Phylogenetic analysis of the light-harvesting system in Chromera velia

Photosynthesis Research

Volumn 111, Issue 1-2, 2012, Pages 19-28

  Pan, Hao ^a   Šlapeta, Jan ^a   Carter, Dee ^a   Chen, Min ^a  

^a UNIVERSITY OF SYDNEY   (Australia)

Author keywords

Chlorophyll binding protein complexes; Chromera velia (C. velia); Light harvesting protein complexes (LHC); Membrane spanning regions

Indexed keywords

ALVEOLATA; AMINO ACID SEQUENCE; ARTICLE; CHLOROPLAST; GENETICS; LIGHT HARVESTING SYSTEM; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PROTEIN MOTIF; RED ALGA; SEQUENCE ALIGNMENT;

ALVEOLATA; AMINO ACID MOTIFS; AMINO ACID SEQUENCE; CHLOROPLASTS; CONSERVED SEQUENCE; EVOLUTION, MOLECULAR; LIGHT-HARVESTING PROTEIN COMPLEXES; MOLECULAR SEQUENCE DATA; PHYLOGENY; RHODOPHYTA; SEQUENCE ALIGNMENT;

ALGAE; APICOMPLEXA; BACILLARIOPHYTA; DINOPHYCEAE; EUKARYOTA; RHODOPHYTA;

EID: 84858155473     PISSN: 01668595     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11120-011-9710-9     Document Type: Article

References (39)

