Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri

Prochnik SE, Umen J, Nedelcu AM, Hallmann A, Miller SM, Nishii I, Ferris P, Kuo A, Mitros T, Fritz-Laylin LK, Hellsten U, et al. (2010)
Science 329(5988): 223-226.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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DOI
Autor*in
Prochnik, S. E.; Umen, J.; Nedelcu, A. M.; Hallmann, ArminUniBi ; Miller, S. M.; Nishii, I.; Ferris, P.; Kuo, A.; Mitros, T.; Fritz-Laylin, L. K.; Hellsten, U.; Chapman, J.
Alle
Einrichtung
Fakultät für Biologie > Zell- und Entwicklungsbiologie der Pflanzen
Abstract / Bemerkung
The multicellular green alga Volvox carteri and its morphologically diverse close relatives (the volvocine algae) are well suited for the investigation of the evolution of multicellularity and development. We sequenced the 138-mega-base pair genome of V. carteri and compared its approximately 14,500 predicted proteins to those of its unicellular relative Chlamydomonas reinhardtii. Despite fundamental differences in organismal complexity and life history, the two species have similar protein-coding potentials and few species-specific protein-coding gene predictions. Volvox is enriched in volvocine-algal-specific proteins, including those associated with an expanded and highly compartmentalized extracellular matrix. Our analysis shows that increases in organismal complexity can be associated with modifications of lineage-specific proteins rather than large-scale invention of protein-coding capacity.
Erscheinungsjahr
2010
Zeitschriftentitel
Science
Band
329
Ausgabe
5988
Seite(n)
223-226
ISSN
0036-8075
eISSN
1095-9203
Page URI
https://pub.uni-bielefeld.de/record/1915121

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Prochnik SE, Umen J, Nedelcu AM, et al. Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science. 2010;329(5988):223-226.
Prochnik, S. E., Umen, J., Nedelcu, A. M., Hallmann, A., Miller, S. M., Nishii, I., Ferris, P., et al. (2010). Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science, 329(5988), 223-226. https://doi.org/10.1126/science.1188800
Prochnik, S. E., Umen, J., Nedelcu, A. M., Hallmann, Armin, Miller, S. M., Nishii, I., Ferris, P., et al. 2010. “Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri”. Science 329 (5988): 223-226.
Prochnik, S. E., Umen, J., Nedelcu, A. M., Hallmann, A., Miller, S. M., Nishii, I., Ferris, P., Kuo, A., Mitros, T., Fritz-Laylin, L. K., et al. (2010). Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science 329, 223-226.
Prochnik, S.E., et al., 2010. Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science, 329(5988), p 223-226.
S.E. Prochnik, et al., “Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri”, Science, vol. 329, 2010, pp. 223-226.
Prochnik, S.E., Umen, J., Nedelcu, A.M., Hallmann, A., Miller, S.M., Nishii, I., Ferris, P., Kuo, A., Mitros, T., Fritz-Laylin, L.K., Hellsten, U., Chapman, J., Simakov, O., Rensing, S.A., Terry, A., Pangilinan, J., Kapitonov, V., Jurka, J., Salamov, A., Shapiro, H., Schmutz, J., Grimwood, J., Lindquist, E., Lucas, S., Grigoriev, I.V., Schmitt, R., Kirk, D., Rokhsar, D.S.: Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science. 329, 223-226 (2010).
Prochnik, S. E., Umen, J., Nedelcu, A. M., Hallmann, Armin, Miller, S. M., Nishii, I., Ferris, P., Kuo, A., Mitros, T., Fritz-Laylin, L. K., Hellsten, U., Chapman, J., Simakov, O., Rensing, S. A., Terry, A., Pangilinan, J., Kapitonov, V., Jurka, J., Salamov, A., Shapiro, H., Schmutz, J., Grimwood, J., Lindquist, E., Lucas, S., Grigoriev, I. V., Schmitt, R., Kirk, D., and Rokhsar, D. S. “Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri”. Science 329.5988 (2010): 223-226.

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Alternative evolution of a spheroidal colony in volvocine algae: developmental analysis of embryogenesis in Astrephomene (Volvocales, Chlorophyta).
Yamashita S, Arakaki Y, Kawai-Toyooka H, Noga A, Hirono M, Nozaki H., BMC Evol Biol 16(1), 2016
PMID: 27829356
Genome of the halotolerant green alga Picochlorum sp. reveals strategies for thriving under fluctuating environmental conditions.
