Hippmann AA et al (2013) Diatom proteomics reveals unique acclimation
strategies to mitigate Fe limitation. PLoS One 8:e75653. doi:10.1371/journal.pone.0075653
Nymark M, Valle KC, Brembu T et al (2009) An integrated analysis of molecular acclimation to
high light in the marine diatom Phaeodactylum tricornutum. PLoS One 4:e7743. doi:10.1371/
journal.pone.0007743
Nymark M, Valle KC, Hancke K et al (2013) Molecular and photosynthetic responses to prolonged
darkness and subsequent acclimation to re-illumination in the diatom Phaeodactylum tricornutum. PLoS One 8:e58722. doi:10.1371/journal.pone.0058722
Ottesen EA, Young CR, Eppley JM et al (2013) Pattern and synchrony of gene expression
among sympatric marine microbial populations. Proc Natl Acad Sci U S A 110:E488–E497.
doi:10.1073/pnas.1222099110
Ottesen EA, Young CR, Gifford SM et al (2014) Multispecies diel transcriptional oscillations
in open ocean heterotrophic bacterial assemblages. Science 345:207–212. doi:10.1126/
science.1252476
Palenik B, Brahamsha B, Larimer FW et al (2003) The genome of a motile marine Synechococcus.
Nature 424:1037–1042. doi:10.1038/nature01943
Rocap G, Larimer FW, Lamerdin J et al (2003) Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424:1042–1047. doi:10.1038/nature01947
Saito MA, McIlvin MR, Moran DM et al (2014) Multiple nutrient stresses at intersecting
Pacific Ocean biomes detected by protein biomarkers. Science 345:1173–1177. doi:10.1126/
science.1256450
Sapriel G, Quinet M, Heijde M et al (2009) Genome-wide Transcriptome analyses of silicon
metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters. PLoS One 4:e7458. doi:10.1371/journal.pone.0007458
Shrestha RP, Tesson B, Norden-Krichmar T et al (2012) Whole transcriptome analysis of
the silicon response of the diatom Thalassiosira pseudonana. BMC Genomics 13:499.
doi:10.1186/1471-2164-13-499
Smith SR, Gillard JTF, Kustka AB et al (2016a) Transcriptional orchestration of the global cellular
response of a model Pennate diatom to Diel light cycling under iron limitation. PLoS Genet
12:e1006490. doi:10.1371/journal.pgen.1006490
Smith SR, Glé C, Abbriano RM et al (2016b) Transcript level coordination of carbon pathways
during silicon starvation-induced lipid accumulation in the diatom Thalassiosira pseudonana.
New Phytol 210:890–904. doi:10.1111/nph.13843
Sunagawa S, Coelho LP, Chaffron S et al (2015) Structure and function of the global ocean microbiome. Science 348:1261359. doi:10.1126/science.1261359
Traller JC, Cokus SJ, Lopez DA, Gaidarenko O, Smith SR, JP MC, Gallaher SD, Podell S,
Thompson M, Cook O, Morselli M, Jaroszewicz A, Allen EE, Allen AE, Merchant SS,
Pellegrini M, Hildebrand M (2016) Genome and methylome of the oleaginous diatom
Cyclotella cryptica reveal genetic flexibility toward a high lipid phenotype. Biotechnol Biofuels
9(1):258
Thamatrakoln K, Korenovska O, Niheu AK, Bidle KD (2012) Whole-genome expression analysis reveals a role for death-related genes in stress acclimation of the diatom Thalassiosira
pseudonana. Environ Microbiol 14:67–81. doi:10.1111/j.1462-2920.2011.02468.x
J. Ashworth
Bowler C, Green BR, Moulton V, van Oosterhout C, Grigoriev IV (2017) Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature 541(7638):536–540
Matthijs M, Fabris M, Obata T, Foubert I, Franco‐Zorrilla JM, Solano R, Fernie AR, Vyverman W,
Goossens A (2017) The transcription factor bZIP14 regulates the TCA cycle in the diatom.