1. JM Archibald 2009 The puzzle of plastid evolution Curr Biol 19 R81 R88 19174147 10.1016/j.cub.2008.11.067 1:CAS:528:DC%2BD1MXhtFequ78%3D
2. T Barros W Kühlbrandt 2009 Crystallisation, structure and function of plant light-harvesting complex II Biochim Biophys Acta Bioenerg 1787 753 772 10.1016/j.bbabio.2009.03.012 1:CAS:528:DC%2BD1MXntVSit7o%3D
3. Blankenship RE (2002) Molecular mechanisms of photosynthesis. Blackwell Science, Oxford
4. T Cavalier-Smith 1999 Principles of protein and lipid targeting in secondary symbiogenesis: euglenoid, dinoflagellate, and sporozoan plastid origins and the eukaryote family tree J Eukaryot Microbiol 46 347 366 18092388 10.1111/j.1550-7408.1999.tb04614.x 1:CAS:528:DyaK1MXlslSksrw%3D (Pubitemid 29395704)
5. C Cole JD Barber GJ Barton 2008 The Jpred 3 secondary structure prediction server Nucl Acids Res 36 W197 W201 18463136 10.1093/nar/gkn238 1:CAS:528:DC%2BD1cXptlKkt7w%3D
6. SM Dittami G Michel J Collen C Boyen T Tonon 2010 Chlorophyll-binding protein revisited-a multigenic family of light-harvesting and stress protein from a brown algal perspective BMC Evol Biol 10 365 21110855 10.1186/1471-2148-10-365 1:CAS:528:DC%2BC3cXhsFejsrzL
7. DG Durnford JA Deane S Tan GI McFadden E Gantt BR Green 1999 A phylogenetic assessment of the eukaryotic light-harvesting antenna proteins, with implications for plastid evolution J Mol Evol 48 59 68 9873077 10.1007/PL00006445 1:CAS:528:DyaK1MXlvFOjtA%3D%3D (Pubitemid 29044251)
8. R Flachmann W Kühlbrandt 1996 Crystallization and identification of an assembly defect of recombinant antenna complexes produced in transgenic tobacco plants Proc Natl Acad Sci USA 93 14966 14971 8962165 10.1073/pnas.93.25.14966 1:CAS:528:DyaK28XnsVOrsb8%3D (Pubitemid 26419079)
9. Gantt E, Grabowski B, Cunningham FX Jr (2003) Antenna systems of red algae: phycobilisomes with photosdystem II and chlorophyll complexes with photosystem I. In: Green BR, Parson WW (eds) Light-harvesting antennas in photosynthesis. Kluwer Academic Publisher, Dordrecht, pp 307-322
10. Green BR (2003) The Evolution of light-harvesting antennas. In: Green BR, Parson WW (eds) Light-harvesting antennas in photosynthesis. Kluwer Academic Publisher, Dordrecht, pp 129-168
11. Green BR (2007) The evolution of light-harvesting antennas. In: Falkowski PG, Knoll AH (eds) Evolution of primary producers in the sea. Elsevier, Burlington, pp 37-53
12. BR Green 2011 After the primary endosymbiosis: an update on the chromalveolate hypothesis and the origins of algae with Chl c Photosynth Res 107 103 115 20676772 10.1007/s11120-010-9584-2 1:CAS:528:DC%2BC3MXmtVerug%3D%3D
13. BR Green DG Durnford 1996 The chlorophyll-carotenoid proteins of oxygenic photosynthesis Annu Rev Plant Physiol Plant Mol Biol 47 685 714 15012305 10.1146/annurev.arplant.47.1.685 1:CAS:528:DyaK28XjtlWgt7o%3D
14. BR Green W Kühlbrandt 1995 Sequence conservation of light-harvesting and stress-response proteins in relation to the 3-dimensional molecular-structure of LHCII Photosynth Res 44 139 148 10.1007/BF00018304 1:CAS:528:DyaK2MXntlKksLs%3D
15. BR Green E Pichersky 1994 Hypothesis for the evolution of 3-helix Chl a/b and Chl a/c light-harvesting antenna proteins from 2-helix and 4-helix ancestors Photosynth Res 39 149 162 10.1007/BF00029382 1:CAS:528: DyaK2cXktVahsL4%3D (Pubitemid 2059100)
16. S Guindon JF Dufayard V Lefort M Anisimova W Hordijk O Gascuel 2010 New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0 Syst Biol 59 307 321 20525638 10.1093/sysbio/syq010 1:CAS:528:DC%2BC3cXks1Kms7s%3D
17. Hiller RG, Broughton MJ, Wrench PM, Sharples FP, Miller DJ, Catmull J (1999) Dinoflagellate light-harvesting proteins: genes, structure and reconstitution. In: Argyroudi-Akoyunoglou JH, Senger H (eds) Chloroplast from molecular biology to biotechnology. Nato Advanced Science Institute series, sub-series 3, high technology, vol 46. Springer, Dordrecht, pp 3-10
18. JK Hoober LL Eggink 1999 Assembly of light-harvesting complex II and biogenesis of thylakoid membranes in chloroplasts Photosynth Res 61 197 215 10.1023/A:1006313703640 1:CAS:528:DC%2BD3cXntFOhtQ%3D%3D (Pubitemid 30031053)
19. J Janouskovec A Horak M Obornik J Lukes PJ Keeling 2010 A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids Proc Natl Acad Sci USA 107 10949 10954 20534454 10.1073/pnas.1003335107
20. S Jansson 1999 A guide to the Lhc genes and their relatives in Arabidopsis Trends Plant Sci 4 236 240 10366881 10.1016/S1360-1385(99)01419-3 (Pubitemid 29270619)
21. AG Koziol T Borza KI Ishida P Keeling RW Lee DG Durnford 2007 Tracing the evolution of the light-harvesting antennae in chlorophyll a/b-containing organisms Plant Physiol 143 1802 1816 17307901 10.1104/pp.106.092536 1:CAS:528:DC%2BD2sXksFWjtbs%3D (Pubitemid 46849488)
