Functions, compositions, and evolution of the two types of carboxysomes: Polyhedral microcompartments that facilitate CO2 fixation in cyanobacteria and some proteobacteria

Microbiology and Molecular Biology Reviews

Volumn 77, Issue 3, 2013, Pages 357-379

  Rae, Benjamin D ^a,b   Long, Benedict M ^a   Badger, Murray R ^a   Price, G Dean ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CARBONATE DEHYDRATASE; MICROCYSTIN; RIBULOSEBISPHOSPHATE CARBOXYLASE;

CARBON DIOXIDE FIXATION; CARBOXYSOME; CYANOBACTERIUM; GENETIC ORGANIZATION; HUMAN; MOLECULAR EVOLUTION; MOLECULAR MODEL; OPERON; PROTEOBACTERIA; REVIEW;

CARBON DIOXIDE; CYANOBACTERIA; MODELS, BIOLOGICAL; PROTEOBACTERIA; RIBULOSE-BISPHOSPHATE CARBOXYLASE;

EID: 84884528591     PISSN: 10922172     EISSN: 10985557     Source Type: Journal    
DOI: 10.1128/MMBR.00061-12     Document Type: Review

References (246)

1. 2 concentrating mechanisms in cyanobacteria. Funct. Plant Biol. 29:161-173. (Pubitemid 34853353)
2. 2 concentrating mechanisms in cyanobacteria: molecular components, their diversity and evolution. J. Exp. Bot. 54:609-622. (Pubitemid 36189206)
3. Raven JA. 2003. Inorganic carbon concentrating mechanisms in relation to the biology of algae. Photosynth. Res. 77:155-171. (Pubitemid 37293028)
4. 2-concentrating mechanisms in algae. Can. J. Bot. 76:1052-1071. (Pubitemid 29042840)
5. Cleland WW, Andrews TJ, Gutteridge S, Hartman FC, Lorimer GH. 1998. Mechanism of RUBISCO-the carbamate as general base. Chem. Rev. 98:549-561. (Pubitemid 128631434)
6. Spreitzer RJ, Salvucci ME. 2002. Rubisco: structure, regulatory interactions, and possibilities for a better enzyme. Annu. Rev. Plant Biol. 53:449-475. (Pubitemid 36257503)
7. 2-sequestering enzyme, Rubisco. Plant Physiol. 155:27-35.
8. Tcherkez GGB, Farquhar GD, Andrews TJ. 2006. Despite slow catalysis and confused substrate specificity, all ribulose bisphosphate carboxylases may be nearly perfectly optimized. Proc. Natl. Acad. Sci. U. S. A. 103:7246-7251. (Pubitemid 43727818)
9. 2. Geochim. Cosmochim. Acta 70:5653-5664. (Pubitemid 44712462)
10. Raven JA. 1997. The role of marine biota in the evolution of terrestrial biota: gases and genes. Atmospheric composition and evolution of terrestrial biota. Biogeochemistry 39:139-164. (Pubitemid 27433900)
11. 2 acquisition by the CBB cycle. J. Exp. Bot. 59:1525-1541. (Pubitemid 351786561)
12. Sage RF. 2004. The evolution of C4 photosynthesis. New Phytol. 161:341-370.
13. 2: carboxylases, carbon-concentrating mechanisms and carbon oxidation cycles. Philos. Trans. R. Soc. Lond. B Biol. Sci. 367:493-507.
14. 2-concentrating-mechanism (CCM): functional components, Ci transporters, diversity, genetic regulation and prospects for engineering into plants. J. Exp. Bot. 59:1441-1461. (Pubitemid 351786553)
15. 2 concentrating mechanism. Photosynth. Res. 109:47-57.
16. Cannon GC, Shively JM. 1983. Characterization of a homogenous preparation of carboxysomes from Thiobacillus neapolitanus. Arch. Microbiol. 134:52-59. (Pubitemid 13027358)
17. Holthuijzen YA, Kuenen JG, Konings WN. 1987. Activity of ribulose- 1,5-bisphosphate carboxylase in intact and disrupted carboxysomes of Thiobacillus neapolitanus. FEMS Microbiol. Lett. 42:121-124. (Pubitemid 17094246)
18. Dobrinski KP, Longo DL, Scott KM. 2005. The carbon-concentrating mechanism of the hydrothermal vent chemolithoautotroph Thiomicrospira crunogena. J. Bacteriol. 187:5761-5766. (Pubitemid 41134313)
19. 2 concentrating mechanism. Plant Physiol. 91:505-513.
20. Volokita M, Zenvirth D, Kaplan A, Reinhold L. 1984. Nature of the inorganic carbon species actively taken up by the cyanobacterium Anabaena variabilis. Plant Physiol. 76:599-602.
21. Lanaras T, Hawthornthwaite AM, Codd GA. 1985. Localization of carbonic anhydrase in the cyanobacterium Chlorogloeopsis fritschii. FEMS Microbiol. Lett. 26:285-288. (Pubitemid 15148762)
22. Yagawa Y, Shiraiwa Y, Miyachi S. 1984. Carbonic anhydrase from the blue-green alga (cyanobacterium) Anabaena variabilis. Plant Cell Physiol. 25:775-783.
23. 2 recapture. Photosynth. Res. 109:115-122.
24. Spalding MH. 2008. Microalgal carbon-dioxide-concentrating mechanisms: Chlamydomonas inorganic carbon transporters. J. Exp. Bot. 59:1463-1473. (Pubitemid 351786555)
25. 2 acquisition, concentration and fixation in cyanobacteria and algae, p 369-397. In Leegood RC, Sharkey TD, Von Caemmerer S (ed), Photosynthesis: physiology and metabolism, vol 1. Kluwer, Dordrecht, The Netherlands.
