References
- Adhikari B. 2015. Characterization of the activities of CpeU putative phycoerythrin lyase in Fremyella diplosiphon. InnovateUNO 2015 Poster, University of New Orleans.
- Alvey RM, Biswas A, Schluchter WM, Bryant DA. 2011. Attachment of noncognate chromophores to CpcA of Synechocystis sp. PCC 6803 and Synechococcus sp. PCC 7002 by heterologous expression in Escherichia coli. Biochemistry 50 : 4890-4902
- Alvey RM, Karty JA, Roos E, Reilly JP & Kehoe DM. 2003. Lesions in phycoerythrin chromophore biosynthesis in Fremyella diplosiphon reveal coordinated light regulation of apoprotein and pigment biosynthetic enzyme gene expression. Plant Cell 15 : 2448-2463
- Balabas BE, Montgomery BL, Ong LE, Kehoe DM. 2003. CotB is essential for complete activation of green light-induced genes during complementary chromatic adaptation in Fremyella diplosiphon. Mol Microbiol 50 : 781-793
- Bench SR, Ilikchyan IN, Tripp HJ & Zehr JP. 2011. Two strains of Crocosphaera watsonii with highly conserved genomes are distinguished by strain-specific features. Front Microbiol 2 : 261
- Bhalerao RP, Lind LK, Gustafsson P. 1994. Cloning of the cpcE and cpcF genes from Synechococcus sp. PCC 6301 and their inactivation in Synechococcus sp. PCC 7942. Plant Mol Biol 26 : 313-326
- Biswas A, Boutaghou MN, Alvey RM, Kronfel CM, Cole RB, Bryant DA, Schluchter WM.. 2011. Characterization of the activities of the CpeY, CpeZ, and CpeS bilin lyases in phycoerythrin biosynthesis in Fremyella diplosiphon strain UTEX 481. J Biol Chem 286(41) : 35509-21
- Biswas A, Vasquez YM, Dragomani TM, Kronfel ML, Williams SR, Alvey RM, Bryant DA, Schluchter WM. 2010. Biosynthesis of cyanobacterial phycobiliproteins in Escherichia coli: chromophorylation efficiency and specificity of all bilin lyases from Synechococcus sp. strain PCC 7002. Appl Environ Microbiol 76 : 2729-2739
- Blot N, Wu X-J, Thomas J-C, Zhang J, Garczarek L, Böhm S, Tu JM, Zhou M, Plöscher M, Eichacker L, Partensky F, Scheer H, Zhao KH. 2009. Phycourobilin in Trichromatic Phycocyanin from Oceanic Cyanobacteria Is Formed Post-translationally by a Phycoerythrobilin Lyase-Isomerase. J Biol Chem 284 : 9290-9298
- Bohm S, Endres S, Scheer H, Zhao KH. 2007. Biliprotein chromophore attachment - Chaperone-like function of the PecE subunit of alpha-phycoerythrocyanin lyase. J Biol Chem 282 : 25357-25366
- Bolte K, Kawach O, Prechtl J, Gruenheit N, Nyalwidhe J, Maier UG. 2008. Complementation of a phycocyanin-bilin lyase from Synechocystis sp. PCC 6803 with a nucleomorph-encoded open reading frame from the cryptophyte Guillardia theta. BMC Plant Biol 8 : 56
- Bryant DA, Cohen-Bazire G & Glazer AN. 1981. Characterization of the biliproteins of Gloeobacter violaceus: Chromophore content of a cyanobacterial phycoerythrin carrying phycourobilin chromophore. Archiv Microbiol 129 : 190- 198
- Cao X, Zang X, Liu Z, Jin Y, Sun D, Guo Y, Wang Z, Zhang F & Lin J. 2019. Molecular cloning of the cpeT gene encoding a bilin lyase responsible for attachment of phycoerythrobilin to Cys-158 on the β-subunit of phycoerythrin in Gracilariopsis lemaneiformis. J Appl Phycol : 1-10
- Carrigee LA, Frick JP, Karty JA, Garczarek L, Partensky F & Schluchter WM. 2021. MpeV is a lyase isomerase that ligates a doubly linked phycourobilin on the β-subunit of phycoerythrin I and II in marine Synechococcus. J Biol Chem 296 : 100031
- Carrigee LA, Frick JP, Liu X, Karty JA, Trinidad JC, Tom IP, Yang X, Dufour L, Partensky F & Schluchter WM. 2022. The phycoerythrobilin isomerization activity of MpeV in Synechococcus sp. WH8020 is prevented by the presence of a histidine at position 141 within its phycoerythrin-I β-subunit substrate. Front Microbiol 13 : 893413