Foflonker F, Price DC, Qiu H, Palenik B, Wang S, Bhattacharya D., Environ Microbiol 17(2), 2015
PMID: 24965277
Transcriptional analysis of Volvox photoreceptors suggests the existence of different cell-type specific light-signaling pathways.
Kianianmomeni A, Hallmann A., Curr Genet 61(1), 2015
PMID: 25117716
Gene silencing in microalgae: mechanisms and biological roles.
Kim EJ, Ma X, Cerutti H., Bioresour Technol 184(), 2015
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Heterotrophic growth of microalgae: metabolic aspects.
Morales-Sánchez D, Martinez-Rodriguez OA, Kyndt J, Martinez A., World J Microbiol Biotechnol 31(1), 2015
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Cell-type specific photoreceptors and light signaling pathways in the multicellular green alga Volvox carteri and their potential role in cellular differentiation.
Kianianmomeni A., Plant Signal Behav 10(4), 2015
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Green Algae as Model Organisms for Biological Fluid Dynamics.
Goldstein RE., Annu Rev Fluid Mech 47(), 2015
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The Microbial Opsin Homolog Sop1 is involved in Sclerotinia sclerotiorum Development and Environmental Stress Response.
Lyu X, Shen C, Fu Y, Xie J, Jiang D, Li G, Cheng J., Front Microbiol 6(), 2015
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Why we need more algal genomes.
Bhattacharya D, Qiu H, Price DC, Yoon HS., J Phycol 51(1), 2015
PMID: 26986254
A transient receptor potential ion channel in Chlamydomonas shares key features with sensory transduction-associated TRP channels in mammals.
Arias-Darraz L, Cabezas D, Colenso CK, Alegría-Arcos M, Bravo-Moraga F, Varas-Concha I, Almonacid DE, Madrid R, Brauchi S., Plant Cell 27(1), 2015
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When the lights go out: the evolutionary fate of free-living colorless green algae.
Figueroa-Martinez F, Nedelcu AM, Smith DR, Adrian RP., New Phytol 206(3), 2015
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Two different rickettsial bacteria invading Volvox carteri.
Kawafune K, Hongoh Y, Hamaji T, Sakamoto T, Kurata T, Hirooka S, Miyagishima SY, Nozaki H., PLoS One 10(2), 2015
PMID: 25671568
The inducible nitA promoter provides a powerful molecular switch for transgene expression in Volvox carteri.
von der Heyde EL, Klein B, Abram L, Hallmann A., BMC Biotechnol 15(), 2015
PMID: 25888095
PHOTOSYSTEM II SUBUNIT R is required for efficient binding of LIGHT-HARVESTING COMPLEX STRESS-RELATED PROTEIN3 to photosystem II-light-harvesting supercomplexes in Chlamydomonas reinhardtii.
Xue H, Tokutsu R, Bergner SV, Scholz M, Minagawa J, Hippler M., Plant Physiol 167(4), 2015
PMID: 25699588
Discovery of novel genes derived from transposable elements using integrative genomic analysis.
Hoen DR, Bureau TE., Mol Biol Evol 32(6), 2015
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On reproduction in red algae: further research needed at the molecular level.
García-Jiménez P, Robaina RR., Front Plant Sci 6(), 2015
PMID: 25755663
Potential impact of gene regulatory mechanisms on the evolution of multicellularity in the volvocine algae.
Kianianmomeni A., Commun Integr Biol 8(2), 2015
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Retained duplicate genes in green alga Chlamydomonas reinhardtii tend to be stress responsive and experience frequent response gains.
Wu G, Hufnagel DE, Denton AK, Shiu SH., BMC Genomics 16(), 2015
PMID: 25880851
Elucidating the composition and conservation of the autophagy pathway in photosynthetic eukaryotes.
Shemi A, Ben-Dor S, Vardi A., Autophagy 11(4), 2015
PMID: 25915714
A lycopene β-cyclase/lycopene ε-cyclase/light-harvesting complex-fusion protein from the green alga Ostreococcus lucimarinus can be modified to produce α-carotene and β-carotene at different ratios.
Blatt A, Bauch ME, Pörschke Y, Lohr M., Plant J 82(4), 2015
PMID: 25759133
Characterization of Hydrogen Metabolism in the Multicellular Green Alga Volvox carteri.
Cornish AJ, Green R, Gärtner K, Mason S, Hegg EL., PLoS One 10(4), 2015
PMID: 25927230
Comparative analysis of plant carbohydrate active enZymes and their role in xylogenesis.