EMBO J 36(11):1559–1576
Nogales J, Gudmundsson S, Knight EM et al (2012) Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis. Proc Natl Acad Sci 109:2678–2683.
doi:10.1073/pnas.1117907109
Nunn BL, Aker JR, Shaffer SA et al (2009) Deciphering diatom biochemical pathways via wholecell proteomics. Aquat Microb Ecol Int J 55:241–253. doi:10.3354/ame01284
Nunn BL, Faux JF, Hippmann AA et al (2013) Diatom proteomics reveals unique acclimation
strategies to mitigate Fe limitation. PLoS One 8:e75653. doi:10.1371/journal.pone.0075653
Nymark M, Valle KC, Brembu T et al (2009) An integrated analysis of molecular acclimation to
high light in the marine diatom Phaeodactylum tricornutum. PLoS One 4:e7743. doi:10.1371/
journal.pone.0007743
Nymark M, Valle KC, Hancke K et al (2013) Molecular and photosynthetic responses to prolonged
darkness and subsequent acclimation to re-illumination in the diatom Phaeodactylum tricornutum. PLoS One 8:e58722. doi:10.1371/journal.pone.0058722
Ottesen EA, Young CR, Eppley JM et al (2013) Pattern and synchrony of gene expression
among sympatric marine microbial populations. Proc Natl Acad Sci U S A 110:E488–E497.
doi:10.1073/pnas.1222099110
Ottesen EA, Young CR, Gifford SM et al (2014) Multispecies diel transcriptional oscillations
in open ocean heterotrophic bacterial assemblages. Science 345:207–212. doi:10.1126/
science.1252476
Palenik B, Brahamsha B, Larimer FW et al (2003) The genome of a motile marine Synechococcus.
Nature 424:1037–1042. doi:10.1038/nature01943
Rocap G, Larimer FW, Lamerdin J et al (2003) Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424:1042–1047. doi:10.1038/nature01947
Saito MA, McIlvin MR, Moran DM et al (2014) Multiple nutrient stresses at intersecting
Pacific Ocean biomes detected by protein biomarkers. Science 345:1173–1177. doi:10.1126/
science.1256450
Sapriel G, Quinet M, Heijde M et al (2009) Genome-wide Transcriptome analyses of silicon
metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters. PLoS One 4:e7458. doi:10.1371/journal.pone.0007458
Shrestha RP, Tesson B, Norden-Krichmar T et al (2012) Whole transcriptome analysis of
the silicon response of the diatom Thalassiosira pseudonana. BMC Genomics 13:499.
doi:10.1186/1471-2164-13-499
Smith SR, Gillard JTF, Kustka AB et al (2016a) Transcriptional orchestration of the global cellular
response of a model Pennate diatom to Diel light cycling under iron limitation. PLoS Genet
12:e1006490. doi:10.1371/journal.pgen.1006490
Smith SR, Glé C, Abbriano RM et al (2016b) Transcript level coordination of carbon pathways
during silicon starvation-induced lipid accumulation in the diatom Thalassiosira pseudonana.
New Phytol 210:890–904. doi:10.1111/nph.13843
Sunagawa S, Coelho LP, Chaffron S et al (2015) Structure and function of the global ocean microbiome. Science 348:1261359. doi:10.1126/science.1261359
Traller JC, Cokus SJ, Lopez DA, Gaidarenko O, Smith SR, JP MC, Gallaher SD, Podell S,
Thompson M, Cook O, Morselli M, Jaroszewicz A, Allen EE, Allen AE, Merchant SS,
Pellegrini M, Hildebrand M (2016) Genome and methylome of the oleaginous diatom
Cyclotella cryptica reveal genetic flexibility toward a high lipid phenotype. Biotechnol Biofuels
9(1):258
Thamatrakoln K, Korenovska O, Niheu AK, Bidle KD (2012) Whole-genome expression analysis reveals a role for death-related genes in stress acclimation of the diatom Thalassiosira
pseudonana. Environ Microbiol 14:67–81. doi:10.1111/j.1462-2920.2011.02468.x
J. Ashworth