- Carrigee LA, Mahmoud RM, Sanfilippo JE, Frick JP, Strnat JA, Karty JA, Chen B, Kehoe DM & Schluchter WM. 2020. CpeY is a phycoerythrobilin lyase for cysteine 82 of the phycoerythrin I α-subunit in marine Synechococcus. Biochim Biophys Acta Bioenerg 1861 : 148215
- Chen F, Wang K, Kan J, Suzuki MT, Wommack KE. 2006. Diverse and unique picocyanobacteria in Chesapeake Bay, revealed by 16S-23S rRNA internal transcribed spacer sequences. Appl Environ Microbiol 72 : 2239-2243
- Collén J, Porcel B, Carré W, Ball S, Chaparro C, Tonon T, Barbeyron T, Michel G, Noel B, Valentin K, Elias M & 47 coauthors. 2013. Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida. Proc Natl Acad Sci U S A 110 : 5247-5252
- Coste F & Kerbellec G. 2005a. A similar fragments merging approach to learn Automata on proteins. Proceed. 16th Eur. Conf. on Machine Learning (ECML 2005). eds Gama J, Camacho R, Brazdil P, Jorge A, & Torgo L. Springer-Verlag, Berlin, Heidelberg : 522-525
- Coste F. & Kerbellec G. 2005b. A similar fragments merging approach to learn Automata on proteins. INIRIA Research Report N° 5672 : 1-20
- Dagan T, Roettger M, Stucken K, Landan G, Koch R, Major P, Gould SB, Goremykin VV, Rippka R, Tandeau de Marsac N, Gugger M, Lockhart PJ, Allen JF, Brune I, Maus I, Puhler A and Martin WF. 2013. Genomes of Stigonematalean cyanobacteria (subsection V) and the evolution of oxygenic photosynthesis from prokaryotes to plastids. Genome Biol Evol 5 : 31-44
- Dammeyer T, Hofmann E, Frankenberg-Dinkel N. 2008. Phycoerythrobilin synthase (PebS) of a marine virus. Crystal structures of the biliverdin complex and the substrate-free form. J Biol Chem 283 : 27547-27554
- Delaye L, González-Domenech CM, Garcillán-Barcia MP, Peretó J, de la Cruz F, Moya A. 2011. Blueprint for a minimal photoautotrophic cell: conserved and variable genes in Synechococcus elongatus PCC 7942. BMC Genomics 12 : 25
- Derks AK, Vasiliev S, Bruce D. 2008. Under light limiting growth, CpcB lyase null mutants of the Cyanobacterium Synechococcus sp. PCC 7002 are capable of producing pigmented beta phycocyanin but with altered chromophore function. Biochemistry 47 : 11877-11884
- Dolganov N, Grossman AR. 1999. A polypeptide with similarity to phycocyanin alpha-subunit phycocyanobilin lyase involved in degradation of phycobilisomes. J Bacteriol 181 : 610-617
- Dufresne A, Ostrowski M, Scanlan DJ, Garczarek L, Mazard S, Palenik BP, Paulsen IT, Tandeau de Marsac N, Wincker P, Dossat C, Ferriera S, Johnson J, Post AF, Hess WR, Partensky F. 2008. Unraveling the genomic mosaic of a ubiquitous genus of marine cyanobacteria. Genome Biol 9 : R90
- Dufresne A, Salanoubat M, Partensky F, Artiguenave F, Axmann IM, Barbe V, Duprat S, Galperin MY, Koonin EV, Le Gall F, Makarova KS, Ostrowski M, Oztas S, Robert C, Rogozin IB, Scanlan DJ, Tandeau de Marsac N, Weissenbach J, Wincker P, Wolf YI, Hess WR. 2003. Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc Natl Acad Sci USA 100 : 10020-10025
- Fairchild CD, Glazer AN. 1994. Oligomeric structure, enzyme kinetics, and substrate specificity of the phycocyanin alpha subunit phycocyanobilin lyase. J Biol Chem 269 : 8686-8694
- Fairchild CD, Zhao J, Zhou J, Colson SE, Bryant DA, Glazer AN. 1992. Phycocyanin alpha-subunit phycocyanobilin lyase. Proc Natl Acad Sci USA 89 : 7017-7021