Pinard D, Mizrachi E, Hefer CA, Kersting AR, Joubert F, Douglas CJ, Mansfield SD, Myburg AA., BMC Genomics 16(), 2015
PMID: 25994181
Phylogenetic analysis of NAP, an unconventional actin of the Volvocales
Kato-Minoura T, Karino K, Akimoto N, Yoshiga N, Ehara M, Aoki S., Plant Syst Evol 301(6), 2015
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An integrated database of wood-formation related genes in plants.
Xu T, Ma T, Hu Q, Liu J., Sci Rep 5(), 2015
PMID: 26078228
Gamete Dialogs in Green Lineages.
Mori T, Kawai-Toyooka H, Igawa T, Nozaki H., Mol Plant 8(10), 2015
PMID: 26145252
Transcriptome-wide analysis of DEAD-box RNA helicase gene family in an Antarctic psychrophilic alga Chlamydomonas sp. ICE-L.
Liu C, Huang X., Extremophiles 19(5), 2015
PMID: 26174530
Comparative Genomics of a Bacterivorous Green Alga Reveals Evolutionary Causalities and Consequences of Phago-Mixotrophic Mode of Nutrition.
Burns JA, Paasch A, Narechania A, Kim E., Genome Biol Evol 7(11), 2015
PMID: 26224703
Evidence of ancient genome reduction in red algae (Rhodophyta)
Qiu H, Price DC, Yang EC, Yoon HS, Bhattacharya D, Valentin K., J Phycol 51(4), 2015
PMID: IND603566554
Genome-wide identification of Calcineurin B-Like (CBL) gene family of plants reveals novel conserved motifs and evolutionary aspects in calcium signaling events.
Mohanta TK, Mohanta N, Mohanta YK, Parida P, Bae H., BMC Plant Biol 15(), 2015
PMID: 26245459
In Silico Analysis of Correlations between Protein Disorder and Post-Translational Modifications in Algae.
Kurotani A, Sakurai T., Int J Mol Sci 16(8), 2015
PMID: 26307970
Whole-Genome Resequencing Reveals Extensive Natural Variation in the Model Green Alga Chlamydomonas reinhardtii.
Flowers JM, Hazzouri KM, Pham GM, Rosas U, Bahmani T, Khraiwesh B, Nelson DR, Jijakli K, Abdrabu R, Harris EH, Lefebvre PA, Hom EF, Salehi-Ashtiani K, Purugganan MD., Plant Cell 27(9), 2015
PMID: 26392080
High-Resolution Profiling of a Synchronized Diurnal Transcriptome from Chlamydomonas reinhardtii Reveals Continuous Cell and Metabolic Differentiation.
Zones JM, Blaby IK, Merchant SS, Umen JG., Plant Cell 27(10), 2015
PMID: 26432862
Dynamic Changes in the Transcriptome and Methylome of Chlamydomonas reinhardtii throughout Its Life Cycle.
Lopez D, Hamaji T, Kropat J, De Hoff P, Morselli M, Rubbi L, Fitz-Gibbon S, Gallaher SD, Merchant SS, Umen J, Pellegrini M., Plant Physiol 169(4), 2015
PMID: 26450704
Functional demonstrations of starch binding domains present in Ostreococcus tauri starch synthases isoforms.
Barchiesi J, Hedin N, Gomez-Casati DF, Ballicora MA, Busi MV., BMC Res Notes 8(), 2015
PMID: 26510916
miRA: adaptable novel miRNA identification in plants using small RNA sequencing data.
Evers M, Huttner M, Dueck A, Meister G, Engelmann JC., BMC Bioinformatics 16(), 2015
PMID: 26542525
Eukaryotic Components Remodeled Chloroplast Nucleoid Organization during the Green Plant Evolution.
Kobayashi Y, Takusagawa M, Harada N, Fukao Y, Yamaoka S, Kohchi T, Hori K, Ohta H, Shikanai T, Nishimura Y., Genome Biol Evol 8(1), 2015
PMID: 26608058
RNA-Seq transcriptomic analysis with Bag2D software identifies key pathways enhancing lipid yield in a high lipid-producing mutant of the non-model green alga Dunaliella tertiolecta.
Yao L, Tan TW, Ng YK, Ban KH, Shen H, Lin H, Lee YK., Biotechnol Biofuels 8(), 2015
PMID: 26613001
Tying Down Loose Ends in the Chlamydomonas Genome: Functional Significance of Abundant Upstream Open Reading Frames.
Cross FR., G3 (Bethesda) 6(2), 2015
PMID: 26701783
Algal photoreceptors: in vivo functions and potential applications.
Kianianmomeni A, Hallmann A., Planta 239(1), 2014
PMID: 24081482
P-MITE: a database for plant miniature inverted-repeat transposable elements.
Chen J, Hu Q, Zhang Y, Lu C, Kuang H., Nucleic Acids Res 42(database issue), 2014
PMID: 24174541
Volvox, rolling out from under the shadow of Chlamydomonas with support from the AGA.
Smith DR., J Hered 105(1), 2014
PMID: 24280250
Stable transformation and reverse genetic analysis of Penium margaritaceum: a platform for studies of charophyte green algae, the immediate ancestors of land plants.
Sørensen I, Fei Z, Andreas A, Willats WG, Domozych DS, Rose JK., Plant J 77(3), 2014
PMID: 24308430
Ancient signals: comparative genomics of green plant CDPKs.
Hamel LP, Sheen J, Séguin A., Trends Plant Sci 19(2), 2014
PMID: 24342084
MicroRNAs in a multicellular green alga Volvox carteri.
Li J, Wu Y, Qi Y., Sci China Life Sci 57(1), 2014
PMID: 24369344
Understanding "green" multicellularity: do seaweeds hold the key?
Coates JC, Umm-E-Aiman, Charrier B., Front Plant Sci 5(), 2014
PMID: 25653653
Applications of next-generation sequencing to unravelling the evolutionary history of algae.
Kim KM, Park JH, Bhattacharya D, Yoon HS., Int J Syst Evol Microbiol 64(pt 2), 2014
PMID: 24505071
A subfamily of putative cytokinin receptors is revealed by an analysis of the evolution of the two-component signaling system of plants.
Gruhn N, Halawa M, Snel B, Seidl MF, Heyl A., Plant Physiol 165(1), 2014
PMID: 24520157
In vitro import and assembly of the nucleus-encoded mitochondrial subunit III of cytochrome c oxidase (Cox3).
Vázquez-Acevedo M, Rubalcava-Gracia D, González-Halphen D., Mitochondrion 19 Pt B(), 2014
PMID: 24561572
Phosphate starvation in fungi induces the replacement of phosphatidylcholine with the phosphorus-free betaine lipid diacylglyceryl-N,N,N-trimethylhomoserine.
Riekhof WR, Naik S, Bertrand H, Benning C, Voelker DR., Eukaryot Cell 13(6), 2014
PMID: 24728191
Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs.
Chávez Montes RA, de Fátima Rosas-Cárdenas F, De Paoli E, Accerbi M, Rymarquis LA, Mahalingam G, Marsch-Martínez N, Meyers BC, Green PJ, de Folter S., Nat Commun 5(), 2014
PMID: 24759728
Genomic signatures of specialized metabolism in plants.
Chae L, Kim T, Nilo-Poyanco R, Rhee SY., Science 344(6183), 2014
PMID: 24786077
Early evolution of the genetic basis for soma in the volvocaceae.
Hanschen ER, Ferris PJ, Michod RE., Evolution 68(7), 2014
PMID: 24689915
Last-gen nostalgia: a lighthearted rant and reflection on genome sequencing culture.
Smith DR., Front Genet 5(), 2014
PMID: 24904646
Klebsormidium flaccidum genome reveals primary factors for plant terrestrial adaptation.
Hori K, Maruyama F, Fujisawa T, Togashi T, Yamamoto N, Seo M, Sato S, Yamada T, Mori H, Tajima N, Moriyama T, Ikeuchi M, Watanabe M, Wada H, Kobayashi K, Saito M, Masuda T, Sasaki-Sekimoto Y, Mashiguchi K, Awai K, Shimojima M, Masuda S, Iwai M, Nobusawa T, Narise T, Kondo S, Saito H, Sato R, Murakawa M, Ihara Y, Oshima-Yamada Y, Ohtaka K, Satoh M, Sonobe K, Ishii M, Ohtani R, Kanamori-Sato M, Honoki R, Miyazaki D, Mochizuki H, Umetsu J, Higashi K, Shibata D, Kamiya Y, Sato N, Nakamura Y, Tabata S, Ida S, Kurokawa K, Ohta H., Nat Commun 5(), 2014
PMID: 24865297
Coiled-coil proteins facilitated the functional expansion of the centrosome.
Kuhn M, Hyman AA, Beyer A., PLoS Comput Biol 10(6), 2014
PMID: 24901223
Evolution of sexes from an ancestral mating-type specification pathway.
