skip to main content
DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)

Abstract

Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. The nuclear genome of C. tobin is small (59 Mb), compact (~40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two “red” RuBisCO activases that are shared across many algal lineages. In conclusion, the Chrysochromulina tobinmore » genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes.« less

Authors:
 [1];  [1];  [1];  [1];  [1];  [2];  [1];  [1];  [3];  [2];  [1];  [4]
  1. Univ. of Washington, Seattle, WA (United States)
  2. Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
  3. San Diego State Univ., CA (United States)
  4. Micro Trek Inc., Davis, CA (United States)
Publication Date:
Research Org.:
Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1259483
Grant/Contract Number:  
EE0003046; WSYN_BIO; DGE-0718124; DGE-1256082; 1RL1CA133831; NA07OAR-4170007
Resource Type:
Accepted Manuscript
Journal Name:
PLoS Genetics
Additional Journal Information:
Journal Volume: 11; Journal Issue: 9; Journal ID: ISSN 1553-7404
Publisher:
Public Library of Science
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Hovde, Blake T., Deodato, Chloe R., Hunsperger, Heather M., Ryken, Scott A., Yost, Will, Jha, Ramesh K., Patterson, Johnathan, Monnat, Raymond J., Barlow, Steven B., Starkenburg, Shawn R., Cattolico, Rose Ann, and Richardson, Paul M. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae). United States: N. p., 2015. Web. doi:10.1371/journal.pgen.1005469.
Hovde, Blake T., Deodato, Chloe R., Hunsperger, Heather M., Ryken, Scott A., Yost, Will, Jha, Ramesh K., Patterson, Johnathan, Monnat, Raymond J., Barlow, Steven B., Starkenburg, Shawn R., Cattolico, Rose Ann, & Richardson, Paul M. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae). United States. doi:10.1371/journal.pgen.1005469.
Hovde, Blake T., Deodato, Chloe R., Hunsperger, Heather M., Ryken, Scott A., Yost, Will, Jha, Ramesh K., Patterson, Johnathan, Monnat, Raymond J., Barlow, Steven B., Starkenburg, Shawn R., Cattolico, Rose Ann, and Richardson, Paul M. Wed . "Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)". United States. doi:10.1371/journal.pgen.1005469. https://www.osti.gov/servlets/purl/1259483.
@article{osti_1259483,
title = {Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)},
author = {Hovde, Blake T. and Deodato, Chloe R. and Hunsperger, Heather M. and Ryken, Scott A. and Yost, Will and Jha, Ramesh K. and Patterson, Johnathan and Monnat, Raymond J. and Barlow, Steven B. and Starkenburg, Shawn R. and Cattolico, Rose Ann and Richardson, Paul M.},
abstractNote = {Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. The nuclear genome of C. tobin is small (59 Mb), compact (~40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two “red” RuBisCO activases that are shared across many algal lineages. In conclusion, the Chrysochromulina tobin genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes.},
doi = {10.1371/journal.pgen.1005469},
journal = {PLoS Genetics},
number = 9,
volume = 11,
place = {United States},
year = {2015},
month = {9}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record

Citation Metrics:
Cited by: 12 works
Citation information provided by
Web of Science

Save / Share:

Works referenced in this record:

A global perspective on marine photosynthetic picoeukaryote community structure
journal, January 2013

  • Kirkham, Amy R.; Lepère, Cécile; Jardillier, Ludwig E.
  • The ISME Journal, Vol. 7, Issue 5
  • DOI: 10.1038/ismej.2012.166

New haptophyte lineages and multiple independent colonizations of freshwater ecosystems: New insights into haptophyte diversity
journal, January 2013

  • Simon, Marianne; López-García, Purificación; Moreira, David
  • Environmental Microbiology Reports, Vol. 5, Issue 2
  • DOI: 10.1111/1758-2229.12023

Diversity patterns of uncultured Haptophytes unravelled by pyrosequencing in Naples Bay
journal, November 2012

  • Bittner, Lucie; Gobet, Angélique; Audic, Stéphane
  • Molecular Ecology, Vol. 22, Issue 1
  • DOI: 10.1111/mec.12108

Extreme diversity in noncalcifying haptophytes explains a major pigment paradox in open oceans
journal, July 2009

  • Liu, H.; Probert, I.; Uitz, J.
  • Proceedings of the National Academy of Sciences, Vol. 106, Issue 31
  • DOI: 10.1073/pnas.0905841106

Marine-Freshwater Colonizations of Haptophytes Inferred from Phylogeny of Environmental 18S rDNA Sequences: FRESHWATER HAPTOPHYTES
journal, April 2011

  • Shalchian-Tabrizi, Kamran; Reier-RØBerg, Kjetil; Ree, Dan Kristofer
  • Journal of Eukaryotic Microbiology, Vol. 58, Issue 4
  • DOI: 10.1111/j.1550-7408.2011.00547.x

Pan genome of the phytoplankton Emiliania underpins its global distribution
journal, June 2013

  • Read, Betsy A.; Kegel, Jessica; Klute, Mary J.
  • Nature, Vol. 499, Issue 7457
  • DOI: 10.1038/nature12221

Deep-branching Novel Lineages and High Diversity of Haptophytes in the Skagerrak (Norway) Uncovered by 454 Pyrosequencing
journal, September 2014

  • Egge, Elianne S.; Eikrem, Wenche; Edvardsen, Bente
  • Journal of Eukaryotic Microbiology, Vol. 62, Issue 1
  • DOI: 10.1111/jeu.12157

Nannochloropsis Genomes Reveal Evolution of Microalgal Oleaginous Traits
journal, January 2014


Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae
journal, January 2015

  • Hunsperger, Heather M.; Randhawa, Tejinder; Cattolico, Rose
  • BMC Evolutionary Biology, Vol. 15, Issue 1
  • DOI: 10.1186/s12862-015-0286-4

The mitochondrial and chloroplast genomes of the haptophyte Chrysochromulina tobin contain unique repeat structures and gene profiles
journal, January 2014

  • Hovde, Blake T.; Starkenburg, Shawn R.; Hunsperger, Heather M.
  • BMC Genomics, Vol. 15, Issue 1
  • DOI: 10.1186/1471-2164-15-604

Light-Promoted Rhodopsin Expression and Starvation Survival in the Marine Dinoflagellate Oxyrrhis marina
journal, December 2014


Metabolic engineering of lipid catabolism increases microalgal lipid accumulation without compromising growth
journal, November 2013

  • Trentacoste, E. M.; Shrestha, R. P.; Smith, S. R.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 49
  • DOI: 10.1073/pnas.1309299110

Genetic Engineering of Algae for Enhanced Biofuel Production
journal, February 2010

  • Radakovits, R.; Jinkerson, R. E.; Darzins, A.
  • Eukaryotic Cell, Vol. 9, Issue 4, p. 486-501
  • DOI: 10.1128/EC.00364-09

Accurate quantification of transcriptome from RNA-Seq data by effective length normalization
journal, November 2010

  • Lee, Soohyun; Seo, Chae Hwa; Lim, Byungho
  • Nucleic Acids Research, Vol. 39, Issue 2
  • DOI: 10.1093/nar/gkq1015

Prymnesins: Toxic Metabolites of the Golden Alga, Prymnesium parvum Carter (Haptophyta)
journal, March 2010

  • Manning, Schonna R.; La Claire, John W.
  • Marine Drugs, Vol. 8, Issue 3
  • DOI: 10.3390/md8030678

Algicide production by the filamentous cyanobacterium Fischerella sp. CENA 19
journal, June 2004


Fusarin C acts like an estrogenic agonist and stimulates breast cancer cells in vitro
journal, August 2011


CAMP: a useful resource for research on antimicrobial peptides
journal, November 2009

  • Thomas, Shaini; Karnik, Shreyas; Barai, Ram Shankar
  • Nucleic Acids Research, Vol. 38, Issue suppl_1
  • DOI: 10.1093/nar/gkp1021

Antibacterial substances from marine algae isolated from Jeddah coast of Red sea, Saudi Arabia
journal, January 2014

  • Al-Saif, Sarah Saleh Abdu-llah; Abdel-Raouf, Nevein; El-Wazanani, Hend A.
  • Saudi Journal of Biological Sciences, Vol. 21, Issue 1
  • DOI: 10.1016/j.sjbs.2013.06.001

ADS1 encodes a MATE-transporter that negatively regulates plant disease resistance
journal, July 2011


The Escherichia coli SOS Gene dinF Protects against Oxidative Stress and Bile Salts
journal, April 2012

  • Rodríguez-Beltrán, Jerónimo; Rodríguez-Rojas, Alexandro; Guelfo, Javier R.
  • PLoS ONE, Vol. 7, Issue 4
  • DOI: 10.1371/journal.pone.0034791

A bacterial proteorhodopsin proton pump in marine eukaryotes
journal, February 2011

  • Slamovits, Claudio H.; Okamoto, Noriko; Burri, Lena
  • Nature Communications, Vol. 2, Issue 1
  • DOI: 10.1038/ncomms1188

Mutualistic interactions between vitamin B12-dependent algae and heterotrophic bacteria exhibit regulation: Algal-bacterial interactions for delivery of vitamin B12
journal, March 2012


Proteorhodopsin
journal, May 2014

  • Bamann, Christian; Bamberg, Ernst; Wachtveitl, Josef
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1837, Issue 5
  • DOI: 10.1016/j.bbabio.2013.09.010

Genomics and Physiology of a Marine Flavobacterium Encoding a Proteorhodopsin and a Xanthorhodopsin-Like Protein
journal, March 2013


Nature's toolkit for microbial rhodopsin ion pumps
journal, April 2014

  • Beja, O.; Lanyi, J. K.
  • Proceedings of the National Academy of Sciences, Vol. 111, Issue 18
  • DOI: 10.1073/pnas.1405093111

Crystallographic structure of xanthorhodopsin, the light-driven proton pump with a dual chromophore
journal, October 2008

  • Luecke, H.; Schobert, B.; Stagno, J.
  • Proceedings of the National Academy of Sciences, Vol. 105, Issue 43
  • DOI: 10.1073/pnas.0807162105

Dinoflagellate Genome Evolution
journal, October 2011


Cyanobacterial-based approaches to improving photosynthesis in plants
journal, October 2012

  • Zarzycki, Jan; Axen, Seth D.; Kinney, James N.
  • Journal of Experimental Botany, Vol. 64, Issue 3
  • DOI: 10.1093/jxb/ers294

A pangenomic analysis of the Nannochloropsis organellar genomes reveals novel genetic variations in key metabolic genes
journal, January 2014

  • Starkenburg, Shawn R.; Kwon, Kyungyoon J.; Jha, Ramesh K.
  • BMC Genomics, Vol. 15, Issue 1
  • DOI: 10.1186/1471-2164-15-212

Structure and function of the AAA+ protein CbbX, a red-type Rubisco activase
journal, November 2011

  • Mueller-Cajar, Oliver; Stotz, Mathias; Wendler, Petra
  • Nature, Vol. 479, Issue 7372
  • DOI: 10.1038/nature10568

Advancing Our Understanding and Capacity to Engineer Nature’s CO 2 -Sequestering Enzyme, Rubisco
journal, October 2010

  • Whitney, Spencer M.; Houtz, Robert L.; Alonso, Hernan
  • Plant Physiology, Vol. 155, Issue 1
  • DOI: 10.1104/pp.110.164814

Insights into the Evolution of Vitamin B12 Auxotrophy from Sequenced Algal Genomes
journal, May 2011

  • Helliwell, K. E.; Wheeler, G. L.; Leptos, K. C.
  • Molecular Biology and Evolution, Vol. 28, Issue 10
  • DOI: 10.1093/molbev/msr124

Comparative Transcriptome Analysis of Four Prymnesiophyte Algae
journal, June 2014


Complete Sequence and Analysis of the Mitochondrial Genome of Hemiselmis andersenii CCMP644 (Cryptophyceae)
journal, January 2008


Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
journal, February 2008


MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
journal, December 2011


Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
journal, May 2010

  • Trapnell, Cole; Williams, Brian A.; Pertea, Geo
  • Nature Biotechnology, Vol. 28, Issue 5
  • DOI: 10.1038/nbt.1621

Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training
journal, October 2008

  • Ter-Hovhannisyan, V.; Lomsadze, A.; Chernoff, Y. O.
  • Genome Research, Vol. 18, Issue 12
  • DOI: 10.1101/gr.081612.108

Mapping and quantifying mammalian transcriptomes by RNA-Seq
journal, May 2008

  • Mortazavi, Ali; Williams, Brian A.; McCue, Kenneth
  • Nature Methods, Vol. 5, Issue 7, p. 621-628
  • DOI: 10.1038/nmeth.1226

Full-length transcriptome assembly from RNA-Seq data without a reference genome
journal, May 2011

  • Grabherr, Manfred G.; Haas, Brian J.; Yassour, Moran
  • Nature Biotechnology, Vol. 29, Issue 7
  • DOI: 10.1038/nbt.1883

Structure prediction for CASP8 with all-atom refinement using Rosetta
journal, January 2009

  • Raman, Srivatsan; Vernon, Robert; Thompson, James
  • Proteins: Structure, Function, and Bioinformatics, Vol. 77, Issue S9
  • DOI: 10.1002/prot.22540

RosettaLigand Docking with Full Ligand and Receptor Flexibility
journal, January 2009


jModelTest: Phylogenetic Model Averaging
journal, April 2008


Bayesian Phylogenetics with BEAUti and the BEAST 1.7
journal, February 2012

  • Drummond, Alexei J.; Suchard, Marc A.; Xie, Dong
  • Molecular Biology and Evolution, Vol. 29, Issue 8
  • DOI: 10.1093/molbev/mss075

A Nucleomorph-Encoded CbbX and the Phylogeny of RuBisCo Regulators
journal, April 2000


Genetic diversity of eukaryotic ultraphytoplankton in the Gulf of Naples during an annual cycle
journal, December 2007

  • McDonald, Sm; Sarno, D.; Scanlan, Dj
  • Aquatic Microbial Ecology, Vol. 50
  • DOI: 10.3354/ame01148

Experimental studies on dimethylsulfide (DMS) and dimethylsulfoniopropionate (DMSP) production by four marine microalgae
journal, July 2010


Identification of a Hybrid PKS/NRPS Required for Pseurotin A Biosynthesis in the Human PathogenAspergillus fumigatus
journal, September 2007


Functional analysis of the plastid and nuclear encoded CbbX proteins of Cyanidioschyzon merolae
journal, January 2008

  • Fujita, Kiyohito; Tanaka, Kan; Sadaie, Yoshito
  • Genes & Genetic Systems, Vol. 83, Issue 2
  • DOI: 10.1266/ggs.83.135

A Comprehensive GC–MS Sub‐Microscale Assay for Fatty Acids and its Applications
journal, March 2011

  • Bigelow, Nicholas W.; Hardin, William R.; Barker, James P.
  • Journal of the American Oil Chemists' Society, Vol. 88, Issue 9
  • DOI: 10.1007/s11746-011-1799-7


journal, July 2012


Satellite and ship studies of coccolithophore production along a continental shelf edge
journal, July 1983

  • Holligan, P. M.; Viollier, M.; Harbour, D. S.
  • Nature, Vol. 304, Issue 5924
  • DOI: 10.1038/304339a0

Expression of the bop gene cluster of Halobacterium halobium is induced by low oxygen tension and by light.
journal, August 1991


Microalgae: a sustainable feed source for aquaculture
journal, December 2010

  • Hemaiswarya, S.; Raja, R.; Ravi Kumar, R.
  • World Journal of Microbiology and Biotechnology, Vol. 27, Issue 8
  • DOI: 10.1007/s11274-010-0632-z

Microalgal triacylglycerols as feedstocks for biofuel production: perspectives and advances
journal, May 2008