- Farrant GK, Hoebeke M, Partensky F, Andres G, Corre E & Garczarek L. 2015. WiseScaffolder: an algorithm for the semi-automatic scaffolding of Next Generation Sequencing data. BMC Bioinformatics 16 : 281
- Fujisawa T, Narikawa R, Okamoto S, Ehira S, Yoshimura H, Suzuki I, Masuda T, Mochimaru M, Takaichi S, Awai K, Sekine M, Horikawa H, Yashiro I, Omata S, Takarada H, Katano Y, Kosugi H, Tanikawa S, Ohmori K, Sato N, Ikeuchi M, Fujita N & Ohmori M. 2010. Genomic structure of an economically important cyanobacterium, Arthrospira (Spirulina) platensis NIES-39. DNA Res 17 : 85-103
- Fuller NJ, Marie D, Partensky F, Vaulot D, Post AF and DJ Scanlan. 2003. Clade-specific 16S ribosomal DNA oligonucleotides reveal the predominance of a single marine Synechococcus clade throughout a stratified water column in the Red Sea. Appl Environ Microbiol 69 : 2430-2443
- Gasper R, Schwach J, Hartmann J, Holtkamp A, Wiethaus J, Riedel N, Hofmann E & Frankenberg-Dinkel N. 2017. Distinct features of cyanophage-encoded T-type phycobiliprotein lyase Phi-CpeT: The role of auxilliary genes. J Biol Chem 292 : 3089-3098
- Glazer AN & Wedemayer GJ. 1995. Cryptomonad biliproteins - an evolutionary perspective. Photosynth Res 46 : 93-105
- Grébert T, Doré H, Partensky F, Farrant GK, Boss ES, Picheral M, Guidi L, Pesant S, Scanlan DJ, Wincker P, Acinas SG, Kehoe DM & Garczarek L. 2018. Light color acclimation is a key process in the global ocean distribution of Synechococcus cyanobacteria. Proc Natl Acad Sci USA 115 : E2010-E2019
- Grébert T, Garczarek L, Daubin V, Humily F, Marie D, Ratin M, Devailly A, Farrant GK, Mary I, Mella-Flores D, Tanguy G, Labadie K, Wincker P, Kehoe DM, Partensky F. 2022. Diversity and evolution of pigment types in marine Synechococcus cyanobacteria. Genome Biol Evol 14 : evac035
- Grébert T, Nguyen AA, Pokhrel S, Joseph KL, Ratin M, Dufour L, Chen B, Haney AM, Karty JA, Trinidad JC, Garczarek L, Schluchter WM, Kehoe DM & Partensky F. 2021. Molecular bases of an alternative dual-enzyme system for light color acclimation of marine Synechococcus cyanobacteria. Proc Natl Acad Sci USA 118 : e2019715118
- Guan X, Qin S, Su Z, Zhao F, Ge B, Li F, Tang X. 2007. Combinational biosynthesis of a fluorescent cyanobacterial holo-alpha-phycocyanin in Escherichia coli by using one expression vector. Appl Biochem Biotechnol 142 : 52-59
- Hess WR, Rocap G, Ting CS, Larimer F, Stilwagen S, Lamerdin J, Chisholm SW. 2001. The photosynthetic apparatus of Prochlorococcus: Insights through comparative genomics. Photosynth Res 70 : 53-71
- Hess WR, Steglich C, Lichtlé C, Partensky F. 1999. Phycoerythrins of the oxyphotobacterium Prochlorococcus marinus are associated to the thylakoid membrane and are encoded by a single large gene cluster. Plant Molecular Biology 40 : 507-521
- Hu PP, Hou JY, Xu YL, Niu NN, Zhao C, Lu L, Zhou M, Scheer H, Zhao KH. 2019. The role of lyases, NblA and NblB proteins and bilin chromophore transfer in restructuring the cyanobacterial light harvesting complex. Plant J
- Humily F, Partensky F, Six C, Farrant GK, Ratin M, Marie D, Garczarek L. 2013. A gene island with two possible configurations is involved in chromatic acclimation in marine Synechococcus. PLoS One 8 : e84459
- Jung LJ, Chan CF, Glazer AN. 1995. Candidate genes for the phycoerythrocyanin alpha subunit lyase. Biochemical analysis of pecE and pecF interposon mutants. J Biol Chem 270 : 12877-12884
- Kahn K, Mazel D, Houmard J, Tandeau de Marsac N, Schaefer MR. 1997. A role for cpeYZ in cyanobacterial phycoerythrin biosynthesis. J Bacteriol 179 : 998-1006