Geng S, De Hoff P, Umen JG., PLoS Biol 12(7), 2014
PMID: 25003332
The long goodbye: the rise and fall of flavodoxin during plant evolution.
Pierella Karlusich JJ, Lodeyro AF, Carrillo N., J Exp Bot 65(18), 2014
PMID: 25009172
Stable nuclear transformation of Pandorina morum.
Lerche K, Hallmann A., BMC Biotechnol 14(), 2014
PMID: 25031031
Carbon partitioning in green algae (chlorophyta) and the enolase enzyme.
Polle JE, Neofotis P, Huang A, Chang W, Sury K, Wiech EM., Metabolites 4(3), 2014
PMID: 25093929
Gene arrangement convergence, diverse intron content, and genetic code modifications in mitochondrial genomes of sphaeropleales (chlorophyta).
Fučíková K, Lewis PO, González-Halphen D, Lewis LA., Genome Biol Evol 6(8), 2014
PMID: 25106621
Cell-type specific light-mediated transcript regulation in the multicellular alga Volvox carteri.
Kianianmomeni A., BMC Genomics 15(), 2014
PMID: 25194509
Plant protein peptidase inhibitors: an evolutionary overview based on comparative genomics.
Santamaría ME, Diaz-Mendoza M, Diaz I, Martinez M., BMC Genomics 15(), 2014
PMID: 25253557
Insights into the evolution and diversification of the AT-hook Motif Nuclear Localized gene family in land plants.
Zhao J, Favero DS, Qiu J, Roalson EH, Neff MM., BMC Plant Biol 14(), 2014
PMID: 25311531
Green algae and the origins of multicellularity in the plant kingdom.
Umen JG., Cold Spring Harb Perspect Biol 6(11), 2014
PMID: 25324214
Multicellularity in green algae: upsizing in a walled complex.
Domozych DS, Domozych CE., Front Plant Sci 5(), 2014
PMID: 25477895
Genome-wide analysis of alternative splicing in Volvox carteri.
Kianianmomeni A, Ong CS, Rätsch G, Hallmann A., BMC Genomics 15(), 2014
PMID: 25516378
Comprehensive guide to acetyl-carboxylases in algae.
Huerlimann R, Heimann K., Crit Rev Biotechnol 33(1), 2013
PMID: 22524446
Aldehyde dehydrogenase (ALDH) superfamily in plants: gene nomenclature and comparative genomics.
Brocker C, Vasiliou M, Carpenter S, Carpenter C, Zhang Y, Wang X, Kotchoni SO, Wood AJ, Kirch HH, Kopečný D, Nebert DW, Vasiliou V., Planta 237(1), 2013
PMID: 23007552
The plant ontology as a tool for comparative plant anatomy and genomic analyses.
Cooper L, Walls RL, Elser J, Gandolfo MA, Stevenson DW, Smith B, Preece J, Athreya B, Mungall CJ, Rensing S, Hiss M, Lang D, Reski R, Berardini TZ, Li D, Huala E, Schaeffer M, Menda N, Arnaud E, Shrestha R, Yamazaki Y, Jaiswal P., Plant Cell Physiol 54(2), 2013
PMID: 23220694
Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing.
Shih PM, Wu D, Latifi A, Axen SD, Fewer DP, Talla E, Calteau A, Cai F, Tandeau de Marsac N, Rippka R, Herdman M, Sivonen K, Coursin T, Laurent T, Goodwin L, Nolan M, Davenport KW, Han CS, Rubin EM, Eisen JA, Woyke T, Gugger M, Kerfeld CA., Proc Natl Acad Sci U S A 110(3), 2013
PMID: 23277585
Flagellated algae protein evolution suggests the prevalence of lineage-specific rules governing evolutionary rates of eukaryotic proteins.
Chang TY, Liao BY., Genome Biol Evol 5(5), 2013
PMID: 23563973
Protein subcellular relocalization increases the retention of eukaryotic duplicate genes.
Byun SA, Singh S., Genome Biol Evol 5(12), 2013
PMID: 24265504
Organelle genome complexity scales positively with organism size in volvocine green algae.
Smith DR, Hamaji T, Olson BJ, Durand PM, Ferris P, Michod RE, Featherston J, Nozaki H, Keeling PJ., Mol Biol Evol 30(4), 2013
PMID: 23300255
Retrograde bilin signaling enables Chlamydomonas greening and phototrophic survival.