22. W Kühlbrandt DN Wang Y Fujiyoshi 1994 Atomic model of plant light-harvesting complex by electron crystallography Nature 367 614 621 8107845 10.1038/367614a0 (Pubitemid 24067701)
23. J LaRoche D Henry K Wyman A Sukenik P Falkowski 1994 Cloning and nucleotide-sequence of a cDNA-encoding a major fucoxanthin, chlorophyll a/c-containing protein from the chrysophyte Isochrysis galbana-implications for evolution of the cab gene family Plant Mol Biol 25 355 368 8049362 10.1007/BF00043865 1:CAS:528:DyaK2cXmsVOltrg%3D (Pubitemid 2117153)
24. B Lepetit D Volke M Gilbert C Wilhelm R Goss 2010 Evidence for the existence of one antenna-associated, lipid-dissolved and two protein-bound pools of diadinoxanthin cycle pigments in diatoms Plant Physiol 154 1905 1920 20935178 10.1104/pp.110.166454 1:CAS:528:DC%2BC3cXhsF2jsbfE
25. L Lim GI McFadden 2010 The evolution, metabolism and functions of the apicoplast Philos Trans R Soc B Biol Sci 365 749 763 10.1098/rstb.2009.0273 1:CAS:528:DC%2BC3cXjtFCqtb8%3D
26. ZF Liu HC Yan KB Wang TY Kuang JP Zhang LL Gui XM An WR Chang 2004 Crystal structure of spinach major light-harvesting complex at 2.72 angstrom resolution Nature 428 287 292 15029188 10.1038/nature02373 1:CAS:528: DC%2BD2cXitFCntbc%3D (Pubitemid 38418793)
27. RB Moore M Obornik J Janouskovec T Chrudimsky M Vancova DH Green SW Wright NW Davies CJS Bolch K Heimann J Slapeta O Hoegh-Guldberg JM Logsdon DA Carter 2008 A photosynthetic alveolate closely related to apicomplexan parasites Nature 451 959 963 18288187 10.1038/nature06635 1:CAS:528:DC%2BD1cXit1ynsrs%3D (Pubitemid 351301735)
28. JL Moseley CW Chang AR Grossman 2006 Genome-based approaches to understanding phosphorus deprivation responses and PSR1 control in Chlamydomonas reinhardtii Eukaryot Cell 5 26 44 16400166 10.1128/EC.5.1.26-44.2006 1:CAS:528:DC%2BD28Xot1yntA%3D%3D (Pubitemid 43113449)
29. B Naumann A Busch J Allmer E Ostendorf M Zeller H Kirchhoff M Hippler 2007 Comparative quantitative proteomics to investigate the remodeling of bioenergetic pathways under iron deficiency in Chlamydomonas reinhardtii Proteomics 7 3964 3979 17922516 10.1002/pmic.200700407 1:CAS:528: DC%2BD2sXhtlOgurvK (Pubitemid 350100012)
30. JAD Neilson DG Durnford 2010 Structural and functional diversification of the light-harvesting complexes in photosynthetic eukaryotes Photosynth Res 106 57 71 20596891 10.1007/s11120-010-9576-2 1:CAS:528:DC%2BC3cXht1ahtbfI
31. M Obornik M Vancova DH Lai J Janouskovec PJ Keeling J Lukes 2011 Morphology and ultrastructure of multiple life cycle stages of the photosynthetic relative of apicomplexa, Chromera velia Protist 162 115 130 20643580 10.1016/j.protis.2010.02.004
32. G Peers TB Truong E Ostendorf A Busch D Elrad AR Grossman M Hippler KK Niyogi 2009 An ancient light-harvesting protein is critical for the regulation of algal photosynthesis Nature 462 518 521 19940928 10.1038/nature08587 1:CAS:528:DC%2BD1MXhsVylsL7I
33. C Richard H Ouellet M Guertin 2000 Characterization of the LI818 polypeptide from the green unicellular alga Chlamydomonas reinhardtii Plant Mol Biol 42 303 316 10794530 10.1023/A:1006340308077 1:CAS:528:DC%2BD3cXivVKktbY%3D (Pubitemid 30213408)
34. F Ronquist JP Huelsenbeck 2003 MrBayes 3: Bayesian phylogenetic inference under mixed models Bioinformatics 19 1572 1574 10.1093/bioinformatics/btg180 12912839 10.1093/bioinformatics/btg180 1:CAS:528:DC%2BD3sXntlKms7k%3D (Pubitemid 37038874)
35. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Bio Evol. doi: 10.1093/molbev/msr121
36. S Tan A Ducret R Aebersold E Gantt 1997 Red algal LHC I genes have similarities with both Chl a/b- and a/c-binding proteins: A 21 kDa polypeptide encoded by LhcaR2 is one of the six LHC I polypeptides Photosynth Res 53 129 140 10.1023/A:1005815321295 1:CAS:528:DyaK2sXotFSlsrs%3D (Pubitemid 27523361)
37. K Weatherby S Murray D Carter J Slapeta 2011 Surface and flagella morphology of the motile form of Chromera velia revealed by field-emission scanning electron microscopy Protist 162 142 153 20643581 10.1016/j.protis.2010. 02.003
38. ZD Zhang J Shrager M Jain CW Chang O Vallon AR Grossman 2004 Insights into the survival of Chlamydomonas reinhardtii during sulfur starvation based on microarray analysis of gene expression Eukaryot Cell 3 1331 1348 15470261 10.1128/EC.3.5.1331-1348.2004 1:CAS:528:DC%2BD2cXptFaisLs%3D (Pubitemid 39385240)
39. SH Zhu BR Green 2010 Photoprotection in the diatom Thalassiosira pseudonana: role of LI818-like proteins in response to high light stress Biochim Biophys Acta Bioenerg 1797 1449 1457 10.1016/j.bbabio.2010.04.003 1:CAS:528:DC%2BC3cXnvFSjtL0%3D