- Kaneko T, Nakajima N, Okamoto S, Suzuki I, Tanabe Y, Tamaoki M, Nakamura Y, Kasai F, Watanabe A, Kawashima K, Kishida Y, Ono A, Shimizu Y, Takahashi C, Minami C, Fujishiro T, Kohara M, Katoh M, Nakazaki N, Nakayama S, Yamada M, Tabatai S, Watanabe MM. 2007. Complete genomic structure of the bloom-forming toxic cyanobacterium Microcystis aeruginosa NIES-843. DNA Res 14 : 247-256
- Kaneko T, Nakamura Y, Wolk CP, Kuritz T, Sasamoto S, Watanabe A, Iriguchi M, Ishikawa A, Kawashima K, Kimura T et al.. 2001. Complete genomic sequence of the filamentous nitrogen-fixing cyanobacterium Anabaena sp. strain PCC 7120. DNA Res 8 : 205-213
- Kaneko T, Sato S, Kotani H, Tanaka A, Asamizu E, Nakamura Y, Miyajima N, Hirosawa M, Sugiura M, Sasamoto S et al.. 1996. Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions. DNA Res 3 : 109-136
- Kaneko T, Tabata S. 1997. Complete genome structure of the unicellular cyanobacterium Synechocystis sp. PCC6803. Plant Cell Physiol 38 : 1171-1176
- Kettler G, Martiny AC, Huang K, Zucker J, Coleman ML, Rodrigue S, Chen F, Lapidus A, Ferriera S, Johnson J, Steglich C, Church G, Richardson P, Chisholm SW. 2007. Patterns and implications of gene gain and loss in the evolution of Prochlorococcus. PLoS Genet 3 : e231
- Klotz AV, Glazer AN. 1985. Characterization of the bilin attachment sites in R-phycoerythrin. J Biol Chem 260 : 4856-4863
- Kronfel CM, Biswas A, Frick JP, Gutu A, Blensdorf T, Karty JA, Kehoe DM, Schluchter WM. 2019. The roles of the chaperone-like protein CpeZ and the phycoerythrobilin lyase CpeY in phycoerythrin biogenesis. Biochim Biophys Acta Bioenerg 1860 : 549-56
- Kronfel CM, Hernandez CV, Frick JP, Hernandez LS, Gutu A, Karty JA, Boutaghou MN, Kehoe DM, Cole RB, Schluchter WM. 2019. CpeF is the bilin lyase that ligates the doubly linked phycoerythrobilin on β-phycoerythrin in the cyanobacterium Fremyella diplosiphon. J Biol Chem
- Kumarapperuma I, Joseph KL, Wang C, Biju L, Tom I, Grébert T, Partensky F, Schluchter WM & Yang X. 2022. Crystal structure and molecular mechanism of an E/F type bilin lyase-isomerase. Structure 30 : 564-574
- Kupka M, Zhang J, Fu WL, Tu JM, Bohm S, Su P, Chen Y, Zhou M, Scheer H, Zhao KH. 2009. Catalytic mechanism of S-type phycobiliprotein lyase: chaperone-like action and functional amino acid residues. J Biol Chem 284 : 36405-36414
- Kuzin AP, Su M, Seetharaman J, Forouhar F, Wang D, Janjua H, Cunningham K, Ma L-C, Xiao R, Liu J, Baran MC, Acton TB, Rost B, Montelione GT, Tong L & Hunt JF. 2007. Crystal Structure Of Fatty Acid-Binding Protein-Like Ycf58 From Thermosynecoccus Elongatus. Northeast Structural Genomics Consortium Target Ter13. Protein Data Base PDB_ID: 3BDR
- Lane CE, van den Heuvel K, Kozera C, Curtis BA, Parsons BJ, Bowman S & Archibald JM. 2007. Nucleomorph genome of Hemiselmis andersenii reveals complete intron loss and compaction as a driver of protein structure and function. Proc Natl Acad Sci USA 104 : 19908-19913
- Li H, Sherman LA. 2002. Characterization of Synechocystis sp. strain PCC 6803 and Delta nbl mutants under nitrogen-deficient conditions. Archiv Microbiol 178 : 256-266
- Ludwig M, Bryant DA. 2011. Transcription Profiling of the Model Cyanobacterium Synechococcus sp. Strain PCC 7002 by Next-Gen (SOLiD™) Sequencing of cDNA. Front Microbiol 2 : 41
- Mahmoud RM, Sanfilippo JE, Nguyen AA, Strnat JA, Partensky F, Garczarek L, El Kassem NA, Kehoe DM & Schluchter WM. 2017. Adaptation to blue light in marine Synechococcus requires MpeU, an enzyme with similarity to phycoerythrobilin lyase isomerases. Front Microbiol 8 : 243