26. Morel FMM, Cox EH, Kraepiel AML, Lane TW, Milligan AJ, Schaperdoth I, Reinfelder JR, Tortell PD. 2002. Acquisition of inorganic carbon by the marine diatom Thalassiosira weissflogii. Funct. Plant Biol. 29:301-308. (Pubitemid 34853367)
27. Eisenhut M, Ruth W, Haimovich M, Bauwe H, Kaplan A, Hagemann M. 2008. The photorespiratory glycolate metabolism is essential for cyanobacteria and might have been conveyed endosymbiontically to plants. Proc. Natl. Acad. Sci. U. S. A. 105:17199-17204.
28. Badger MR. 1980. Kinetic-properties of ribulose 1,5-bisphosphate carboxylase- oxygenase from Anabaena variabilis. Arch. Biochem. Biophys. 201:247-254.
29. Schwarz R, Reinhold L, Kaplan A. 1995. Low activation state of ribulose- 1,5-bisphosphate carboxylase oxygenase in carboxysome-defective Synechococcus mutants. Plant Physiol. 108:183-190.
30. Price GD, Coleman JR, Badger MR. 1992. Association of carbonic anhydrase activity with carboxysomes isolated from the cyanobacterium Synechococcus PCC7942. Plant Physiol. 100:784-793.
31. Evans JR. 1989. Photosynthesis and nitrogen relationships in leaves of C3 plants. Oecologia 78:9-19.
32. Field CB, Behrenfeld MJ, Randerson JT, Falkowski P. 1998. Primary production of the biosphere-integrating terrestrial and oceanic components. Science 281:237-240. (Pubitemid 28334501)
33. Liu HB, Nolla HA, Campbell L. 1997. Prochlorococcus growth rate and contribution to primary production in the equatorial and subtropical North Pacific Ocean. Aquat. Microb. Ecol. 12:39-47. (Pubitemid 127703861)
34. Liu HB, Landry MR, Vaulot D, Campbell L. 1999. Prochlorococcus growth rates in the central equatorial Pacific: an application of the fmax approach. J. Geophys. Res. Oceans 104:3391-3399. (Pubitemid 29317140)
35. 2 concentrating mechanism. J. Exp. Bot. 57:249-265. (Pubitemid 43063780)
36. 2- concentrating mechanism of Synechococcus WH5701 is composed of native and horizontally- acquired components. Photosynth. Res. 109:59-72.
37. Shibata M, Katoh H, Sonoda M, Ohkawa H, Shimoyama M, Fukuzawa H, Kaplan A, Ogawa T. 2002. Genes essential to sodium-dependent bicarbonate transport in cyanobacteria-function and phylogenetic analysis. J. Biol. Chem. 277:18658-18664. (Pubitemid 34952421)
38. Zhang P, Battchikova N, Jansen T, Appel J, Ogawa T, Aro EM. 2004. Expression and functional roles of the two distinct NDH-1 complexes and the carbon acquisition complex NdhD3/NdhF3/CupA/Sll1735 in Synechocystis sp PCC 6803. Plant Cell 16:3326-3340. (Pubitemid 41096009)
39. Price GD, Shelden MC, Howitt SM. 2011. Membrane topology of the cyanobacterial bicarbonate transporter, SbtA, and identification of potential regulatory loops. Mol. Membr. Biol. 28:265-275.
40. Price GD, Woodger FJ, Badger MR, Howitt SM, Tucker L. 2004. Identification of a SulP-type bicarbonate transporter in marine cyanobacteria. Proc. Natl. Acad. Sci. U. S. A. 101:18228-18233. (Pubitemid 40054102)
41. Price GD, Howitt SM. 2011. The cyanobacterial bicarbonate transporter BicA: its physiological role and the implications of structural similarities with human SLC26 transporters. Biochem. Cell Biol. 89:178-188.
42. Shelden MC, Howitt SM, Price GD. 2010. Membrane topology of the cyanobacterial bicarbonate transporter, BicA, a member of the SulP (SLC26A) family. Mol. Membr. Biol. 27:12-23.
43. Omata T, Takahashi Y, Yamaguchi O, Nishimura T. 2002. Structure, function and regulation of the cyanobacterial high-affinity bicarbonate transporter, BCT1. Funct. Plant Biol. 29:151-159. (Pubitemid 34853352)
44. Omata T, Price GD, Badger MR, Okamura M, Gohta S, Ogawa T. 1999. Identification of an ATP-binding cassette transporter involved in bicarbonate uptake in the cyanobacterium Synechococcus sp strain PCC 7942. Proc. Natl. Acad. Sci. U. S. A. 96:13571-13576.
45. von Rozycki T, Schultzel MA, Saier MH, Jr. 2004. Sequence analyses of cyanobacterial bicarbonate transporters and their homologues. J. Mol. Microbiol. Biotechnol. 7:102-108. (Pubitemid 38969862)
46. 3 - uptake in Synechocystis sp strain PCC 6803. J. Bacteriol. 182:2591-2596.
47. Ohkawa H, Pakrasi HB, Ogawa T. 2000. Two types of functionally distinct NAD(P)H dehydrogenases in Synechocystis sp strain PCC6803. J. Biol. Chem. 275:31630-31634.
48. 2 uptake systems in cyanobacteria: genes involved and their phylogenetic relationship with homologous genes in other organisms. Proc. Natl. Acad. Sci. U. S. A. 98:11789-11794. (Pubitemid 32928807)
49. 2 hydration in the cyanobacterium, Synechococcus sp. PCC7942. Mol. Microbiol. 43:425-435. (Pubitemid 34146732)
50. Ohkawa H, Sonoda M, Hagino N, Shibata M, Pakrasi HB, Ogawa T. 2002. Functionally distinct NAD(P)H dehydrogenases and their membrane localization in Synechocystis sp PCC6803. Funct. Plant Biol. 29:195-200. (Pubitemid 34853356)
51. Folea IM, Zhang P, Nowaczyk MM, Ogawa T, Aro E-M, Boekema EJ. 2008. Single particle analysis of thylakoid proteins from Thermosynechococcus elongatus and Synechocystis 6803: localization of the CupA subunit of NDH-1. FEBS Lett. 582:249-254.
52. 2 uptake in the cyanobacterium, Synechocystis sp. strain PCC 6803. Plant Cell Physiol. 49:994-997.
53. Price GD, Maeda S, Omata T, Badger MR. 2002. Modes of active inorganic carbon uptake in the cyanobacterium, Synechococcus sp PCC7942. Funct. Plant Biol. 29:131-149. (Pubitemid 34853351)
54. 2-concentrating mechanism in the cyanobacterium Synechococcus elongatus: analysis by quantitative reverse transcriptionpolymerase chain reaction. Can. J. Bot. 83:711-720. (Pubitemid 41806435)
55. 2- concentrating mechanism in Synechocystis sp PCC6803. Plant Cell Environ. 27:615-626. (Pubitemid 38600732)
56. 2-concentrating mechanism in the cyanobacterium Synechocystis sp strain PCC6803. Plant Physiol. 132:218-229. (Pubitemid 36590413)
57. 2-concentrating mechanisms through transcriptional induction of high-affinity Ci-transport systems. Can. J. Bot. 83:698-710. (Pubitemid 41806434)
58. Woodger FJ, Badger MR, Price GD. 2005. Sensing of inorganic carbon limitation in Synechococcus PCC7942 is correlated with the size of the internal inorganic carbon pool and involves oxygen. Plant Physiol. 139:1959-1969. (Pubitemid 43899831)
59. Badger MR, Andrews TJ. 1982. Photosynthesis and inorganic carbon usage by the marine cyanobacterium, Synechococcus sp. Plant Physiol. 70:517-523.
60. 2 transport by hydrogen sulfide in a cyanobacterium. Plant Physiol. 91:387-394.
61. 3 transport by cyanobacteria: a review. Can. J. Bot. 68:1291-1302.
62. 2- concentrating mechanism. Biosystems 37:229-238. (Pubitemid 26024850)
63. Kaplan A, Zenvirth D, Marcus Y, Omata T, Ogawa T. 1987. Energization and activation of inorganic carbon uptake by light in cyanobacteria. Plant Physiol. 84:210-213.
64. 3 - transport in cyanobacteria. Plant Physiol. 116:183-192.
65. 2 concentrating mechanism in cyanobacteria. Can. J. Bot. 76:954-961. (Pubitemid 29042831)
66. Heinhorst S, Cannon GC, Shively JM. 2006. Carboxysomes and carboxysome- like inclusions, p 141-165. In Shively J (ed), Complex intracellular structures in prokaryotes, vol 2. Springer, Berlin, Germany.
67. 2 uptake in Thiobacillus neapolitanus. Arch. Microbiol. 147:285-290. (Pubitemid 17067786)
68. 2-concentrating mechanism in organisms grown under carbon-limitation in the chemostat. FEMS Microbiol. Lett. 58:179-182.
69. Kelly D, Wood A, Stackebrandt E. 2005. Thiobacillus Beijerinck 1904b, 597AL, p 764-769. In Garrity GM, Brenner DJ, Krieg NR, Staley JT (ed), Bergey's manual of systematic bacteriology, 2nd ed, vol 2, part C. The proteobacteria: the alpha-, beta-, delta-, and epsilonproteobacteria. Springer-Verlag, New York, NY.
70. Kuenen JG, Beudeker RF, Shively JM, Codd GA. 1982. Microbiology of thiobacilli and other sulphur-oxidizing autotrophs, mixotrophs and heterotrophs. Philos. Trans. R. Soc. Lond. B Biol. Sci. 298:473-497.
71. Harrison AP, Jr. 1984. The acidophilic thiobacilli and other acidophilic bacteria that share their habitat. Annu. Rev. Microbiol. 38:265-292.
72. Dobrinski KP, Enkemann SA, Yoder SJ, Haller E, Scott KM. 2012. Transcriptional response of the sulfur chemolithoautotroph Thiomicrospira crunogena to dissolved inorganic carbon limitation. J. Bacteriol. 194:2074-2081.
73. 2 by wild-type cells and ecaA, ecaB, and ccaA mutants of the cyanobacteria Synechococcus PCC7942 and Synechocystis PCC6803. Can. J. Bot 76:1153-1160. (Pubitemid 29042849)
74. Wildon DC, Mercer FV. 1963. The ultrastructure of the vegetative cell of blue-green algae. Aust. J. Biol. Sci. 16:585-596.
75. Hall WT, Claus G. 1961. Electron microscope studies on ultrathin sections of Oscillatoria chalybea Mertens. Protoplasma 54:355-368.
76. Gantt E, Conti SF. 1969. Ultrastructure of blue-green algae. J. Bacteriol. 97:1486-1493.
77. Shively JM, Decker GL, Greenawalt JW. 1970. Comparative ultrastructure of the thiobacilli. J. Bacteriol. 101:618-627.
78. Jensen TE, Bowen CC. 1961. Organization of the centroplasm in Nostoc pruniforme. Proc. Iowa Acad. Sci. 68:89-96.
79. Shively JM, Ball F, Brown DH, Saunders RE. 1973. Functional organelles in prokaryotes: polyhedral inclusions (carboxysomes) of Thiobacillus neapolitanus. Science 182:584-586.
80. Shively JM, Ball FL, Kline BW. 1973. Electron microscopy of the carboxysomes (polyhedral bodies) of Thiobacillus neapolitanus. J. Bacteriol. 116:1405-1411.
81. Codd GA, Stewart WDP. 1976. Polyhedral bodies and ribulose 1,5- diphosphate carboxylase of blue-green alga Anabaena cylindrica. Planta 130:323-326.
82. 2 fixing capacity in the obligate chemolithotroph Thiobacillus neapolitanus grown under different limitations in the chemostat. Arch. Microbiol. 124:185-189. (Pubitemid 10019884)
83. Stewart WDP, Codd GA. 1975. Polyhedral bodies (carboxysomes) of nitrogen-fixing blue-green algae. Br. Phycol. J. 10:273-278.
84. Cossar JD, Rowell P, Darling AJ, Murray S, Codd GA, Stewart WDP. 1985. Localization of ribulose 1,5-bisphosphate carboxylase/oxygenase in the N2-fixing cyanobacterium Anabaena cylindrica. FEMS Microbiol. Lett. 28:65-68. (Pubitemid 15013549)
85. Lanaras T, Codd GA. 1981. Ribulose 1,5-bisphosphate carboxylase and polyhedral bodies of Chlorogloeopsis fritschii. Planta 153:279-285.
86. Lanaras T, Codd GA. 1981. Structural and immunoelectrophoretic comparison of soluble and particulate ribulose bisphosphate carboxylases from the cyanobacterium Chlorogloeopsis fritschii. Arch. Microbiol. 130:213-217. (Pubitemid 12169229)
87. 2 uptake in the cyanobacterium Synechococcus PCC7942 without apparent inhibition of internal carbonic anhydrase activity. Plant Physiol. 89:37-43.
88. Reinhold L, Kosloff R, Kaplan A. 1991. A model for inorganic carbon fluxes and photosynthesis in cyanobacterial carboxysomes. Can. J. Bot. 69:984-988.
89. Reinhold L, Zviman M, Kaplan A. 1987. Inorganic carbon fluxes and photosynthesis in cyanobacteria-a quantitative model, p 289-296. In Biggins J (ed), Proceedings of the VIIth International Congress on Photosynthesis, Providence, Rhode Island, USA, August 10-15, 1986, vol 4. M. Nijhoff Publishers, Dordrecht, The Netherlands.
90. Reinhold L, Zviman M, Kaplan A. 1989. A quantitative model for inorganic carbon fluxes and photosynthesis in cyanobacteria. Plant Physiol. Biochem. 27:945-954.
91. 2. J. Biol. Chem. 283:10377-10384.
92. 2 leakage barrier. PLoS One 4:e7521. doi:10.1371/journal.pone.0007521.
93. 2-concentrating mechanism. Can. J. Bot. 69:963-973.
94. 2 within the carboxysome. Plant Physiol. 91:514-525.
95. Baker SH, Williams DS, Aldrich HC, Gambrell AC, Shively JM. 2000. Identification and localization of the carboxysome peptide Csos3 and its corresponding gene in Thiobacillus neapolitanus. Arch. Microbiol. 173:278-283. (Pubitemid 30202223)
96. Long BM, Rae BD, Badger MR, Price GD. 2011. Over-expression of the -carboxysomal CcmM protein in Synechococcus PCC7942 reveals a tight co-regulation of carboxysomal carbonic anhydrase (CcaA) and M58 content. Photosynth. Res. 109:33-45.
97. Long BM, Tucker L, Badger MR, Price GD. 2010. Functional cyanobacterial β-carboxysomes have an absolute requirement for both long and short forms of the CcmM protein. Plant Physiol. 153:285-293.
98. Long BM, Badger MR, Whitney SM, Price GD. 2007. Analysis of carboxysomes from Synechococcus PCC7942 reveals multiple Rubisco complexes with carboxysomal proteins CcmM and CcaA. J. Biol. Chem. 282:29323-29335. (Pubitemid 350043344)
99. Cot SSW, So AKC, Espie GS. 2008. A multiprotein bicarbonate dehydration complex essential to carboxysome function in cyanobacteria. J. Bacteriol. 190:936-945. (Pubitemid 351170937)
100. Tabita FR. 1999. Microbial ribulose 1,5-bisphosphate carboxylase/ oxygenase: a different perspective. Photosynth. Res. 60:1-28. (Pubitemid 29384472)
101. Rippka R, Deruelles J, Waterbury J, Herdman M, Stanier R. 1979. Generic assignments, strain histories and properties of pure cultures of cyanobacteria. Microbiology 111:1-61. (Pubitemid 9142236)
102. Zehr JP, Bench SR, Carter BJ, Hewson I, Niazi F, Shi T, Tripp HJ, Affourtit JP. 2008. Globally distributed uncultivated oceanic N2-fixing cyanobacteria lack oxygenic photosystem II. Science 322:1110-1112.
103. Thompson AW, Foster RA, Krupke A, Carter BJ, Musat N, Vaulot D, Kuypers MMM, Zehr JP. 2012. Unicellular cyanobacterium symbiotic with a single-celled eukaryotic alga. Science 337:1546-1550.
104. Larsson J, Nylander JA, Bergman B. 2011. Genome fluctuations in cyanobacteria reflect evolutionary, developmental and adaptive traits. BMC Evol. Biol. 11:187.
105. Criscuolo A, Gribaldo S. 2011. Large-scale phylogenomic analyses indicate a deep origin of primary plastids within cyanobacteria. Mol. Biol. Evol. 28:13019-13032.
106. Blank CE, Sanchez-Baracaldo P. 2010. Timing of morphological and ecological innovations in the cyanobacteria-a key to understanding the rise in atmospheric oxygen. Geobiology 8:1-23.
107. Marin B, Nowack ECM, Glockner G, Melkonian M. 2007. The ancestor of the Paulinella chromatophore obtained a carboxysomal operon by horizontal gene transfer from a Nitrococcus-like gamma-proteobacterium. BMC Evol. Biol. 7:85. doi:10.1186/1471-2148-7-85. (Pubitemid 47024467)
108. Espie GS, Kimber MS. 2011. Carboxysomes: cyanobacterial RubisCO comes in small packages. Photosynth. Res. 109:7-20.
109. Erwin PM, Lopez-Legentil S, Turon X. 2012. Ultrastructure, molecular phylogenetics, and chlorophyll a content of novel cyanobacterial symbionts in temperate sponges. Microb. Ecol. 64:771-783.
110. Kelly D, Harrison A. 1989. Genus Thiobacillus, p 1842-1858. In Staley JT, Bryant MP (ed), Bergey's manual of systematic bacteriology, vol 3. Williams & Wilkins, Baltimore, MD.
111. Kelly DP, Wood AP. 2000. Reclassification of some species of Thiobacillus to the newly designated genera Acidithiobacillus gen. nov., Halothiobacillus gen. nov and Thermithiobacillus gen. nov. Int. J. Syst. Evol. Microbiol. 50:511-516. (Pubitemid 30167492)
112. Roberts EW, Cai F, Kerfeld CA, Cannon GC, Heinhorst S. 2012. Isolation and characterization of the Prochlorococcus carboxysome reveal the presence of the novel shell protein CsoS1D. J. Bacteriol. 194:787-795.
113. Kinney JN, Axen SD, Kerfeld CA. 2011. Comparative analysis of carboxysome shell proteins. Photosynth. Res. 109:21-32.
114. Kerfeld CA, Heinhorst S, Cannon GC. 2010. Bacterial microcompartments. Annu. Rev. Microbiol. 64:391-408.
115. Yeates TO, Thompson MC, Bobik TA. 2011. The protein shells of bacterial microcompartment organelles. Curr. Opin. Struct. Biol. 21:223-231.
116. Yeates T, Crowley C, Tanaka S. 2010. Bacterial microcompartment organelles: protein shell structure and evolution. Annu. Rev. Biophys. 39:185-205.
117. Tanaka S, Sawaya M, Phillips M, Yeates T. 2009. Insights from multiple structures of the shell proteins from the -carboxysome. Protein Sci. 18:108-120.
118. Tsai Y, Sawaya MR, Cannon GC, Cai F, Williams EB, Heinhorst S, Kerfeld CA, Yeates TO. 2007. Structural analysis of CsoS1A and the protein shell of the Halothiobacillus neapolitanus carboxysome. PLoS Biol. 5:e144. doi:10.1371/journal.pbio.0050144. (Pubitemid 46919953)
119. Tsai Y, Sawaya MR, Yeates TO. 2009. Analysis of lattice-translocation disorder in the layered hexagonal structure of carboxysome shell protein CsoS1C. Acta Crystallogr. D Biol. Crystallogr. 65:980-988.
120. Klein MG, Zwart P, Bagby SC, Cai F, Chisholm SW, Heinhorst S, Cannon GC, Kerfeld CA. 2009. Identification and structural analysis of a novel carboxysome shell protein with implications for metabolite transport. J. Mol. Biol. 392:319-333.
121. Menon BB, Dou Z, Heinhorst S, Shively JM, Cannon GC. 2008. Halothiobacillus neapolitanus carboxysomes sequester heterologous and chimeric RubisCO species. PLoS One 3:e3570. doi:10.1371/journal.pone .0003570.
122. Bonacci W, Teng PK, Afonso B, Niederholtmeyer H, Grob P, Silver PA, Savage DF. 2012. Modularity of a carbon-fixing protein organelle. Proc. Natl. Acad. Sci. U. S. A. 109:478-483.
123. Tanaka S, Kerfeld CA, Sawaya MR, Cai F, Heinhorst S, Cannon GC, Yeates TO. 2008. Atomic-level models of the bacterial carboxysome shell. Science 319:1083-1086. (Pubitemid 351300788)
124. 2 requirement for growth. J. Bacteriol. 180:4133-4139. (Pubitemid 28373516)
125. Schmid M, Paredes A, Khant H, Soyer F, Aldrich H, Chiu W, Shively J. 2006. Structure of Halothiobacillus neapolitanus carboxysomes by cryo-electron tomography. J. Mol. Biol. 364:526-535. (Pubitemid 44715938)
126. Holthuijzen YA, Vanbreem JF, Konings WN, Vanbrugg EF. 1986. Electron-microscopic studies of carboxysomes of Thiobacillus neapolitanus. Arch. Microbiol. 144:258-262. (Pubitemid 16112651)
127. Holthuijzen YA, Vanbreem JF, Kuenen JG, Konings WN. 1986. Protein composition of the carboxysomes of Thiobacillus neapolitanus. Arch. Microbiol. 144:398-404. (Pubitemid 16074955)
128. Iancu CV, Morris DM, Dou ZC, Heinhorst S, Cannon GC, Jensen GJ. 2010. Organization, structure, and assembly of alpha-carboxysomes determined by electron cryotomography of intact cells. J. Mol. Biol. 396:105-117.
129. Iancu CV, Ding HJ, Morris DM, Dias DP, Gonzales AD, Martino A, Jensen GJ. 2007. The structure of isolated Synechococcus strain WH8102 carboxysomes as revealed by electron cryotomography. J. Mol. Biol. 372:764-773. (Pubitemid 47321793)
130. Baker SH, Lorbach SC, Rodriguez-Buey M, Williams DS, Aldrich HC, Shively JM. 1999. The correlation of the gene csoS2 of the carboxysome operon with two polypeptides of the carboxysome in Thiobacillus neapolitanus. Arch. Microbiol. 172:233-239. (Pubitemid 29470800)
131. 2-concentrating mechanism in the open-ocean cyanobacterium Synechococcus WH8102. Can. J. Bot. 83:735-745. (Pubitemid 41806437)
132. So AKC, Espie GS, Williams EB, Shively JM, Heinhorst S, Cannon GC. 2004. A novel evolutionary lineage of carbonic anhydrase (epsilon class) is a component of the carboxysome shell. J. Bacteriol. 186:623-630. (Pubitemid 38129638)
133. Sawaya MR, Cannon GC, Heinhorst S, Tanaka S, Williams EB, Yeates TO, Kerfeld CA. 2006. The structure of beta-carbonic anhydrase from the carboxysomal shell reveals a distinct subclass with one active site for the price of two. J. Biol. Chem. 281:7546-7555. (Pubitemid 43847525)
134. Cannon GC, Baker SH, Soyer F, Johnson DR, Bradburne CE, Mehlman JL, Davies PS, Jiang QL, Heinhorst S, Shively JM. 2003. Organization of carboxysome genes in the Thiobacilli. Curr. Microbiol. 46:115-119. (Pubitemid 36919765)
135. Zarzycki J, Axen SD, Kinney JN, Kerfeld CA. 2013. Cyanobacterialbased approaches to improving photosynthesis in plants. J. Exp. Bot. 64:787-798.
136. 2 concentrating mechanism in several cyanobacterial strains-a review of general physiological characteristics, genes, proteins, and recent advances. Can. J. Bot. 76:973-1002. (Pubitemid 29042833)
137. Long BM, Price GD, Badger MR. 2005. Proteomic assessment of an established technique for carboxysome enrichment from Synechococcus PCC7942. Can. J. Bot. 83:746-757. (Pubitemid 41806438)
138. Peña KL, Castel SE, de Araujo C, Espie GS, Kimber MS. 2010. Structural basis of the oxidative activation of the carboxysomal gammacarbonic anhydrase, CcmM. Proc. Natl. Acad. Sci. U. S. A. 107:2455-2460.
139. Alber BE, Ferry JG. 1994. A carbonic anhydrase from the archaeon Methanosarcina thermophila. Proc. Natl. Acad. Sci. U. S. A. 91:6909-6913. (Pubitemid 24226771)
140. Price GD, Howitt SM, Harrison K, Badger MR. 1993. Analysis of a genomic DNA region from the cyanobacterium Synechococcus sp. strain PCC 7942 involved in carboxysome assembly and function. J. Bacteriol. 175:2871-2879. (Pubitemid 23148719)
141. Ludwig M, Sültemeyer D, Price G. 2000. Isolation of ccmKLMN genes from the marine cyanobacterium, Synechococcus sp. PCC7002 (Cyanophyceae), and evidence that CcmM is essential for carboxysome assembly. J. Phycol. 36:1109-1119.
142. Ogawa T, Amichay D, Gurevitz M. 1994. Isolation and characterization of the ccmM gene required by the cyanobacterium Synechocystis PCC6803 for inorganic carbon utilization. Photosynth. Res. 39:183-190. (Pubitemid 2059110)
143. Kinney JN, Salmeen A, Cai F, Kerfeld CA. 2012. Elucidating essential role of conserved carboxysomal protein CcmN reveals common feature of bacterial microcompartment assembly. J. Biol. Chem. 287:17729-17736.
144. Kaneko Y, Danev R, Nagayama K, Nakamoto H. 2006. Intact carboxysomes in a cyanobacterial cell visualized by Hilbert differential contrast transmission electron microscopy. J. Bacteriol. 188:805-808. (Pubitemid 43100568)
145. Getzoff TP, Zhu GH, Bohnert HJ, Jensen RG. 1998. Chimeric Arabidopsis thaliana ribulose-1,5-bisphosphate carboxylase/oxygenase containing a pea small subunit protein is compromised in carbamylation. Plant Physiol. 116:695-702. (Pubitemid 128482297)
146. Newman J, Gutteridge S. 1993. The X-ray structure of Synechococcus ribulose-bisphosphate carboxylase oxygenase-activated quaternary complex at 2.2-angstrom resolution. J. Biol. Chem. 268:25876-25886. (Pubitemid 23358206)
147. Kerfeld C, Sawaya M, Tanaka S, Nguyen C, Phillips M, Beeby M, Yeates T. 2005. Protein structures forming the shell of primitive bacterial organelles. Science 309:936-938. (Pubitemid 41099930)
148. 2-concentrating mechanism in cyanobacteria. Can. J. Bot. 69:974-983.
149. 2 concentration and in chlorophyll biosynthesis. Plant Physiol. 108:1461-1469.
150. Friedberg D, Kaplan A, Ariel R, Kessel M, Seijffers J. 1989. The
151. Friedberg D, Jager KM, Kessel M, Silman NJ, Bergman B. 1993. Rubisco but not Rubisco activase is clustered in the carboxysomes of the cyanobacterium Synechococcus sp. PCC 7942: mud-induced carboxysomeless mutants. Mol. Microbiol. 9:1193-1201. (Pubitemid 23286250)
152. Schwarz R, Friedberg D, Kaplan A. 1988. Is there a role for the 42 kilodalton polypeptide in inorganic carbon uptake by cyanobacteria? Plant Physiol. 88:284-288.
153. 2. Can. J. Bot. 69:945-950.
154. 2-requiring mutants, p 437-440. In Murata N (ed), Research in photosynthesis, vol 3. Kluwer, Dordrecht, Netherlands.
155. Shively JM, Bradburne CE, Aldrich HC, Bobik TA, Mehlman JL, Jin S, Baker SH. 1998. Sequence homologs of the carboxysomal polypeptide csoS1 of the Thiobacilli are present in cyanobacteria and enteric bacteria that form carboxysomes-polyhedral bodies. Can. J. Bot. 76:906-916. (Pubitemid 29042826)
156. Cannon GC, Heinhorst S, Bradburne CE, Shively JM. 2002. Carboxysome genomics: a status report. Funct. Plant Biol. 29:175-182. (Pubitemid 34853354)
157. Cannon GC, Bradburne CE, Aldrich HC, Baker SH, Heinhorst S, Shively JM. 2001. Microcompartments in prokaryotes: carboxysomes and related polyhedra. Appl. Environ. Microbiol. 67:5351-5361. (Pubitemid 33640962)
158. Zhang SL, Laborde SM, Frankel LK, Bricker TA. 2004. Four novel genes required for optimal photoautotrophic growth of the cyanobacterium Synechocystis sp strain PCC 6803 identified by in vitro transposon mutagenesis. J. Bacteriol. 186:875-879. (Pubitemid 38129668)
159. Rae BD, Long BM, Badger MR, Price GD. 2012. Structural determinants of the outer shell of β-carboxysomes in Synechococcus elongatus PCC 7942: roles for CcmK2, K3-K4, CcmO, and CcmL. PLoS One 7:e43871. doi:10.1371/journal. pone.0043871.
160. Samborska B, Kimber MS. 2012. A dodecameric CcmK2 structure suggests β-carboxysomal shell facets have a double-layered organization. Structure 20:1353-1362.
161. Cai F, Kerfeld CA, Sandh G. 2012. Bioinformatic identification and structural characterization of a new carboxysome shell protein, p 345-356. In Burnap R, VermaasW(ed), Functional genomics and evolution of photosynthetic systems, vol 33. Springer, Dordrecht, Netherlands.
162. Satoh R, Himeno M, Wadano A. 1997. Carboxysomal diffusion resistance to ribulose 1,5-bisphosphate and 3-phosphoglycerate in the cyanobacterium Synechococcus PCC7942. Plant Cell Physiol. 38:769-775. (Pubitemid 27347759)
163. 2. Appl. Environ. Microbiol. 60:1018-1020. (Pubitemid 24077997)
164. 2 for growth. Plant Physiol. Biochem. 35:137-146. (Pubitemid 27127074)
165. Crowley CS, Cascio D, Sawaya MR, Kopstein JS, Bobik TA, Yeates TO. 2010. Structural insight into the mechanisms of transport across the Salmonella enterica Pdu microcompartment shell. J. Biol. Chem. 285:37838-37846.
166. Sagermann M, Ohtaki A, Nikolakakis K. 2009. Crystal structure of the EutL shell protein of the ethanolamine ammonia lyase microcompartment. Proc. Natl. Acad. Sci. U. S. A. 106:8883-8887.
167. So AKC, Espie GS. 2005. Cyanobacterial carbonic anhydrases. Can. J. Bot. 83:721-734. (Pubitemid 41806436)
168. Heinhorst S, Williams E, Cai F, Murin C, Shively J, Cannon G. 2006. Characterization of the carboxysomal carbonic anhydrase CsoSCA from Halothiobacillus neapolitanus. J. Bacteriol. 188:8087-8094. (Pubitemid 44845678)
169. 2 fixation. Biochim. Biophys. Acta 1804:382-392.
170. Yu JW, Price GD, Song L, Badger MR. 1992. Isolation of a putative carboxysomal carbonic anhydrase gene from the cyanobacterium Synechococcus PCC7942. Plant Physiol. 100:794.
171. Fukuzawa H, Suzuki E, Komukai Y, Miyachi S. 1992. A gene homologous to chloroplast carbonic anhydrase (icfA) is essential to photosynthetic carbon dioxide fixation by Synechococcus PCC7942. Proc. Natl. Acad. Sci. U. S. A. 89:4437-4441.
172. So AKC, Espie GS. 1998. Cloning, characterization and expression of carbonic anhydrase from the cyanobacterium Synechocystis PCC6803. Plant Mol. Biol. 37:205-215. (Pubitemid 28209584)
173. So AKC, Cot SSW, Espie GS. 2002. Characterization of the C-terminal extension of carboxysomal carbonic anhydrase from Synechocystis sp PCC6803. Funct. Plant Biol. 29:183-194. (Pubitemid 34853355)
174. So AKC, John-McKay M, Espie GS. 2002. Characterization of a mutant lacking carboxysomal carbonic anhydrase from the cyanobacterium Synechocystis PCC6803. Planta 214:456-467. (Pubitemid 36072670)
175. 2 concentrating mechanisms. Photosynth Res. 77:83-94.
176. Pierce J, Carlson TJ, Williams JG. 1989. A cyanobacterial mutant requiring the expression of ribulose bisphosphate carboxylase from a photosynthetic anaerobe. Proc. Natl. Acad. Sci. U. S. A. 86:5753-5757.
177. English RS, Jin S, Shively JM. 1995. Use of electroporation to generate a Thiobacillus neapolitanus carboxysome mutant. Appl. Environ. Microbiol. 61:3256-3260.
178. Orus MI, Rodriguez ML, Martinez F, Marco E. 1995. Biogenesis and ultrastructure of carboxysomes from wild type and mutants of Synechococcus sp strain PCC 7942. Plant Physiol. 107:1159-1166.
179. Fan CG, Cheng SQ, Liu Y, Escobar CM, Crowley CS, Jefferson RE, Yeates TO, Bobik TA. 2010. Short N-terminal sequences package proteins into bacterial microcompartments. Proc. Natl. Acad. Sci. U. S. A. 107:7509-7514.
180. Fan CG, Cheng SQ, Sinha S, Bobik TA. 2012. Interactions between the termini of lumen enzymes and shell proteins mediate enzyme encapsulation into bacterial microcompartments. Proc. Natl. Acad. Sci. U. S. A. 109:14995-15000.
181. Savage D, Afonso B, Chen A, Silver P. 2010. Spatially ordered dynamics of the bacterial carbon fixation machinery. Science 327:1258.
182. Jensen TE, Ayala RP. 1976. The fine structure of a microplatemicrotubule array, microfilaments and polyhedral body associated microtubules in several species of Anabaena. Arch. Microbiol. 111:1-6.
183. Szardenings F, Guymer D, Gerdes K. 2011. ParA ATPases can move and position DNA and subcellular structures. Curr. Opin. Microbiol. 14:712-718.
184. Rudner DZ, Losick R. 2010. Protein subcellular localization in bacteria. Cold Spring Harb. Perspect. Biol. 2:a000307. doi:10.1101/cshperspect .a000307.
185. Watson SW, Waterbury JB. 1971. Characteristics of two marine nitrite oxidizing bacteria, Nitrospina gracilis nov. gen. nov. sp. and Nitrococcus mobilis nov. gen. nov. sp. Arch. Microbiol. 77:203-230.
186. Parsons JB, Frank S, Bhella D, Liang MZ, Prentice MB, Mulvihill DP, Warren MJ. 2010. Synthesis of empty bacterial microcompartments, directed organelle protein incorporation, and evidence of filamentassociated organelle movement. Mol. Cell 38:305-315.
187. Cheng S, Sinha S, Fan C, Liu Y, Bobik TA. 2011. Genetic analysis of the protein shell of the microcompartments involved in coenzyme B12- dependent 1,2-propanediol degradation by Salmonella. J. Bacteriol. 193:1385-1392.
188. 2-concentrating mechanism in Synechococcus sp. PCC7942 through a redox-independent pathway. Plant Physiol. 133:2069-2080. (Pubitemid 38047333)
189. 2-concentrating mechanism in a euryhaline, coastal marine cyanobacterium, Synechococcus sp strain PCC 7002: role of NdhR/CcmR. J. Bacteriol. 189:3335-3347. (Pubitemid 46668798)
190. Hackenberg C, Huege J, Engelhardt A, Wittink F, Laue M, Matthijs HC, Kopka J, Bauwe H, Hagemann M. 2012. Low-carbon acclimation in carboxysome-less and photorespiratory mutants of the cyanobacterium Synechocystis sp. strain PCC 6803. Microbiology 158:398-413.
191. Wang HL, Postier BL, Burnap RL. 2004. Alterations in global patterns of gene expression in Synechocystis sp PCC 6803 in response to inorganic carbon limitation and the inactivation of ndhR, a LysR family regulator. J. Biol. Chem. 279:5739-5751. (Pubitemid 38220604)
192. McKay RML, Gibbs SP, Espie GS. 1993. Effect of dissolved inorganic carbon on the expression of carboxysomes, localization of Rubisco and the mode of inorganic carbon transport in cells of the cyanobacterium Synechococcus UTEX 625. Arch. Microbiol. 159:21-29.
193. 2 assimilation genes in autotrophic bacteria. FEMS Microbiol. Rev. 21:135-155. (Pubitemid 27455842)
194. 2 assimilation, nitrogen fixation, hydrogen metabolism and energy generation. FEMS Microbiol. Rev. 28:353-376. (Pubitemid 38721409)
195. Mata-Cabana A, Florencio FJ, Lindahl M. 2007. Membrane proteins from the cyanobacterium Synechocystis sp. PCC 6803 interacting with thioredoxin. Proteomics 7:3953-3963. (Pubitemid 350100011)
196. Lindahl M, Florencio FJ. 2003. Thioredoxin-linked processes in cyanobacteria are as numerous as in chloroplasts, but targets are different. Proc. Natl. Acad. Sci. U. S. A. 100:16107-16112. (Pubitemid 38021122)
197. Zilliges Y, Kehr J, Meissner S, Ishida K, Mikkat S, Hagemann M, Kaplan A, Börner T, Dittmann E. 2011. The cyanobacterial hepatotoxin microcystin binds to proteins and increases the fitness of Microcystis under oxidative stress conditions. PLoS One 6:e17615. doi:10.1371 /journal.pone.0017615.
198. Gerbersdorf SU. 2006. An advanced technique for immuno-labelling of microcystins in cryosectioned cells of Microcystis aeruginosa PCC 7806 (cyanobacteria): implementations of an experiment with varying light scenarios and culture densities. Toxicon 47:218-228. (Pubitemid 43143230)
199. Jähnichen S, Ihle T, Petzoldt T, Benndorf J. 2007. Impact of inorganic carbon availability on microcystin production by Microcystis aeruginosa PCC 7806. Appl. Environ. Microbiol. 73:6994-7002. (Pubitemid 350076821)
200. