Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae
Abstract
Two non-homologous, isofunctional enzymes catalyze the penultimate step of chlorophyll a synthesis in oxygenic photosynthetic organisms such as cyanobacteria, eukaryotic algae and land plants: the light independent (LIPOR) and light-dependent (POR) protochlorophyllide oxidoreductases. Whereas the distribution of these enzymes in cyanobacteria and land plants is well understood, the presence, loss, duplication, and replacement of these genes have not been surveyed in the polyphyletic and remarkably diverse eukaryotic algal lineages.
- Authors:
-
- Univ. of Washington, Seattle, WA (United States)
- Publication Date:
- Research Org.:
- National Alliance for Advanced Biofuels and Bioproducts, Washington, DC (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1188407
- Grant/Contract Number:
- EE0003046
- Resource Type:
- Accepted Manuscript
- Journal Name:
- BMC Evolutionary Biology (Online)
- Additional Journal Information:
- Journal Name: BMC Evolutionary Biology (Online); Journal Volume: 15; Journal Issue: 1; Journal ID: ISSN 1471-2148
- Publisher:
- BioMed Central
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; chlorophyll synthesis; horizontal gene transfer; endosymbiotic gene transfer; gene duplication; algae protochlorophyllide
Citation Formats
Hunsperger, Heather M., Randhawa, Tejinder, and Cattolico, Rose Ann. Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae. United States: N. p., 2015.
Web. doi:10.1186/s12862-015-0286-4.
Hunsperger, Heather M., Randhawa, Tejinder, & Cattolico, Rose Ann. Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae. United States. https://doi.org/10.1186/s12862-015-0286-4
Hunsperger, Heather M., Randhawa, Tejinder, and Cattolico, Rose Ann. Tue .
"Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae". United States. https://doi.org/10.1186/s12862-015-0286-4. https://www.osti.gov/servlets/purl/1188407.
@article{osti_1188407,
title = {Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae},
author = {Hunsperger, Heather M. and Randhawa, Tejinder and Cattolico, Rose Ann},
abstractNote = {Two non-homologous, isofunctional enzymes catalyze the penultimate step of chlorophyll a synthesis in oxygenic photosynthetic organisms such as cyanobacteria, eukaryotic algae and land plants: the light independent (LIPOR) and light-dependent (POR) protochlorophyllide oxidoreductases. Whereas the distribution of these enzymes in cyanobacteria and land plants is well understood, the presence, loss, duplication, and replacement of these genes have not been surveyed in the polyphyletic and remarkably diverse eukaryotic algal lineages.},
doi = {10.1186/s12862-015-0286-4},
journal = {BMC Evolutionary Biology (Online)},
number = 1,
volume = 15,
place = {United States},
year = {Tue Feb 10 00:00:00 EST 2015},
month = {Tue Feb 10 00:00:00 EST 2015}
}
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Cited by: 37 works
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Figures / Tables:
Figure 1: Comparison of the POR and LIPOR enzymes. The second to last step of chlorophyll synthesis can be catalyzed by either a light-dependent (POR) or light-independent (LIPOR) protochlorophyllide oxidoreductase (figure after [2,3]).
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Works referenced in this record:
Chromalveolate plastids: direct descent or multiple endosymbioses?
journal, March 2009
- Bodył, Andrzej; Stiller, John W.; Mackiewicz, Paweł
- Trends in Ecology & Evolution, Vol. 24, Issue 3
Crystal Structure of the Nitrogenase-like Dark Operative Protochlorophyllide Oxidoreductase Catalytic Complex (ChlN/ChlB) 2
journal, June 2010
- Bröcker, Markus J.; Schomburg, Sebastian; Heinz, Dirk W.
- Journal of Biological Chemistry, Vol. 285, Issue 35
A Molecular Timeline for the Origin of Photosynthetic Eukaryotes
journal, May 2004
- Yoon, Hwan Su; Hackett, Jeremiah D.; Ciniglia, Claudia
- Molecular Biology and Evolution, Vol. 21, Issue 5
A prokaryotic origin for light-dependent chlorophyll biosynthesis of plants.
journal, April 1995
- Suzuki, J. Y.; Bauer, C. E.
- Proceedings of the National Academy of Sciences, Vol. 92, Issue 9
Reconstitution of Light-independent Protochlorophyllide Reductase from Purified Bchl and BchN-BchB Subunits
journal, May 2000
- Fujita, Yuichi; Bauer, Carl E.
- Journal of Biological Chemistry, Vol. 275, Issue 31
A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach
journal, May 2001
- Whelan, Simon; Goldman, Nick
- Molecular Biology and Evolution, Vol. 18, Issue 5
Dinoflagellates: a remarkable evolutionary experiment
journal, October 2004
- Hackett, Jeremiah D.; Anderson, Donald M.; Erdner, Deana L.
- American Journal of Botany, Vol. 91, Issue 10
Origins of the secondary plastids of Euglenophyta and Chlorarachniophyta as revealed by an analysis of the plastid-targeting, nuclear-encoded gene psbO 1
journal, December 2007
- Takahashi, Fumio; Okabe, Yugo; Nakada, Takashi
- Journal of Phycology, Vol. 43, Issue 6
Genomic Footprints of a Cryptic Plastid Endosymbiosis in Diatoms
journal, June 2009
- Moustafa, A.; Beszteri, B.; Maier, U. G.
- Science, Vol. 324, Issue 5935
Photoactive pigment—enzyme complexes of chlorophyll precursor in plant leaves
journal, December 2007
- Belyaeva, O. B.; Litvin, F. F.
- Biochemistry (Moscow), Vol. 72, Issue 13
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
journal, August 2006
- Stamatakis, Alexandros
- Bioinformatics, Vol. 22, Issue 21
ANALYSIS OF ALEXANDRIUM TAMARENSE (DINOPHYCEAE) GENES REVEALS THE COMPLEX EVOLUTIONARY HISTORY OF A MICROBIAL EUKARYOTE 1 : HORIZONTAL GENE TRANSFER IN DINOFLAGELLATES
journal, June 2012
- Chan, Cheong Xin; Soares, Marcelo B.; Bonaldo, Maria F.
- Journal of Phycology, Vol. 48, Issue 5
Assessing the bacterial contribution to the plastid proteome
journal, December 2013
- Qiu, Huan; Price, Dana C.; Weber, Andreas P. M.
- Trends in Plant Science, Vol. 18, Issue 12
The Cryptomonad Nucleomorph: its Ultrastructure and Evolutionary Significance1
journal, December 1980
- Gillott, Marcelle A.; Gibbs, Sarah P.
- Journal of Phycology, Vol. 16, Issue 4
Cryogenic and Laser Photoexcitation Studies Identify Multiple Roles for Active Site Residues in the Light-driven Enzyme Protochlorophyllide Oxidoreductase
journal, May 2009
- Menon, Binuraj R. K.; Waltho, Jonathan P.; Scrutton, Nigel S.
- Journal of Biological Chemistry, Vol. 284, Issue 27
Data from: Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae [Supplemental Data]
dataset, March 2015
- Hunsperger, H. M.; Randhawa, T.; Cattolico, R. A.
- Dryad Digital Repository, 1 txt file (88.21 Kb), 1 txt file (55.24 Kb), 1 txt file (17 Kb), 1 Excel file (44.48 Kb), 1 Excel file (12.66 Kb)
A complex and punctate distribution of three eukaryotic genes derived by lateral gene transfer
journal, January 2007
- Rogers, Matthew B.; Watkins, Russell F.; Harper, James T.
- BMC Evolutionary Biology, Vol. 7, Issue 1
Horizontal gene transfer among genomes: The complexity hypothesis
journal, March 1999
- Jain, R.; Rivera, M. C.; Lake, J. A.
- Proceedings of the National Academy of Sciences, Vol. 96, Issue 7
A light-dependent complementation system for analysis of NADPH:protochlorophyllide oxidoreductase: identification and mutagenesis of two conserved residues that are essential for enzyme activity.
journal, January 1995
- Wilks, H. M.; Timko, M. P.
- Proceedings of the National Academy of Sciences, Vol. 92, Issue 3
ProtTest: selection of best-fit models of protein evolution
journal, January 2005
- Abascal, F.; Zardoya, R.; Posada, D.
- Bioinformatics, Vol. 21, Issue 9
Chlorophyll c–Containing Plastid Relationships Based on Analyses of a Multigene Data Set with All Four Chromalveolate Lineages
journal, May 2005
- Bachvaroff, Tsvetan R.; Sanchez Puerta, M. Virginia; Delwiche, Charles F.
- Molecular Biology and Evolution, Vol. 22, Issue 9
An Integrated Analysis of Molecular Acclimation to High Light in the Marine Diatom Phaeodactylum tricornutum
journal, November 2009
- Nymark, Marianne; Valle, Kristin C.; Brembu, Tore
- PLoS ONE, Vol. 4, Issue 11
Protochlorophyllide Reduction: Mechanisms and Evolution¶
journal, January 2003
- Schoefs, Benoît; Franck, Fabrice
- Photochemistry and Photobiology, Vol. 78, Issue 6
Oxygen Sensitivity of a Nitrogenase-like Protochlorophyllide Reductase from the Cyanobacterium Leptolyngbya boryana
journal, July 2009
- Yamamoto, H.; Kurumiya, S.; Ohashi, R.
- Plant and Cell Physiology, Vol. 50, Issue 9
A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids
journal, June 2010
- Janouskovec, J.; Horak, A.; Obornik, M.
- Proceedings of the National Academy of Sciences, Vol. 107, Issue 24
How big is the iceberg of which organellar genes in nuclear genomes are but the tip?
journal, January 2003
- Doolittle, W. F.; Boucher, Y.; NesbØ, C. L.
- Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences, Vol. 358, Issue 1429
The Chloroplast Genomes of the Green Algae Pyramimonas, Monomastix, and Pycnococcus Shed New light on the Evolutionary History of Prasinophytes and the Origin of the Secondary Chloroplasts of Euglenids
journal, December 2008
- Turmel, Monique; Gagnon, Marie-Christine; O'Kelly, Charley J.
- Molecular Biology and Evolution, Vol. 26, Issue 3
Re-evaluating the Green versus Red Signal in Eukaryotes with Secondary Plastid of Red Algal Origin
journal, January 2012
- Burki, Fabien; Flegontov, Pavel; Oborník, Miroslav
- Genome Biology and Evolution, Vol. 4, Issue 6
A Time line of the Environmental Genetics of the Haptophytes
journal, September 2009
- Liu, Hui; Aris-Brosou, Stéphane; Probert, Ian
- Molecular Biology and Evolution, Vol. 27, Issue 1
NB-protein (BchN-BchB) of dark-operative protochlorophyllide reductase is the catalytic component containing oxygen-tolerant Fe-S clusters
journal, March 2008
- Nomata, Jiro; Ogawa, Takuro; Kitashima, Masaharu
- FEBS Letters, Vol. 582, Issue 9
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
Phylogenomic Analysis of “Red” Genes from Two Divergent Species of the “Green” Secondary Phototrophs, the Chlorarachniophytes, Suggests Multiple Horizontal Gene Transfers from the Red Lineage before the Divergence of Extant Chlorarachniophytes
journal, June 2014
- Yang, Yi; Matsuzaki, Motomichi; Takahashi, Fumio
- PLoS ONE, Vol. 9, Issue 6
Horizontal Gene Transfer and Redundancy of Tryptophan Biosynthetic Enzymes in Dinotoms
journal, January 2014
- Imanian, Behzad; Keeling, Patrick J.
- Genome Biology and Evolution, Vol. 6, Issue 2
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus
journal, September 2002
- Martin, W.; Rujan, T.; Richly, E.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 19
Do Plastid-Related Characters Support the Chromalveolate Hypothesis?1: Chromalveolate Hypothesis
journal, June 2005
- Bodył, Andrzej
- Journal of Phycology, Vol. 41, Issue 3
Evolutionary Dynamics of Light-Independent Protochlorophyllide Oxidoreductase Genes in the Secondary Plastids of Cryptophyte Algae
journal, January 2008
- Fong, Anna; Archibald, John M.
- Eukaryotic Cell, Vol. 7, Issue 3
High Expression Hampers Horizontal Gene Transfer
journal, January 2012
- Park, Chungoo; Zhang, Jianzhi
- Genome Biology and Evolution, Vol. 4, Issue 4
A HYPOTHESIS FOR PLASTID EVOLUTION IN CHROMALVEOLATES 1
journal, October 2008
- Sanchez-Puerta, M. Virginia; Delwiche, Charles F.
- Journal of Phycology, Vol. 44, Issue 5
A Tertiary Plastid Uses Genes from Two Endosymbionts
journal, April 2006
- Patron, Nicola J.; Waller, Ross F.; Keeling, Patrick J.
- Journal of Molecular Biology, Vol. 357, Issue 5
Dynamic model of phytoplankton growth and acclimation:responses of the balanced growth rate and the chlorophyll a:carbon ratio to light, nutrient-limitation and temperature
journal, January 1997
- Geider, Rj; MacIntyre, Hl; Kana, Tm
- Marine Ecology Progress Series, Vol. 148
MrBayes 3: Bayesian phylogenetic inference under mixed models
journal, August 2003
- Ronquist, Fredrik; Huelsenbeck, John P.
- Bioinformatics, Vol. 19, Issue 12, p. 1572-1574
The light intensity dependence of protochlorophyllide photoconversion and its significance to the catalytic mechanism of protochlorophyllide reductase
journal, December 1996
- Griffiths, W. Trevor; McHugh, Thomas; Blankenship, Robert E.
- FEBS Letters, Vol. 398, Issue 2-3
ProtTest: selection of best-fit models of protein evolution
journal, January 2005
- Abascal, F.; Zardoya, R.; Posada, D.
- Bioinformatics, Vol. 21, Issue 9
A Plastid in the Making: Evidence for a Second Primary Endosymbiosis
journal, December 2005
- Marin, Birger; M. Nowack, Eva C.; Melkonian, Michael
- Protist, Vol. 156, Issue 4
A Molecular Timeline for the Origin of Photosynthetic Eukaryotes
journal, May 2004
- Yoon, Hwan Su; Hackett, Jeremiah D.; Ciniglia, Claudia
- Molecular Biology and Evolution, Vol. 21, Issue 5
Dinoflagellates: a remarkable evolutionary experiment
journal, October 2004
- Hackett, Jeremiah D.; Anderson, Donald M.; Erdner, Deana L.
- American Journal of Botany, Vol. 91, Issue 10
An Integrated Analysis of Molecular Acclimation to High Light in the Marine Diatom Phaeodactylum tricornutum
journal, November 2009
- Nymark, Marianne; Valle, Kristin C.; Brembu, Tore
- PLoS ONE, Vol. 4, Issue 11
Phylogenetic history of plastid-targeted proteins in the peridinin-containing dinoflagellate Heterocapsa triquetra
journal, June 2006
- Waller, R. F.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 56, Issue 6
The Complexity Hypothesis Revisited: Connectivity Rather Than Function Constitutes a Barrier to Horizontal Gene Transfer
journal, December 2010
- Cohen, O.; Gophna, U.; Pupko, T.
- Molecular Biology and Evolution, Vol. 28, Issue 4
Flavodoxin Expression as an Indicator of iron Limitation in Marine Diatoms1
journal, August 1995
- Roche, Julie La; Murray, Helen; Orellana, Monica
- Journal of Phycology, Vol. 31, Issue 4
A prokaryotic origin for light-dependent chlorophyll biosynthesis of plants.
journal, April 1995
- Suzuki, J. Y.; Bauer, C. E.
- Proceedings of the National Academy of Sciences, Vol. 92, Issue 9
A Tertiary Plastid Uses Genes from Two Endosymbionts
journal, April 2006
- Patron, Nicola J.; Waller, Ross F.; Keeling, Patrick J.
- Journal of Molecular Biology, Vol. 357, Issue 5
A complex and punctate distribution of three eukaryotic genes derived by lateral gene transfer
text, January 2007
- Rogers, Matthew B.; Watkins, Russell F.; Harper, James T.
- BioMed Central
Differential Operation of Dual Protochlorophyllide Reductases for Chlorophyll Biosynthesis in Response to Environmental Oxygen Levels in the Cyanobacterium Leptolyngbya boryana
journal, October 2006
- Yamazaki, Shoji; Nomata, Jiro; Fujita, Yuichi
- Plant Physiology, Vol. 142, Issue 3
Chlorophyll c–Containing Plastid Relationships Based on Analyses of a Multigene Data Set with All Four Chromalveolate Lineages
journal, May 2005
- Bachvaroff, Tsvetan R.; Sanchez Puerta, M. Virginia; Delwiche, Charles F.
- Molecular Biology and Evolution, Vol. 22, Issue 9
Tyr275 and Lys279 Stabilize NADPH within the Catalytic Site of NADPH:Protochlorophyllide Oxidoreductase and Are Involved in the Formation of the Enzyme Photoactive State †
journal, October 2001
- Lebedev, Nikolai; Karginova, Olga; McIvor, Wilson
- Biochemistry, Vol. 40, Issue 42
Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton
journal, July 2010
- Cuvelier, M. L.; Allen, A. E.; Monier, A.
- Proceedings of the National Academy of Sciences, Vol. 107, Issue 33
Reevaluating the Green Contribution to Diatom Genomes
journal, January 2012
- Deschamps, Philippe; Moreira, David
- Genome Biology and Evolution, Vol. 4, Issue 7
Prediction of complete gene structures in human genomic DNA
journal, April 1997
- Burge, Chris; Karlin, Samuel
- Journal of Molecular Biology, Vol. 268, Issue 1
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
journal, June 2014
- Keeling, Patrick J.; Burki, Fabien; Wilcox, Heather M.
- PLoS Biology, Vol. 12, Issue 6
Behavioral and Physiological Changes during Benthic-Pelagic Transition in the Harmful Alga, Heterosigma akashiwo: Potential for Rapid Bloom Formation
journal, October 2013
- Tobin, Elizabeth D.; Grünbaum, Daniel; Patterson, Johnathan
- PLoS ONE, Vol. 8, Issue 10
Monophyly of Primary Photosynthetic Eukaryotes: Green Plants, Red Algae, and Glaucophytes
journal, July 2005
- Rodríguez-Ezpeleta, Naiara; Brinkmann, Henner; Burey, Suzanne C.
- Current Biology, Vol. 15, Issue 14
Chlorophyll Biosynthesis Gene Evolution Indicates Photosystem Gene Duplication, Not Photosystem Merger, at the Origin of Oxygenic Photosynthesis
journal, December 2012
- Sousa, Filipa L.; Shavit-Grievink, Liat; Allen, John F.
- Genome Biology and Evolution, Vol. 5, Issue 1
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
Genome-wide identification and expression analysis of the plant specific LIM genes in Gossypium arboreum under phytohormone, salt and pathogen stress
journal, April 2021
- Raghavendra, K. P.; Das, J.; Kumar, R.
- Scientific Reports, Vol. 11, Issue 1
Oxygen Sensitivity of a Nitrogenase-like Protochlorophyllide Reductase from the Cyanobacterium Leptolyngbya boryana
journal, July 2009
- Yamamoto, H.; Kurumiya, S.; Ohashi, R.
- Plant and Cell Physiology, Vol. 50, Issue 9
How big is the iceberg of which organellar genes in nuclear genomes are but the tip?
journal, January 2003
- Doolittle, W. F.; Boucher, Y.; NesbØ, C. L.
- Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences, Vol. 358, Issue 1429
Horizontal Gene Transfer is a Significant Driver of Gene Innovation in Dinoflagellates
journal, November 2013
- Wisecaver, Jennifer H.; Brosnahan, Michael L.; Hackett, Jeremiah D.
- Genome Biology and Evolution, Vol. 5, Issue 12
An efficient and economic enhancer mix for PCR
journal, September 2006
- Ralser, Markus; Querfurth, Robert; Warnatz, Hans-Jörg
- Biochemical and Biophysical Research Communications, Vol. 347, Issue 3, p. 747-751
Supermatrix Data Highlight the Phylogenetic Relationships of Photosynthetic Stramenopiles
journal, March 2012
- Yang, Eun Chan; Boo, Ga Hun; Kim, Hee Jeong
- Protist, Vol. 163, Issue 2
Phylogenetic relationships of the ‘golden algae’ (haptophytes, heterokont chromophytes) and their plastids
book, January 1997
- Medlin, Linda K.; Kooistra, Wiebe H. C. F.; Potter, Daniel
- Plant Systematics and Evolution
The genomics of symbiosis: Hosts keep the baby and the bath water
journal, September 2002
- Palenik, Brian
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 19
High Expression Hampers Horizontal Gene Transfer
journal, January 2012
- Park, Chungoo; Zhang, Jianzhi
- Genome Biology and Evolution, Vol. 4, Issue 4
Comment on “Catalytic Efficiency of a Photoenzyme-An Adaptation to Natural Light Conditions” by J. Popp et al.
journal, May 2013
- Björn, Lars Olof
- ChemPhysChem, Vol. 14, Issue 11
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
text, January 2014
- Keeling, Patrick J.; Burki, Fabien; Wilcox, Heather M.
- Columbia University
Horizontal Gene Transfer and Redundancy of Tryptophan Biosynthetic Enzymes in Dinotoms
journal, January 2014
- Imanian, Behzad; Keeling, Patrick J.
- Genome Biology and Evolution, Vol. 6, Issue 2
Transcriptome analysis reveals nuclear-encoded proteins for the maintenance of temporary plastids in the dinoflagellate Dinophysis acuminata
journal, January 2010
- Wisecaver, Jennifer H.; Hackett, Jeremiah D.
- BMC Genomics, Vol. 11, Issue 1
Medium- and short-chain dehydrogenase/reductase gene and protein families: Medium-chain and short-chain dehydrogenases/reductases in retinoid metabolism
journal, November 2008
- Parés, X.; Farrés, J.; Kedishvili, N.
- Cellular and Molecular Life Sciences, Vol. 65, Issue 24
The Chloroplast Genomes of the Green Algae Pyramimonas, Monomastix, and Pycnococcus Shed New light on the Evolutionary History of Prasinophytes and the Origin of the Secondary Chloroplasts of Euglenids
journal, December 2008
- Turmel, Monique; Gagnon, Marie-Christine; O'Kelly, Charley J.
- Molecular Biology and Evolution, Vol. 26, Issue 3
A Time line of the Environmental Genetics of the Haptophytes
journal, September 2009
- Liu, Hui; Aris-Brosou, Stéphane; Probert, Ian
- Molecular Biology and Evolution, Vol. 27, Issue 1
After the primary endosymbiosis: an update on the chromalveolate hypothesis and the origins of algae with Chl c
journal, July 2010
- Green, Beverley R.
- Photosynthesis Research, Vol. 107, Issue 1
Nonlinear partial differential equations and applications: From the Cover: The single, ancient origin of chromist plastids
journal, November 2002
- Yoon, H. S.; Hackett, J. D.; Pinto, G.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 24
Acclimation of photosynthesis to irradiance and spectral quality in British plant species: chlorophyll content, photosynthetic capacity and habitat preference
journal, April 1997
- Murchie, E. H.; Horton, P.
- Plant, Cell and Environment, Vol. 20, Issue 4
A molecular time-scale for eukaryote evolution recalibrated with the continuous microfossil record
journal, April 2006
- Berney, Cédric; Pawlowski, Jan
- Proceedings of the Royal Society B: Biological Sciences, Vol. 273, Issue 1596
The Isolation and Spectral Absorption Properties of Protochlorophyll from Etiolated Barley Seedlings
journal, November 1948
- Koski, Violet M.; Smith, James H. C.
- Journal of the American Chemical Society, Vol. 70, Issue 11
Response to the Comments by L. O. Björn on our Paper “Catalytic Efficiency of a Photoenzyme-An Adaptation to Natural Light Conditions”
journal, May 2013
- Hermann, Gudrun; Schmitt, Michael; Dietzek, Benjamin
- ChemPhysChem, Vol. 14, Issue 11
Chromera velia, Endosymbioses and the Rhodoplex Hypothesis—Plastid Evolution in Cryptophytes, Alveolates, Stramenopiles, and Haptophytes (CASH Lineages)
journal, February 2014
- Petersen, Jörn; Ludewig, Ann-Kathrin; Michael, Victoria
- Genome Biology and Evolution, Vol. 6, Issue 3
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
journal, June 2014
- Keeling, Patrick J.; Burki, Fabien; Wilcox, Heather M.
- PLoS Biology, Vol. 12, Issue 6
Dynamic model of phytoplankton growth and acclimation:responses of the balanced growth rate and the chlorophyll a:carbon ratio to light, nutrient-limitation and temperature
journal, January 1997
- Geider, Rj; MacIntyre, Hl; Kana, Tm
- Marine Ecology Progress Series, Vol. 148
Evolution and Functional Diversification of Fructose Bisphosphate Aldolase Genes in Photosynthetic Marine Diatoms
journal, September 2011
- Allen, Andrew E.; Moustafa, Ahmed; Montsant, Anton
- Molecular Biology and Evolution, Vol. 29, Issue 1
Lotharella reticulosa sp. nov.: A Highly Reticulated Network Forming Chlorarachniophyte from the Mediterranean Sea
journal, January 2012
- Ota, Shuhei; Vaulot, Daniel
- Protist, Vol. 163, Issue 1
Secondary structure of NADPH: protochlorophyllide oxidoreductase examined by circular dichroism and prediction methods*
journal, July 1996
- Birve, Simon J.; Selstam, Eva; Johansson, Lennart B. -Å.
- Biochemical Journal, Vol. 317, Issue 2
Monophyly of Primary Photosynthetic Eukaryotes: Green Plants, Red Algae, and Glaucophytes
journal, July 2005
- Rodríguez-Ezpeleta, Naiara; Brinkmann, Henner; Burey, Suzanne C.
- Current Biology, Vol. 15, Issue 14
Medium- and short-chain dehydrogenase/reductase gene and protein families: The SDR superfamily: functional and structural diversity within a family of metabolic and regulatory enzymes
journal, November 2008
- Kavanagh, K. L.; Jörnvall, H.; Persson, B.
- Cellular and Molecular Life Sciences, Vol. 65, Issue 24
Nitrogenase Fe protein-like Fe-S cluster is conserved in L-protein (BchL) of dark-operative protochlorophyllide reductase from Rhodobacter capsulatus
journal, October 2006
- Nomata, Jiro; Kitashima, Masaharu; Inoue, Kazuhito
- FEBS Letters, Vol. 580, Issue 26
Sorting wheat from chaff in multi-gene analyses of chlorophyll c-containing plastids
journal, August 2007
- Sanchez-Puerta, M. Virginia; Bachvaroff, Tsvetan R.; Delwiche, Charles F.
- Molecular Phylogenetics and Evolution, Vol. 44, Issue 2
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
Oceanographic and Biogeochemical Insights from Diatom Genomes
journal, January 2010
- Bowler, Chris; Vardi, Assaf; Allen, Andrew E.
- Annual Review of Marine Science, Vol. 2, Issue 1
The Complete Chloroplast Genome of the Chlorarachniophyte Bigelowiella natans: Evidence for Independent Origins of Chlorarachniophyte and Euglenid Secondary Endosymbionts
journal, September 2006
- Rogers, Matthew B.; Gilson, Paul R.; Su, Vanessa
- Molecular Biology and Evolution, Vol. 24, Issue 1
Cloning of the Gene Encoding a Protochlorophyllide Reductase: the Physiological Significance of the Co-Existence of Light-Dependent and -Independent Protochlorophyllide Reduction Systems in the Cyanobacterium Plectonema boryanum
journal, February 1998
- Fujita, Y.; Takagi, H.; Hase, T.
- Plant and Cell Physiology, Vol. 39, Issue 2
Plastid genomes of two brown algae, Ectocarpus siliculosus and Fucus vesiculosus: further insights on the evolution of red-algal derived plastids
journal, January 2009
- Le Corguillé, Gildas; Pearson, Gareth; Valente, Marta
- BMC Evolutionary Biology, Vol. 9, Issue 1
Phylogenomic Evidence for Separate Acquisition of Plastids in Cryptophytes, Haptophytes, and Stramenopiles
journal, March 2010
- Baurain, D.; Brinkmann, H.; Petersen, J.
- Molecular Biology and Evolution, Vol. 27, Issue 7
Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs
journal, November 2012
- Curtis, Bruce A.; Tanifuji, Goro; Burki, Fabien
- Nature, Vol. 492, Issue 7427
Heterotachy Processes in Rhodophyte-Derived Secondhand Plastid Genes: Implications for Addressing the Origin and Evolution of Dinoflagellate Plastids
journal, May 2006
- Shalchian-Tabrizi, Kamran; Skånseng, Marianne; Ronquist, Fredrik
- Molecular Biology and Evolution, Vol. 23, Issue 8
Plastid Genome Sequence of the Cryptophyte Alga Rhodomonas salina CCMP1319: Lateral Transfer of Putative DNA Replication Machinery and a Test of Chromist Plastid Phylogeny
journal, April 2007
- Khan, H.; Parks, N.; Kozera, C.
- Molecular Biology and Evolution, Vol. 24, Issue 8
The origin of red algae: Implications for plastid evolution
journal, April 1997
- Stiller, J. W.; Hall, B. D.
- Proceedings of the National Academy of Sciences, Vol. 94, Issue 9
Gene Transfer: Gene Swapping Craze Reaches Eukaryotes
journal, January 2003
- Gogarten, J. Peter
- Current Biology, Vol. 13, Issue 2
X-ray crystal structure of the light-independent protochlorophyllide reductase
journal, May 2010
- Muraki, Norifumi; Nomata, Jiro; Ebata, Kozue
- Nature, Vol. 465, Issue 7294
Discovery of the first light-dependent protochlorophyllide oxidoreductase in anoxygenic phototrophic bacteria: A genuine LPOR in anoxygenic phototrophic bacteria
journal, August 2014
- Kaschner, Marco; Loeschcke, Anita; Krause, Judith
- Molecular Microbiology, Vol. 93, Issue 5
The Pinguiophyceae classis nova, a new class of photosynthetic stramenopiles whose members produce large amounts of omega-3 fatty acids
journal, March 2002
- Kawachi, Masanobu; Inouye, Isao; Honda, Daiske
- Phycological Research, Vol. 50, Issue 1
An efficient and economic enhancer mix for PCR
journal, September 2006
- Ralser, Markus; Querfurth, Robert; Warnatz, Hans-Jörg
- Biochemical and Biophysical Research Communications, Vol. 347, Issue 3, p. 747-751
Making light work of enzyme catalysis: protochlorophyllide oxidoreductase
journal, November 2005
- Heyes, Derren J.; Hunter, C. Neil
- Trends in Biochemical Sciences, Vol. 30, Issue 11
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
Why some clades have low bootstrap frequencies and high Bayesian posterior probabilities
journal, May 2014
- García-Sandoval, Ricardo
- Israel Journal of Ecology and Evolution, Vol. 60, Issue 1
X-ray crystal structure of the light-independent protochlorophyllide reductase
journal, May 2010
- Muraki, Norifumi; Nomata, Jiro; Ebata, Kozue
- Nature, Vol. 465, Issue 7294
Green-colored Plastids in the Dinoflagellate Genus Lepidodinium are of Core Chlorophyte Origin
journal, April 2011
- Matsumoto, Takuya; Shinozaki, Fumihiko; Chikuni, Tomoko
- Protist, Vol. 162, Issue 2
An exceptional horizontal gene transfer in plastids: gene replacement by a distant bacterial paralog and evidence that haptophyte and cryptophyte plastids are sisters
journal, September 2006
- Rice, Danny W.; Palmer, Jeffrey D.
- BMC Biology, Vol. 4, Issue 1
Protochlorophyllide Reduction: Mechanisms and Evolution¶
journal, December 2003
- Schoefs, Benoît; Franck, Fabrice
- Photochemistry and Photobiology, Vol. 78, Issue 6
Induction of Specific Proteins in Eukaryotic Algae Grown Under Iron-, Phosphorus-, or Nitrogen-Deficient Conditions1
journal, December 1993
- Roche, Julie; Geider, Richard J.; Graziano, Lisa M.
- Journal of Phycology, Vol. 29, Issue 6
Catalytic Efficiency of a Photoenzyme-An Adaptation to Natural Light Conditions
journal, April 2012
- Hanf, Robert; Fey, Sonja; Schmitt, Michael
- ChemPhysChem, Vol. 13, Issue 8
Genomic evidence for two functionally distinct gene classes
journal, May 1998
- Rivera, M. C.; Jain, R.; Moore, J. E.
- Proceedings of the National Academy of Sciences, Vol. 95, Issue 11
Horizontal gene transfer among genomes: The complexity hypothesis
journal, March 1999
- Jain, R.; Rivera, M. C.; Lake, J. A.
- Proceedings of the National Academy of Sciences, Vol. 96, Issue 7
Greening in the dark: light-independent chlorophyll biosynthesis from anoxygenic photosynthetic bacteria to gymnosperms
journal, May 1998
- Armstrong, Gregory A.
- Journal of Photochemistry and Photobiology B: Biology, Vol. 43, Issue 2
A “Green” Phosphoribulokinase in Complex Algae with Red Plastids: Evidence for a Single Secondary Endosymbiosis Leading to Haptophytes, Cryptophytes, Heterokonts, and Dinoflagellates
journal, February 2006
- Petersen, Jörn; Teich, René; Brinkmann, Henner
- Journal of Molecular Evolution, Vol. 62, Issue 2
Iron-Induced Changes in Light Harvesting and Photochemical Energy Conversion Processes in Eukaryotic Marine Algae
journal, October 1992
- Greene, Richard M.; Geider, Richard J.; Kolber, Zbigniew
- Plant Physiology, Vol. 100, Issue 2
Ancient Recruitment by Chromists of Green Algal Genes Encoding Enzymes for Carotenoid Biosynthesis
journal, August 2008
- Frommolt, R.; Werner, S.; Paulsen, H.
- Molecular Biology and Evolution, Vol. 25, Issue 12
Red and Problematic Green Phylogenetic Signals among Thousands of Nuclear Genes from the Photosynthetic and Apicomplexa-Related Chromera velia
journal, January 2011
- Woehle, Christian; Dagan, Tal; Martin, William F.
- Genome Biology and Evolution, Vol. 3
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
Genomic Footprints of a Cryptic Plastid Endosymbiosis in Diatoms
journal, June 2009
- Moustafa, A.; Beszteri, B.; Maier, U. G.
- Science, Vol. 324, Issue 5935
Phylogenetic history of plastid-targeted proteins in the peridinin-containing dinoflagellate Heterocapsa triquetra
journal, June 2006
- Waller, R. F.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 56, Issue 6
Assessing the bacterial contribution to the plastid proteome
journal, December 2013
- Qiu, Huan; Price, Dana C.; Weber, Andreas P. M.
- Trends in Plant Science, Vol. 18, Issue 12
A light-dependent complementation system for analysis of NADPH:protochlorophyllide oxidoreductase: identification and mutagenesis of two conserved residues that are essential for enzyme activity.
journal, January 1995
- Wilks, H. M.; Timko, M. P.
- Proceedings of the National Academy of Sciences, Vol. 92, Issue 3
Are Red Algae Plants? A Critical Evaluation of Three Key Molecular Data Sets
journal, June 2001
- Stiller, John W.; Riley, Jennifer; Hall, Benjamin D.
- Journal of Molecular Evolution, Vol. 52, Issue 6
The Isolation and Spectral Absorption Properties of Protochlorophyll from Etiolated Barley Seedlings
journal, November 1948
- Koski, Violet M.; Smith, James H. C.
- Journal of the American Chemical Society, Vol. 70, Issue 11
A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach
journal, May 2001
- Whelan, Simon; Goldman, Nick
- Molecular Biology and Evolution, Vol. 18, Issue 5
Chromera velia, Endosymbioses and the Rhodoplex Hypothesis—Plastid Evolution in Cryptophytes, Alveolates, Stramenopiles, and Haptophytes (CASH Lineages)
journal, February 2014
- Petersen, Jörn; Ludewig, Ann-Kathrin; Michael, Victoria
- Genome Biology and Evolution, Vol. 6, Issue 3
Lotharella reticulosa sp. nov.: A Highly Reticulated Network Forming Chlorarachniophyte from the Mediterranean Sea
journal, January 2012
- Ota, Shuhei; Vaulot, Daniel
- Protist, Vol. 163, Issue 1
Analyses of the Complete Chloroplast Genome Sequences of two Members of the Pelagophyceae: Aureococcus Anophagefferens Ccmp1984 and Aureoumbra Lagunensis Ccmp15071: Analyses of the Complete Chloroplast
journal, April 2010
- Ong, Han Chuan; Wilhelm, Steven W.; Gobler, Christopher J.
- Journal of Phycology, Vol. 46, Issue 3
Evolution by gene duplication: an update
journal, June 2003
- Zhang, Jianzhi
- Trends in Ecology & Evolution, Vol. 18, Issue 6
Phylogenomic Evidence for Separate Acquisition of Plastids in Cryptophytes, Haptophytes, and Stramenopiles
journal, March 2010
- Baurain, D.; Brinkmann, H.; Petersen, J.
- Molecular Biology and Evolution, Vol. 27, Issue 7
MrBayes 3: Bayesian phylogenetic inference under mixed models
journal, August 2003
- Ronquist, Fredrik; Huelsenbeck, John P.
- Bioinformatics, Vol. 19, Issue 12, p. 1572-1574
The eukaryotic tree of life: endosymbiosis takes its TOL
journal, May 2008
- Lane, Christopher E.; Archibald, John M.
- Trends in Ecology & Evolution, Vol. 23, Issue 5
Medium- and short-chain dehydrogenase/reductase gene and protein families: The SDR superfamily: functional and structural diversity within a family of metabolic and regulatory enzymes
journal, November 2008
- Kavanagh, K. L.; Jörnvall, H.; Persson, B.
- Cellular and Molecular Life Sciences, Vol. 65, Issue 24
The Complete Chloroplast Genome of the Chlorarachniophyte Bigelowiella natans: Evidence for Independent Origins of Chlorarachniophyte and Euglenid Secondary Endosymbionts
journal, September 2006
- Rogers, Matthew B.; Gilson, Paul R.; Su, Vanessa
- Molecular Biology and Evolution, Vol. 24, Issue 1
Genomic evidence for two functionally distinct gene classes
journal, May 1998
- Rivera, M. C.; Jain, R.; Moore, J. E.
- Proceedings of the National Academy of Sciences, Vol. 95, Issue 11
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
Nonlinear partial differential equations and applications: From the Cover: The single, ancient origin of chromist plastids
journal, November 2002
- Yoon, H. S.; Hackett, J. D.; Pinto, G.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 24
Oceanographic and Biogeochemical Insights from Diatom Genomes
journal, January 2010
- Bowler, Chris; Vardi, Assaf; Allen, Andrew E.
- Annual Review of Marine Science, Vol. 2, Issue 1
Molecular and Photosynthetic Responses to Prolonged Darkness and Subsequent Acclimation to Re-Illumination in the Diatom Phaeodactylum tricornutum
journal, March 2013
- Nymark, Marianne; Valle, Kristin C.; Hancke, Kasper
- PLoS ONE, Vol. 8, Issue 3
Sorting wheat from chaff in multi-gene analyses of chlorophyll c-containing plastids
journal, August 2007
- Sanchez-Puerta, M. Virginia; Bachvaroff, Tsvetan R.; Delwiche, Charles F.
- Molecular Phylogenetics and Evolution, Vol. 44, Issue 2
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
journal, August 2006
- Stamatakis, Alexandros
- Bioinformatics, Vol. 22, Issue 21
You are what you eat: a gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes
journal, December 1998
- Ford Doolittle, W.
- Trends in Genetics, Vol. 14, Issue 8
Evolution and Functional Diversification of Fructose Bisphosphate Aldolase Genes in Photosynthetic Marine Diatoms
journal, September 2011
- Allen, Andrew E.; Moustafa, Ahmed; Montsant, Anton
- Molecular Biology and Evolution, Vol. 29, Issue 1
Transcriptome analysis reveals nuclear-encoded proteins for the maintenance of temporary plastids in the dinoflagellate Dinophysis acuminata
journal, January 2010
- Wisecaver, Jennifer H.; Hackett, Jeremiah D.
- BMC Genomics, Vol. 11, Issue 1
Cryptomonad Nucleomorph: its Ultrastructure and Evolutionary Significance
journal, December 1980
- Gillott, Marcelle A.; Gibbs, Sarah P.
- Journal of Phycology, Vol. 16, Issue 4
Controls on tropical Pacific Ocean productivity revealed through nutrient stress diagnostics
journal, August 2006
- Behrenfeld, Michael J.; Worthington, Kirby; Sherrell, Robert M.
- Nature, Vol. 442, Issue 7106
Lateral gene transfer and the evolution of plastid-targeted proteins in the secondary plastid-containing alga Bigelowiella natans
journal, May 2003
- Archibald, J. M.; Rogers, M. B.; Toop, M.
- Proceedings of the National Academy of Sciences, Vol. 100, Issue 13
Supermatrix Data Highlight the Phylogenetic Relationships of Photosynthetic Stramenopiles
journal, March 2012
- Yang, Eun Chan; Boo, Ga Hun; Kim, Hee Jeong
- Protist, Vol. 163, Issue 2
Horizontal Gene Transfer is a Significant Driver of Gene Innovation in Dinoflagellates
journal, November 2013
- Wisecaver, Jennifer H.; Brosnahan, Michael L.; Hackett, Jeremiah D.
- Genome Biology and Evolution, Vol. 5, Issue 12
The Light-Independent Protochlorophyllide Reductase: A Nitrogenase-Like Enzyme Catalyzing a Key Reaction for Greening in the Dark
book, January 2003
- Fujita, Yuichi; Bauer, Carl E.
- The Porphyrin Handbook
Are Red Algae Plants? A Critical Evaluation of Three Key Molecular Data Sets
journal, June 2001
- Stiller, John W.; Riley, Jennifer; Hall, Benjamin D.
- Journal of Molecular Evolution, Vol. 52, Issue 6
Green-colored Plastids in the Dinoflagellate Genus Lepidodinium are of Core Chlorophyte Origin
journal, April 2011
- Matsumoto, Takuya; Shinozaki, Fumihiko; Chikuni, Tomoko
- Protist, Vol. 162, Issue 2
Behavioral and Physiological Changes during Benthic-Pelagic Transition in the Harmful Alga, Heterosigma akashiwo: Potential for Rapid Bloom Formation
journal, October 2013
- Tobin, Elizabeth D.; Grünbaum, Daniel; Patterson, Johnathan
- PLoS ONE, Vol. 8, Issue 10
Heterotachy Processes in Rhodophyte-Derived Secondhand Plastid Genes: Implications for Addressing the Origin and Evolution of Dinoflagellate Plastids
journal, May 2006
- Shalchian-Tabrizi, Kamran; Skånseng, Marianne; Ronquist, Fredrik
- Molecular Biology and Evolution, Vol. 23, Issue 8
Plastid Genome Sequence of the Cryptophyte Alga Rhodomonas salina CCMP1319: Lateral Transfer of Putative DNA Replication Machinery and a Test of Chromist Plastid Phylogeny
journal, April 2007
- Khan, H.; Parks, N.; Kozera, C.
- Molecular Biology and Evolution, Vol. 24, Issue 8
A single origin of the peridinin- and fucoxanthin-containing plastids in dinoflagellates through tertiary endosymbiosis
journal, August 2002
- Yoon, H. S.; Hackett, J. D.; Bhattacharya, D.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 18
Cyanophora paradoxa Genome Elucidates Origin of Photosynthesis in Algae and Plants
journal, February 2012
- Price, D. C.; Chan, C. X.; Yoon, H. S.
- Science, Vol. 335, Issue 6070
Chlorophyll Biosynthesis Gene Evolution Indicates Photosystem Gene Duplication, Not Photosystem Merger, at the Origin of Oxygenic Photosynthesis
journal, December 2012
- Sousa, Filipa L.; Shavit-Grievink, Liat; Allen, John F.
- Genome Biology and Evolution, Vol. 5, Issue 1
Red and Problematic Green Phylogenetic Signals among Thousands of Nuclear Genes from the Photosynthetic and Apicomplexa-Related Chromera velia
journal, January 2011
- Woehle, Christian; Dagan, Tal; Martin, William F.
- Genome Biology and Evolution, Vol. 3
An exceptional horizontal gene transfer in plastids: gene replacement by a distant bacterial paralog and evidence that haptophyte and cryptophyte plastids are sisters
journal, September 2006
- Rice, Danny W.; Palmer, Jeffrey D.
- BMC Biology, Vol. 4, Issue 1
A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids
journal, June 2010
- Janouskovec, J.; Horak, A.; Obornik, M.
- Proceedings of the National Academy of Sciences, Vol. 107, Issue 24
Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton
journal, July 2010
- Cuvelier, M. L.; Allen, A. E.; Monier, A.
- Proceedings of the National Academy of Sciences, Vol. 107, Issue 33
Nitrogenase Fe protein-like Fe-S cluster is conserved in L-protein (BchL) of dark-operative protochlorophyllide reductase from Rhodobacter capsulatus
journal, October 2006
- Nomata, Jiro; Kitashima, Masaharu; Inoue, Kazuhito
- FEBS Letters, Vol. 580, Issue 26
A “Green” Phosphoribulokinase in Complex Algae with Red Plastids: Evidence for a Single Secondary Endosymbiosis Leading to Haptophytes, Cryptophytes, Heterokonts, and Dinoflagellates
journal, February 2006
- Petersen, Jörn; Teich, René; Brinkmann, Henner
- Journal of Molecular Evolution, Vol. 62, Issue 2
Tyr275 and Lys279 Stabilize NADPH within the Catalytic Site of NADPH:Protochlorophyllide Oxidoreductase and Are Involved in the Formation of the Enzyme Photoactive State †
journal, October 2001
- Lebedev, Nikolai; Karginova, Olga; McIvor, Wilson
- Biochemistry, Vol. 40, Issue 42
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus
journal, September 2002
- Martin, W.; Rujan, T.; Richly, E.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 19
Cloning of the Gene Encoding a Protochlorophyllide Reductase: the Physiological Significance of the Co-Existence of Light-Dependent and -Independent Protochlorophyllide Reduction Systems in the Cyanobacterium Plectonema boryanum
journal, February 1998
- Fujita, Y.; Takagi, H.; Hase, T.
- Plant and Cell Physiology, Vol. 39, Issue 2
Phylogenomic Analysis of “Red” Genes from Two Divergent Species of the “Green” Secondary Phototrophs, the Chlorarachniophytes, Suggests Multiple Horizontal Gene Transfers from the Red Lineage before the Divergence of Extant Chlorarachniophytes
journal, June 2014
- Yang, Yi; Matsuzaki, Motomichi; Takahashi, Fumio
- PLoS ONE, Vol. 9, Issue 6
Prediction of complete gene structures in human genomic DNA
journal, April 1997
- Burge, Chris; Karlin, Samuel
- Journal of Molecular Biology, Vol. 268, Issue 1
Computational Inference of Homologous Gene Structures in the Human Genome
journal, May 2001
- Yeh, R. -F.; Lim, L. P.; Burge, C. B.
- Genome Research, Vol. 11, Issue 5
Site-directed mutagenesis of Tyr-189 and Lys-193 in NADPH: protochlorophyllide oxidoreductase from Synechocystis
journal, August 2002
- Heyes, D. J.; Hunter, C. N.
- Biochemical Society Transactions, Vol. 30, Issue 4
Data from: Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae [Supplemental Data]
dataset, March 2015
- Hunsperger, H. M.; Randhawa, T.; Cattolico, R. A.
- Dryad Digital Repository, 1 txt file (88.21 Kb), 1 txt file (55.24 Kb), 1 txt file (17 Kb), 1 Excel file (44.48 Kb), 1 Excel file (12.66 Kb)
HETEROSIGMA AKASHIWO (RAPHIDOPHYCEAE) RESTING CELL FORMATION IN BATCH CULTURE: STRAIN IDENTITY VERSUS PHYSIOLOGICAL RESPONSE 1 , 2
journal, April 2002
- Han, Myung‐Soo; Kim, Young‐Pil; Cattolico, Rose Ann
- Journal of Phycology, Vol. 38, Issue 2
Differential Operation of Dual Protochlorophyllide Reductases for Chlorophyll Biosynthesis in Response to Environmental Oxygen Levels in the Cyanobacterium Leptolyngbya boryana
journal, October 2006
- Yamazaki, Shoji; Nomata, Jiro; Fujita, Yuichi
- Plant Physiology, Vol. 142, Issue 3
A complex and punctate distribution of three eukaryotic genes derived by lateral gene transfer
text, January 2007
- Rogers, Matthew B.; Watkins, Russell F.; Harper, James T.
- BioMed Central
Mutagenesis Alters the Catalytic Mechanism of the Light-driven Enzyme Protochlorophyllide Oxidoreductase
journal, October 2009
- Menon, Binuraj R. K.; Davison, Paul A.; Hunter, C. Neil
- Journal of Biological Chemistry, Vol. 285, Issue 3
NB-protein (BchN-BchB) of dark-operative protochlorophyllide reductase is the catalytic component containing oxygen-tolerant Fe-S clusters
journal, March 2008
- Nomata, Jiro; Ogawa, Takuro; Kitashima, Masaharu
- FEBS Letters, Vol. 582, Issue 9
Continued evolutionary surprises among dinoflagellates
journal, August 2002
- Morden, Clifford W.; Sherwood, Alison R.
- Proceedings of the National Academy of Sciences, Vol. 99, Issue 18
Works referencing / citing this record:
Dictyochophyceae Plastid Genomes Reveal Unusual Variability in Their Organization
journal, August 2019
- Han, Kwi Young; Maciszewski, Kacper; Graf, Louis
- Journal of Phycology, Vol. 55, Issue 5
Sequencing and Phylogenetic Analysis of Chloroplast Genes in Freshwater Raphidophytes
journal, March 2019
- Sassenhagen, Ingrid; Rengefors, Karin
- Genes, Vol. 10, Issue 3
Photosynthetic Pigments in Diatoms
journal, September 2015
- Kuczynska, Paulina; Jemiola-Rzeminska, Malgorzata; Strzalka, Kazimierz
- Marine Drugs, Vol. 13, Issue 9
Patterns in evolutionary origins of heme, chlorophyll a and isopentenyl diphosphate biosynthetic pathways suggest non-photosynthetic periods prior to plastid replacements in dinoflagellates.
preprint, June 2018
- Matsuo, Eriko; Inagaki, Yuji
Presence and absence of light-independent chlorophyll biosynthesis among Chlamydomonas green algae in an ice-covered Antarctic lake
journal, January 2019
- Smith, David Roy; Cvetkovska, Marina; Hüner, Norman P. A.
- Communicative & Integrative Biology, Vol. 12, Issue 1
Data from: Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae [Supplemental Data]
dataset, March 2015
- Hunsperger, H. M.; Randhawa, T.; Cattolico, R. A.
- Dryad Digital Repository, 1 txt file (88.21 Kb), 1 txt file (55.24 Kb), 1 txt file (17 Kb), 1 Excel file (44.48 Kb), 1 Excel file (12.66 Kb)
Patterns in evolutionary origins of heme, chlorophyll a and isopentenyl diphosphate biosynthetic pathways suggest non-photosynthetic periods prior to plastid replacements in dinoflagellates.
posted_content, June 2018
- Matsuo, Eriko; Inagaki, Yuji
Chloroplast genomes as a tool to resolve red algal phylogenies: a case study in the Nemaliales
journal, October 2016
- F. Costa, Joana; Lin, Showe-Mei; Macaya, Erasmo C.
- BMC Evolutionary Biology, Vol. 16, Issue 1
Chloroplast and mitochondrial genomes of Balbiania investiens (Balbianiales, Nemaliophycidae)
journal, March 2019
- Evans, Joshua R.; St. Amour, Nathan; Verbruggen, Heroen
- Phycologia, Vol. 58, Issue 3
Multifunctional polyketide synthase genes identified by genomic survey of the symbiotic dinoflagellate, Symbiodinium minutum
journal, November 2015
- Beedessee, Girish; Hisata, Kanako; Roy, Michael C.
- BMC Genomics, Vol. 16, Issue 1
Patterns in evolutionary origins of heme, chlorophyll a and isopentenyl diphosphate biosynthetic pathways suggest non-photosynthetic periods prior to plastid replacements in dinoflagellates.
posted_content, June 2018
- Matsuo, Eriko; Inagaki, Yuji
Evolutionary Dynamics of Cryptophyte Plastid Genomes
journal, July 2017
- Kim, Jong Im; Moore, Christa E.; Archibald, John M.
- Genome Biology and Evolution, Vol. 9, Issue 7
The enigmatic loss of light‐independent chlorophyll biosynthesis from an Antarctic green alga in a light‐limited environment
journal, December 2018
- Cvetkovska, Marina; Orgnero, Shane; Hüner, Norman P. A.
- New Phytologist, Vol. 222, Issue 2
Evolutionary Dynamics of Cryptophyte Plastid Genomes
journal, July 2017
- Kim, Jong Im; Moore, Christa E.; Archibald, John M.
- Genome Biology and Evolution, Vol. 9, Issue 7
Comparative Plastid Genomics of Cryptomonas Species Reveals Fine-Scale Genomic Responses to Loss of Photosynthesis
journal, January 2020
- Tanifuji, Goro; Kamikawa, Ryoma; Moore, Christa E.
- Genome Biology and Evolution, Vol. 12, Issue 2
Multifunctional polyketide synthase genes identified by genomic survey of the symbiotic dinoflagellate, Symbiodinium minutum
journal, November 2015
- Beedessee, Girish; Hisata, Kanako; Roy, Michael C.
- BMC Genomics, Vol. 16, Issue 1
Order, please! Uncertainty in the ordinal-level classification of Chlorophyceae
journal, May 2019
- Fučíková, Karolina; Lewis, Paul O.; Neupane, Suman
- PeerJ, Vol. 7
Dark chlorophyll synthesis may provide a potential for shade tolerance as shown by a comparative study with seedlings of European larch (Larix decidua) and Norway spruce (Picea abies)
journal, March 2018
- Stolárik, Tibor; Nožková, Vladimíra; Nosek, Lukáš
- Trees, Vol. 32, Issue 4
Data from: Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae [Supplemental Data]
dataset, March 2015
- Hunsperger, H. M.; Randhawa, T.; Cattolico, R. A.
- Dryad Digital Repository, 1 txt file (88.21 Kb), 1 txt file (55.24 Kb), 1 txt file (17 Kb), 1 Excel file (44.48 Kb), 1 Excel file (12.66 Kb)
Sequencing and Phylogenetic Analysis of Chloroplast Genes in Freshwater Raphidophytes
journal, March 2019
- Sassenhagen, Ingrid; Rengefors, Karin
- Genes, Vol. 10, Issue 3
Chloroplast genomes as a tool to resolve red algal phylogenies: a case study in the Nemaliales
journal, October 2016
- F. Costa, Joana; Lin, Showe-Mei; Macaya, Erasmo C.
- BMC Evolutionary Biology, Vol. 16, Issue 1
Patterns in evolutionary origins of heme, chlorophyll a and isopentenyl diphosphate biosynthetic pathways suggest non-photosynthetic periods prior to plastid replacements in dinoflagellates
journal, January 2018
- Matsuo, Eriko; Inagaki, Yuji
- PeerJ, Vol. 6
Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)
journal, September 2015
- Hovde, Blake T.; Deodato, Chloe R.; Hunsperger, Heather M.
- PLOS Genetics, Vol. 11, Issue 9
Characterization of Ferredoxin-Dependent Biliverdin Reductase PCYA1 Reveals the Dual Function in Retrograde Bilin Biosynthesis and Interaction With Light-Dependent Protochlorophyllide Oxidoreductase LPOR in Chlamydomonas reinhardtii
journal, May 2018
- Zhang, Weiqing; Zhong, Huan; Lu, Hui
- Frontiers in Plant Science, Vol. 9
Figures / Tables found in this record:
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