- Marquardt J, Senger H, Miyashita H, Miyachi S & Morschel E. 1997. Isolation and characterization of biliprotein aggregates from Acaryochloris marina, a Prochloron-like prokaryote containing mainly chlorophyll d. FEBS Lett 410 : 428-432
- Matsuzaki M, Misumi O, Shin IT, Maruyama S, Takahara M, Miyagishima SY, Mori T, Nishida K, Yagisawa F, Yoshida Y et al. 2004. Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D. Nature 428 : 653-657
- Mazard S, Ostrowski M, Partensky F, Scanlan DJ. 2012. Multi-locus sequence analysis, taxonomic resolution and biogeography of marine Synechococcus. Environmental Microbiology 14 : 372–386
- Meeks JC, Elhai J, Thiel T, Potts M, Larimer F, Lamerdin J, Predki P, Atlas R. 2001. An overview of the genome of Nostoc punctiforme, a multicellular, symbiotic cyanobacterium. Photosynth Res 70 : 85-106
- Miller SR, Augustine S, Olson TL, Blankenship RE, Selker J, Wood AM.. 2005. Discovery of a free-living chlorophyll d-producing cyanobacterium with a hybrid proteobacterial/cyanobacterial small-subunit rRNA gene.. PNAS 102(3) : 850-5
- Mohr R, Voss B, Schliep M, Kurz T, Maldener I, Adams DG, Larkum AD, Chen M, Hess WR. 2010. A new chlorophyll d-containing cyanobacterium: evidence for niche adaptation in the genus Acaryochloris. ISME J 4 : 1456-1469
- Moore LR & Chisholm SW. 1999. Photophysiology of the marine cyanobacterium Prochlorococcus: Ecotypic differences among cultured isolates. Limnol Oceanogr 44 : 628-638
- Morimoto K, Sato S, Tabata S, Nakai M. 2003. A HEAT-repeats containing protein, IaiH, stabilizes the iron-sulfur cluster bound to the cyanobacterial IscA homologue, IscA2. J Biochem 134 : 211-217
- Nakamura Y, Kaneko T, Sato S, Ikeuchi M, Katoh H, Sasamoto S, Watanabe A, Iriguchi M, Kawashima K, Kimura T et al.. 2002. Complete genome structure of the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1. DNA Res 9 : 123-130
- Nakamura Y, Kaneko T, Sato S, Mimuro M, Miyashita H, Tsuchiya T, Sasamoto S, Watanabe A, Kawashima K, Kishida Y, Kiyokawa C, Kohara M, Matsumoto M, Matsuno A, Nakazaki N, Shimpo S, Takeuchi C, Yamada M, Tabata S. 2003. Complete genome structure of Gloeobacter violaceus PCC 7421, a cyanobacterium that lacks thylakoids. DNA Res 10 : 137-145
- Nowack EC, Vogel H, Groth M, Grossman AR, Melkonian M, Glockner G. 2011. Endosymbiotic gene transfer and transcriptional regulation of transferred genes in Paulinella chromatophora. Mol Biol Evol 28 : 407-422
- Nowack ECM, Melkonian M & Glöckner G. 2008. Chromatophore genome sequence of Paulinella sheds light on acquisition of photosynthesis by eukaryotes. Curr Biol 18 : 410-418
- Ong LJ & Glazer AN. 1987. R-phycocyanin II, a new phycocyanin occurring in marine Synechococcus species. J Biol Chem 262 : 6323-6327
- Ong LJ & Glazer AN:. 1991. Phycoerythrins of marine unicellular cyanobacteria. I. Bilin types and locations and energy transfer pathways in Synechococcus spp. phycoerythrins. J Biol Chem 266 : 9515-9527
- Overkamp KE Gasper R, Kock K, Herrmann C, Hofmann E & Frankenberg-Dinkel N. 2014. Insights into the biosynthesis and assembly of cryptophycean phycobiliproteins♦. J Biol Chem 289 : P26691-26707
- Palenik B, Brahamsha B, Larimer FW, Land M, Hauser L, Chain P, Lamerdin J, Regala W, Allen EE, McCarren J, Paulsen I, Dufresne A, Partensky F, Webb EA, Waterbury J. 2003. The genome of a motile marine Synechococcus. Nature 424 : 1037-1042
- Palenik B, Ren QH, Dupont CL, Myers GS, Heidelberg JF, Badger JH, Madupu R, Nelson WC, Brinkac LM, Dodson RJ, Durkin AS, Daugherty SC, Sullivan SA, Khouri H, Mohamoud Y, Halpin R, Paulsen IT. 2006. Genome sequence of Synechococcus CC9311: Insights into adaptation to a coastal environment. Proc Natl Acad Sci USA 103 : 13555-13559
- Ran L, Larsson J, Vigil-Stenman T, Nylander JAA, Ininbergs K, Zheng W-W, Lapidus A, Lowry S, Haselkorn R & Bergman B. 2010. Genome erosion in a nitrogen-fixing vertically transmitted endosymbiotic multicellular cyanobacterium. PLoS One 5 : e11486
- Rocap G, Larimer FW, Lamerdin J, Malfatti S, Chain P, Ahlgren NA, Arellano A, Coleman M, Hauser L, Hess WR, Johnson ZI, Land M, Lindell D, Post AF, Regala W, Shah M, Shaw SL, Steglich C, Sullivan MB, Ting CS, Tolonen A, Webb EA, Zinser ER, Chisholm SW. 2003. Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424 : 1042-1047
- Sanfilippo JE, Nguyen AA, Garczarek L, Karty JA, Strnat JA, Partensky F, Schluchter WM & Kehoe DM. 2019. Interplay between differentially expressed enzymes contributes to light color acclimation in marine Synechococcus. Proc Natl Acad Sci USA 116 : 6457-6462
- Sanfilippo JE, Nguyen AA, Karty JA, Shukla A, Schluchter WM, Garczarek L, Partensky F & Kehoe DM. 2016. Self-regulating genomic island encoding tandem regulators confers chromatic acclimation to marine Synechococcus. Proc Natl Acad Sci USA 113 : 6077-6082
- Saunée NA, Williams SR, Bryant DA, Schluchter WM. 2008. Biogenesis of phycobiliproteins: II. CpcS-I and CpcU comprise the heterodimeric bilin lyase that attaches phycocyanobilin to Cys-82 of beta-phycocyanin and Cys-81 of allophycocyanin subunits in Synechococcus sp. PCC 7002. J Biol Chem 283 : 7513-7522
- Scheer H, Zhao KH. 2008. Biliprotein maturation: the chromophore attachment. Mol Microbiol 68 : 263-276
- Schluchter WM, Shen G, Alvey RM, Biswas A, Saunée NA, Williams SR, Mille CA, Bryant DA. 2010. Phycobiliprotein Biosynthesis in Cyanobacteria: Structure and Function of Enzymes Involved in Post-translational Modification. Adv Exp Med Biol 675 : 211-228
- Shen G, Saunée NA, Williams SR, Gallo EF, Schluchter WM, Bryant DA. 2006. Identification and characterization of a new class of bilin lyase: the cpcT gene encodes a bilin lyase responsible for attachment of phycocyanobilin to Cys-153 on the beta subunit of phycocyanin in Synechococcus sp. PCC 7002. J Biol Chem 281 : 17768-17778
- Shen G, Schluchter WM, Bryant DA. 2008. Biogenesis of phycobiliproteins: I. cpcS-I and cpcU mutants of the cyanobacterium Synechococcus sp. PCC 7002 define a heterodimeric phycocyanobilin lyase specific for beta-phycocyanin and allophycocyanin subunits. J Biol Chem 283 : 7503-7512
- 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 and Kerfeld CA. 2013. Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing. Proc Natl Acad Sci U S A 110 : 1053-1058
- Shukla A, Biswas A, Blot N, Partensky F, Karty JA, Hammad LA, Garczarek L, Gutu A, Schluchter WM, Kehoe DM. 2012. Phycoerythrin-specific bilin lyase-isomerase controls blue-green chromatic acclimation in marine Synechococcus. Proc Natl Acad Sci USA 49 : 20136-20141
- Sidler, WA. 1994. Phycobilisome and phycobiliprotein structure. The Molecular Biology of Cyanobacteria. Bryant, D. A. (Ed.). Kluwer Academic Publishers, Netherlands : 139-216
- Six C, Thomas J-C, Thion L, Lemoine Y, Zal F & Partensky F. 2005. Two novel phycoerythrin-associated linker proteins in the marine cyanobacterium Synechococcus sp. strain WH8102. J Bacteriol 187 : 1685-1694
- Six C, Thomas JC, Garczarek L, Ostrowski M, Dufresne A, Blot N, Scanlan DJ, Partensky F. 2007. Diversity and evolution of phycobilisomes in marine Synechococcus spp.: a comparative genomics study. Genome Biol 8 : R259
- Spear-Bernstein L, Miller KR. 1989. Unique location of the phycobiliprotein light-harvesting pigment in the cryptophyceae. J Phycol 25 : 412-419
- Steglich C, Mullineaux CW, Teuchner K, Hess WR, Lokstein H. 2003. Photophysical properties of Prochlorococcus marinus SS120 divinyl chlorophylls and phycoerythrin in vitro and in vivo. FEBS Lett 553 : 79-94
- Storf M, Parbel A, Meyer M, Strohmann B, Scheer H, Deng MG, Zheng M, Zhou M, Zhao KH. 2001. Chromophore attachment to biliproteins: specificity of PecE/PecF, a lyase-isomerase for the photoactive 3(1)-cys-alpha 84-phycoviolobilin chromophore of phycoerythrocyanin. Biochemistry 40 : 12444-12456
- Stucken K, John U, Cembella A, Murillo AA, Soto-Liebe K, Fuentes-Valdes JJ, Friedel M, Plominsky AM, Vasquez M, Glockner G. 2010. The Smallest Known Genomes of Multicellular and Toxic Cyanobacteria: Comparison, Minimal Gene Sets for Linked Traits and the Evolutionary Implications. PLoS One 5 : e9235
- Sugita C, Ogata K, Shikata M, Jikuya H, Takano J, Furumichi M, Kanehisa M, Omata T, Sugiura M, Sugita M. 2007. Complete nucleotide sequence of the freshwater unicellular cyanobacterium Synechococcus elongatus PCC 6301 chromosome: gene content and organization. Photosynth Res 93 : 55-67
- Swanson RV, de Lorimier R, Glazer AN. 1992. Genes encoding the phycobilisome rod substructure are clustered on the Anabaena chromosome: characterization of the phycoerythrocyanin operon. J Bacteriol 174 : 2640-2647
- Swanson RV, Ong LJ, Wilbanks SM & Glazer AN. 1991. Phycoerythrins of marine unicellular cyanobacteria. II. Characterization of phycobiliproteins with unusually high phycourobilin. J Biol Chem 266 : 9528-9534
- Swanson RV, Zhou J, Leary JA, Williams T, de Lorimier R, Bryant DA, Glazer AN. 1992. Characterization of phycocyanin produced by cpcE and cpcF mutants and identification of an intergenic suppressor of the defect in bilin attachment. J Biol Chem 267 : 16146-16154
- Swingley WD, Chen M, Cheung PC, Conrad AL, Dejesa LC, Hao J, Honchak BM, Karbach LE, Kurdoglu A, Lahiri S, Mastrian SD, Miyashita H, Page L, Ramakrishna P, Satoh S, Sattley WM, Shimada Y, Taylor HL, Tomo T, Tsuchiya T, Wang ZT, Raymond J, Mimuro M, Blanke. 2008. Niche adaptation and genome expansion in the chlorophyll d-producing cyanobacterium Acaryochloris marina. Proc Natl Acad Sci USA 105 : 2005-2010
- Tooley AJ, Glazer AN. 2002. Biosynthesis of the cyanobacterial light-harvesting polypeptide phycoerythrocyanin holo-alpha subunit in a heterologous host. J Bacteriol 184 : 4666-4671
- Tu JM, Kupka M, Bohm S, Ploscher M, Eichacker L, Zhao KH, Scheer H. 2008. Intermediate binding of phycocyanobilin to the lyase, CpeS1, and transfer to apoprotein. Photosynth Res 95 : 163-168
- Tu JM, Zhou M, Haessner R, Ploscher M, Eichacker L, Scheer H, Zhao KH. 2009. Toward a mechanism for biliprotein lyases: revisiting nucleophilic addition to phycocyanobilin. J Am Chem Soc 131 : 5399-5401
- Welsh EA, Liberton M, Stockel J, Loh T, Elvitigala T, Wang C, Wollam A, Fulton RS, Clifton SW, Jacobs JM, Aurora R, Ghosh BK, Sherman LA, Smith RD, Wilson RK, Pakrasi HB. 2008. The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle. Proc Natl Acad Sci USA 105 : 15094-15099
- Wiethaus J, Busch AW, Dammeyer T, Frankenberg-Dinkel N. 2010. Phycobiliproteins in Prochlorococcus marinus: Biosynthesis of pigments and their assembly into proteins. Eur J Cell Biol 89 : 1005-1010
- Wiethaus J, Busch AW, Kock K, Leichert LI, Herrmann C, Frankenberg-Dinkel N. 2010. CpeS is a lyase specific for attachment of 3Z-PEB to Cys82 of {beta}-phycoerythrin from Prochlorococcus marinus MED4. J Biol Chem 285 : 37561-37569
- Wilbanks SM & Glazer AN. 1993. Rod structure of a phycoerythrin II-containing phycobilisome. II. Complete sequence and bilin attachment site of a phycoerythrin gamma subunit. J Biol Chem 268 : 1236-1241
- Wilbanks SM, Glazer AN. 1993. Rod structure of a phycoerythrin II-containing phycobilisome. I. Organization and sequence of the gene cluster encoding the major phycobiliprotein rod components in the genome of marine Synechococcus sp. WH8020. J Biol Chem 268 : 1226-1235
- Wu SH, Lagarias JC. 2000. Defining the bilin lyase domain: Lessons from the extended phytochrome superfamily. Biochemistry 39 : 13487-13495
- Yoon HS, Nakayama T, Reyes-Prieto A, Andersen RA, Boo SM, Ishida K, Bhattacharya D. 2009. A single origin of the photosynthetic organelle in different Paulinella lineages. BMC Evol Biol 9 : 98
- Zhang J, Sun YF, Zhao KH, Zhou M. 2012. Identification of amino acid residues essential to the activity of lyase CpcT1 from Nostoc sp. PCC7120. Gene In press
- Zhao C, Höppner A, Xu Q-Z, Gärtner W, Scheer H, Zhoua M & Zhao KH. 2017. Structures and enzymatic mechanisms of phycobiliprotein lyases CpcE/F and PecE/F. Proc Natl Acad Sci USA 114 : 3170–13175,
- Zhao K, Su P, Tu J, Wang X, Liu H, Plöscher M, Eichacker L, Yang B, Zhou M, Scheer H. 2007a. Phycobilin:cystein-84 biliprotein lyase, a near-universal lyase for cysteine-84-binding sites in cyanobacterial phycobiliproteins. Proc Natl Acad Sci USA 104 : 14300-14305
- Zhao KH, Deng MG, Zheng M, Zhou M, Parbel A, Storf M, Meyer M, Strohmann B, Scheer H. 2000. Novel activity of a phycobiliprotein lyase: both the attachment of phycocyanobilin and the isomerization to phycoviolobilin are catalyzed by the proteins PecE and PecF encoded by the phycoerythrocyanin operon. FEBS Lett 469 : sept-13
- Zhao KH, Su P, Li J, Tu JM, Zhou M, Bubenzer C, Scheer H. 2006. Chromophore attachment to phycobiliprotein beta-subunits: phycocyanobilin:cysteine-beta84 phycobiliprotein lyase activity of CpeS-like protein from Anabaena sp. PCC7120. J Biol Chem 281 : 8573-8581
- Zhao KH, Wu D, Wang L, Zhou M, Storf M, Bubenzer C, Strohmann B, Scheer H. 2002. Characterization of phycoviolobilin phycoerythrocyanin-alpha 84-cystein-lyase-(isomerizing) from Mastigocladus laminosus. Eur J Biochem 269 : 4542-4550
- Zhao KH, Wu D, Zhang L, Zhou M, Bohm S, Bubenzer C, Scheer H. 2006. Chromophore attachment in phycocyanin - Functional amino acids of phycocyanobilin-alpha-phycocyanin lyase and evidence for chromophore binding. FEBS J 273 : 1262-1274
- Zhao KH, Wu D, Zhou M, Zhang L. 2005. Amino acid residues associated with enzymatic activities of the isomerizing phycoviolobilin-lyase PecE/F. Biochemistry 44 : 8126-8137
- Zhao KH, Zhang J, Tu JM, Bohm S, Ploscher M, Eichacker L, Bubenzer C, Scheer H, Wang X, Zhou M. 2007b. Lyase activities of CpcS- and CpcT-like proteins from Nostoc PCC7120 and sequential reconstitution of binding sites of phycoerythrocyanin and phycocyanin beta-subunits. J Biol Chem 282 : 34093-34103
- Zhou J, Gasparich GE, Stirewalt VL, de Lorimier R, Bryant DA. 1992. The cpcE and cpcF genes of Synechococcus sp. PCC 7002. Construction and phenotypic characterization of interposon mutants. J Biol Chem 267 : 16138-16145
- Zhou W, Ding WL, Zeng XL, Dong LL, Zhao B, Zhou M, Scheer H, Zhao KH, Yang X. 2014. Structure and mechanism of the phycobilin lyase CpcT. J Biol Chem 289 : 26677-26689