Duanmu D, Casero D, Dent RM, Gallaher S, Yang W, Rockwell NC, Martin SS, Pellegrini M, Niyogi KK, Merchant SS, Grossman AR, Lagarias JC., Proc Natl Acad Sci U S A 110(9), 2013
PMID: 23345435
Distinguishing ecological from evolutionary approaches to transposable elements.
Linquist S, Saylor B, Cottenie K, Elliott TA, Kremer SC, Gregory TR., Biol Rev Camb Philos Soc 88(3), 2013
PMID: 23347261
The evolution of male-female sexual dimorphism predates the gender-based divergence of the mating locus gene MAT3/RB.
Hiraide R, Kawai-Toyooka H, Hamaji T, Matsuzaki R, Kawafune K, Abe J, Sekimoto H, Umen J, Nozaki H., Mol Biol Evol 30(5), 2013
PMID: 23364323
The repertoires of ubiquitinating and deubiquitinating enzymes in eukaryotic genomes.
Hutchins AP, Liu S, Diez D, Miranda-Saavedra D., Mol Biol Evol 30(5), 2013
PMID: 23393154
Stable nuclear transformation of Eudorina elegans.
Lerche K, Hallmann A., BMC Biotechnol 13(), 2013
PMID: 23402598
New types of metacaspases in phytoplankton reveal diverse origins of cell death proteases.
Choi CJ, Berges JA., Cell Death Dis 4(), 2013
PMID: 23412383
Tempo and mode of multicellular adaptation in experimentally evolved Saccharomyces cerevisiae.
Ratcliff WC, Pentz JT, Travisano M., Evolution 67(6), 2013
PMID: 23730752
Sequence comparative analysis using networks: software for evaluating de novo transcript assembly from next-generation sequencing.
Misner I, Bicep C, Lopez P, Halary S, Bapteste E, Lane CE., Mol Biol Evol 30(8), 2013
PMID: 23666209
Distribution of the sex-determining gene MID and molecular correspondence of mating types within the isogamous genus Gonium (Volvocales, Chlorophyta).
Hamaji T, Ferris PJ, Nishii I, Nishimura Y, Nozaki H., PLoS One 8(5), 2013
PMID: 23696888
Interactions of photosynthesis with genome size and function.
Raven JA, Beardall J, Larkum AW, Sánchez-Baracaldo P., Philos Trans R Soc Lond B Biol Sci 368(1622), 2013
PMID: 23754816
A second rhodopsin-like protein in Cyanophora paradoxa: gene sequence and protein expression in a cell-free system.
Frassanito AM, Barsanti L, Passarelli V, Evangelista V, Gualtieri P., J Photochem Photobiol B 125(), 2013
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Biological production of monoethanolamine by engineered Pseudomonas putida S12.
Foti M, Médici R, Ruijssenaars HJ., J Biotechnol 167(3), 2013
PMID: 23876477
Morphology, genome plasticity, and phylogeny in the genus ostreococcus reveal a cryptic species, O. mediterraneus sp. nov. (Mamiellales, Mamiellophyceae).
Subirana L, Péquin B, Michely S, Escande ML, Meilland J, Derelle E, Marin B, Piganeau G, Desdevises Y, Moreau H, Grimsley NH., Protist 164(5), 2013
PMID: 23892412
Unraveling microalgal molecular interactions using evolutionary and structural bioinformatics.
Vlachakis D, Pavlopoulou A, Kazazi D, Kossida S., Gene 528(2), 2013
PMID: 23900196
A comparative genome analysis of PME and PMEI families reveals the evolution of pectin metabolism in plant cell walls.
Wang M, Yuan D, Gao W, Li Y, Tan J, Zhang X., PLoS One 8(8), 2013
PMID: 23951288
De novo transcriptomic analysis of hydrogen production in the green alga Chlamydomonas moewusii through RNA-Seq.
Yang S, Guarnieri MT, Smolinski S, Ghirardi M, Pienkos PT., Biotechnol Biofuels 6(1), 2013
PMID: 23971877
Agrigenomics for microalgal biofuel production: an overview of various bioinformatics resources and recent studies to link OMICS to bioenergy and bioeconomy.
Misra N, Panda PK, Parida BK., OMICS 17(11), 2013
PMID: 24044362
Validation of reference genes for quantitative gene expression studies in Volvox carteri using real-time RT-PCR.
Kianianmomeni A, Hallmann A., Mol Biol Rep 40(12), 2013
PMID: 24057254
Calcium Signals from the Vacuole.
Schönknecht G., Plants (Basel) 2(4), 2013
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Classification, naming and evolutionary history of glycosyltransferases from sequenced green and red algal genomes.
Ulvskov P, Paiva DS, Domozych D, Harholt J., PLoS One 8(10), 2013
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Inclusion of chloroplast genes that have undergone expansion misleads phylogenetic reconstruction in the Chlorophyta
Novis PM, Smissen R, Buckley TR, Gopalakrishnan K, Visnovsky G., Am J Bot 100(11), 2013
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The Chlamydomonas mutant pf27 reveals novel features of ciliary radial spoke assembly.
Alford LM, Mattheyses AL, Hunter EL, Lin H, Dutcher SK, Sale WS., Cytoskeleton (Hoboken) 70(12), 2013
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The simplest integrated multicellular organism unveiled.
Arakaki Y, Kawai-Toyooka H, Hamamura Y, Higashiyama T, Noga A, Hirono M, Olson BJ, Nozaki H., PLoS One 8(12), 2013
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Similar relative mutation rates in the three genetic compartments of Mesostigma and Chlamydomonas.
Hua J, Smith DR, Borza T, Lee RW., Protist 163(1), 2012
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Microalgae in the postgenomic era: a blooming reservoir for new natural products.
Sasso S, Pohnert G, Lohr M, Mittag M, Hertweck C., FEMS Microbiol Rev 36(4), 2012
PMID: 22091538
Phytozome: a comparative platform for green plant genomics.
Goodstein DM, Shu S, Howson R, Neupane R, Hayes RD, Fazo J, Mitros T, Dirks W, Hellsten U, Putnam N, Rokhsar DS., Nucleic Acids Res 40(database issue), 2012
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Dissecting plant genomes with the PLAZA comparative genomics platform.
Van Bel M, Proost S, Wischnitzki E, Movahedi S, Scheerlinck C, Van de Peer Y, Vandepoele K., Plant Physiol 158(2), 2012
PMID: 22198273
Oxygen levels and the regulation of cell adhesion in the nervous system: a control point for morphogenesis in development, disease and evolution?
Crossin KL., Cell Adh Migr 6(1), 2012
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Genomics of Volvocine Algae.
Umen JG, Olson BJ., Adv Bot Res 64(), 2012
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Genomics of Volvocine Algae
Umen JG, Olson BJSC., Adv Bot Res 64(), 2012
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Dynamic evolution of telomeric sequences in the green algal order Chlamydomonadales.
Fulnečková J, Hasíková T, Fajkus J, Lukešová A, Eliáš M, Sýkorová E., Genome Biol Evol 4(3), 2012
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Experimental evolution of multicellularity.
Ratcliff WC, Denison RF, Borrello M, Travisano M., Proc Natl Acad Sci U S A 109(5), 2012
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Diversification and Expression of the PIN, AUX/LAX, and ABCB Families of Putative Auxin Transporters in Populus.
Carraro N, Tisdale-Orr TE, Clouse RM, Knöller AS, Spicer R., Front Plant Sci 3(), 2012
PMID: 22645571
General trends in the utilization of structural factors contributing to biological complexity.
Yang D, Zhong F, Li D, Liu Z, Wei H, Jiang Y, He F., Mol Biol Evol 29(8), 2012
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Estimates of nuclear DNA content in red algal lineages.
Kapraun DF, Freshwater DW., AoB Plants 2012(), 2012
PMID: 22479676
Chlapsin, a chloroplastidial aspartic proteinase from the green algae Chlamydomonas reinhardtii.
Almeida CM, Pereira C, da Costa DS, Pereira S, Pissarra J, Simões I, Faro C., Planta 236(1), 2012
PMID: 22349731
Characterization of the plasma membrane H+-ATPase in the liverwort Marchantia polymorpha.
Okumura M, Inoue S, Takahashi K, Ishizaki K, Kohchi T, Kinoshita T., Plant Physiol 159(2), 2012
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The ins and outs of algal metal transport.
Blaby-Haas CE, Merchant SS., Biochim Biophys Acta 1823(9), 2012
PMID: 22569643
A comparative analysis of the volvocaceae (chlorophyta)1
Coleman AW., J Phycol 48(3), 2012
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ZnO hollow spheres with double-yolk egg structure for high-performance photocatalysts and photodetectors.
Wang X, Liao M, Zhong Y, Zheng JY, Tian W, Zhai T, Zhi C, Ma Y, Yao J, Bando Y, Golberg D., Adv Mater 24(25), 2012
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Evolution of the PWWP-domain encoding genes in the plant and animal lineages.
Alvarez-Venegas R, Avramova Z., BMC Evol Biol 12(), 2012
PMID: 22734652
Origin of strigolactones in the green lineage.
Delaux PM, Xie X, Timme RE, Puech-Pages V, Dunand C, Lecompte E, Delwiche CF, Yoneyama K, Bécard G, Séjalon-Delmas N., New Phytol 195(4), 2012
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DsHsp90 is involved in the early response of Dunaliella salina to environmental stress.
Wang SJ, Wu MJ, Chen XJ, Jiang Y, Yan YB., Int J Mol Sci 13(7), 2012
PMID: 22942684
Lineage-specific fragmentation and nuclear relocation of the mitochondrial cox2 gene in chlorophycean green algae (Chlorophyta).
Rodríguez-Salinas E, Riveros-Rosas H, Li Z, Fucíková K, Brand JJ, Lewis LA, González-Halphen D., Mol Phylogenet Evol 64(1), 2012
PMID: 22724135
Treatment with antibiotics that interfere with peptidoglycan biosynthesis inhibits chloroplast division in the desmid Closterium.
Matsumoto H, Takechi K, Sato H, Takio S, Takano H., PLoS One 7(7), 2012
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Differential gene expression in Ulva prolifera under low light and low temperature conditions.
Li Y, Zhang X, Xu D, Zhuang Z, Ye N., Curr Genet 58(4), 2012
PMID: 22825218
Evolutionary appearance of the plasma membrane H (+) -ATPase containing a penultimate threonine in the bryophyte.
Okumura M, Takahashi K, Inoue S, Kinoshita T., Plant Signal Behav 7(8), 2012
PMID: 22836495
Gene duplication within the Green Lineage: the case of TEL genes.
Charon C, Bruggeman Q, Thareau V, Henry Y., J Exp Bot 63(14), 2012
PMID: 22865910
The polyphenol oxidase gene family in land plants: Lineage-specific duplication and expansion.
Tran LT, Taylor JS, Constabel CP., BMC Genomics 13(), 2012
PMID: 22897796
Systematic prediction of cis-regulatory elements in the Chlamydomonas reinhardtii genome using comparative genomics.
Ding J, Li X, Hu H., Plant Physiol 160(2), 2012
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Bio-crude transcriptomics: gene discovery and metabolic network reconstruction for the biosynthesis of the terpenome of the hydrocarbon oil-producing green alga, Botryococcus braunii race B (Showa).
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Nucleus- and nucleomorph-targeted histone proteins in a chlorarachniophyte alga.
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Evolutionary history of the non-specific lipid transfer proteins.
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The GreenCut2 resource, a phylogenomically derived inventory of proteins specific to the plant lineage.
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The chlorarachniophyte nucleomorph is supplemented with host cell nucleus-encoded histones.
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Insights into the evolution of vitamin B12 auxotrophy from sequenced algal genomes.
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A NEW SPECIES OF VOLVOX SECT. MERRILLOSPHAERA (VOLVOCACEAE, CHLOROPHYCEAE) FROM TEXAS¹
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Genome-wide functional annotation and structural verification of metabolic ORFeome of Chlamydomonas reinhardtii.
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Gene gain and loss during evolution of obligate parasitism in the white rust pathogen of Arabidopsis thaliana.
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Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio.
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RNA-mediated silencing in Algae: biological roles and tools for analysis of gene function.
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Chromatin remodeling system, cancer stem-like attractors, and cellular reprogramming.
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Evolution of sex and mating loci: an expanded view from Volvocine algae.
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The emergence of complexity and restricted pleiotropy in adapting networks.
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Construction and evaluation of a whole genome microarray of Chlamydomonas reinhardtii.
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Paleontology. Terminal developments in Ediacaran embryology.
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The microbial opsin family of optogenetic tools.
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Eukaryote DIRS1-like retrotransposons: an overview.
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Comprehensive analysis of tandem amino acid repeats from ten angiosperm genomes.
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Genome-wide phylogenetic comparative analysis of plant transcriptional regulation: a timeline of loss, gain, expansion, and correlation with complexity.
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DYW-type PPR proteins in a heterolobosean protist: plant RNA editing factors involved in an ancient horizontal gene transfer?
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Regulation of the Chlamydomonas cell cycle by a stable, chromatin-associated retinoblastoma tumor suppressor complex.
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