Biosynthesis of the macrolide antibiotic tylosin. A preferred pathway from tylactone to tylosin.
journal, January 1983


ProtTest: selection of best-fit models of protein evolution
journal, January 2005


Carbon acquisition of marine phytoplankton: Effect of photoperiod length
journal, January 2006

  • Rost, Björn; Riebesell, Ulf; Sültemeyer, Dieter
  • Limnology and Oceanography, Vol. 51, Issue 1
  • DOI: 10.4319/lo.2006.51.1.0012

Characterization of a New Tailoring Domain in Polyketide Biogenesis:  The Amine Transferase Domain of MycA in the Mycosubtilin Gene Cluster
journal, November 2005

  • Aron, Zachary D.; Dorrestein, Pieter C.; Blackhall, Jonathan R.
  • Journal of the American Chemical Society, Vol. 127, Issue 43
  • DOI: 10.1021/ja055247g

Investigations on the carcinogenicity of fusarin C — a mutagenic metabolite of Fusarium moniliforme
journal, January 1986


The evolution of photosynthesis in chromist algae through serial endosymbioses
journal, December 2014

  • Stiller, John W.; Schreiber, John; Yue, Jipei
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms6764

The tylosin biosynthetic cluster from Streptomyces fradiae: genetic organization of the left region
journal, April 1999


New Insights into the Evolutionary History of Type 1 Rhodopsins
journal, March 2004


Mechanism and Diversity of the Erythromycin Esterase Family of Enzymes
journal, February 2012

  • Morar, Mariya; Pengelly, Kate; Koteva, Kalinka
  • Biochemistry, Vol. 51, Issue 8
  • DOI: 10.1021/bi201790u

Cloning of mRNA Sequences for Two Antibacterial Peptides in a Hemipteran Insect, Riptortus clavatus
journal, February 1996

  • Miura, Ken; Ueno, Satoshi; Kamiya, Katsumi
  • Zoological Science, Vol. 13, Issue 1
  • DOI: 10.2108/zsj.13.111

Protein structure prediction and analysis using the Robetta server
journal, July 2004

  • Kim, D. E.; Chivian, D.; Baker, D.
  • Nucleic Acids Research, Vol. 32, Issue Web Server
  • DOI: 10.1093/nar/gkh468

Polyketide biosynthesis beyond the type I, II and III polyketide synthase paradigms
journal, April 2003


MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004

  • Edgar, R. C.
  • Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
  • DOI: 10.1093/nar/gkh340

MrBayes 3: Bayesian phylogenetic inference under mixed models
journal, August 2003


Gene for the ribulose-1,5-bisphosphate carboxylase small subunit protein of the marine chromophyte Olisthodiscus luteus is similar to that of a chemoautotrophic bacterium.
journal, July 1989

  • Boczar, B. A.; Delaney, T. P.; Cattolico, R. A.
  • Proceedings of the National Academy of Sciences, Vol. 86, Issue 13
  • DOI: 10.1073/pnas.86.13.4996

Circadian variability in the photobiology of Phaeodactylum tricornutum: pigment content
journal, January 2007

  • Ragni, Maria; d'Alcalà, Maurizio Ribera
  • Journal of Plankton Research, Vol. 29, Issue 2
  • DOI: 10.1093/plankt/fbm002

Algae acquire vitamin B12 through a symbiotic relationship with bacteria
journal, November 2005

  • Croft, Martin T.; Lawrence, Andrew D.; Raux-Deery, Evelyne
  • Nature, Vol. 438, Issue 7064
  • DOI: 10.1038/nature04056

Protein secondary structure prediction based on position-specific scoring matrices 1 1Edited by G. Von Heijne
journal, September 1999


Antimicrobial Agents from Marine Algae
journal, March 1975

  • Sims, J. J.; Donnell, M. S.; Leary, J. V.
  • Antimicrobial Agents and Chemotherapy, Vol. 7, Issue 3
  • DOI: 10.1128/AAC.7.3.320

Function, Structure, and Evolution of the RubisCO-Like Proteins and Their RubisCO Homologs
journal, December 2007

  • Tabita, F. R.; Hanson, T. E.; Li, H.
  • Microbiology and Molecular Biology Reviews, Vol. 71, Issue 4
  • DOI: 10.1128/MMBR.00015-07

A molecular clock for coccolithophores and implications for selectivity of phytoplankton extinctions across the K/T boundary
journal, April 2008


Morphology, Ploidy, Pigment Composition, and Genome size of Cultured Strains of Phaeocystis (Prymnesiophyceae)1
journal, December 1994


TopHat: discovering splice junctions with RNA-Seq
journal, March 2009


Adjusted Light and Dark Cycles Can Optimize Photosynthetic Efficiency in Algae Growing in Photobioreactors
journal, June 2012


Move It on Out with MATEs
journal, July 2001


Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
journal, August 2005


Microbial rhodopsins: functional versatility and genetic mobility
journal, November 2006

  • Sharma, Adrian K.; Spudich, John L.; Doolittle, W. Ford
  • Trends in Microbiology, Vol. 14, Issue 11
  • DOI: 10.1016/j.tim.2006.09.006

The life-cycle of Emiliania huxleyi: A brief review and a study of relative ploidy levels analysed by flow cytometry
journal, October 1996


RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
journal, August 2006


The tree of eukaryotes
journal, December 2005

  • Keeling, Patrick J.; Burger, Gertraud; Durnford, Dion G.
  • Trends in Ecology & Evolution, Vol. 20, Issue 12
  • DOI: 10.1016/j.tree.2005.09.005

The genome of Salinibacter ruber: Convergence and gene exchange among hyperhalophilic bacteria and archaea
journal, December 2005

  • Mongodin, E. F.; Nelson, K. E.; Daugherty, S.
  • Proceedings of the National Academy of Sciences, Vol. 102, Issue 50
  • DOI: 10.1073/pnas.0509073102

Ribosomal DNA phylogenies and a morphological revision provide the basis for a revised taxonomy of the Prymnesiales (Haptophyta)
journal, August 2011


Hybrid Peptide–Polyketide Natural Products: Biosynthesis and Prospects toward Engineering Novel Molecules
journal, January 2001

  • Du, Liangcheng; Sánchez, César; Shen, Ben
  • Metabolic Engineering, Vol. 3, Issue 1
  • DOI: 10.1006/mben.2000.0171

The MATE proteins as fundamental transporters of metabolic and xenobiotic organic cations
journal, November 2006

  • Omote, Hiroshi; Hiasa, Miki; Matsumoto, Takuya
  • Trends in Pharmacological Sciences, Vol. 27, Issue 11
  • DOI: 10.1016/j.tips.2006.09.001

CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes
journal, March 2007


Regulation of CaCO3 formation in coccolithophores
journal, December 2003

  • Marsh, M. E.
  • Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, Vol. 136, Issue 4
  • DOI: 10.1016/S1096-4959(03)00180-5

Biosynthesis of Nonribosomal Peptides
journal, October 2004


Physiological regulation of carbon fixation in the photosynthesis and calcification of coccolithophorids
journal, December 2003

  • Shiraiwa, Yoshihiro
  • Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, Vol. 136, Issue 4
  • DOI: 10.1016/S1096-4959(03)00221-5

Avogadro: an advanced semantic chemical editor, visualization, and analysis platform
journal, August 2012

  • Hanwell, Marcus D.; Curtis, Donald E.; Lonie, David C.
  • Journal of Cheminformatics, Vol. 4, Issue 1
  • DOI: 10.1186/1758-2946-4-17

Manipulation of FASTQ data with Galaxy
journal, June 2010


    Works referencing / citing this record:

    Diurnal Transcriptional Regulation of Endosymbiotically Derived Genes in the Chlorarachniophyte Bigelowiella natans
    journal, August 2016

    • Suzuki, Shigekatsu; Ishida, Ken-Ichiro; Hirakawa, Yoshihisa
    • Genome Biology and Evolution, Vol. 8, Issue 9
    • DOI: 10.1093/gbe/evw188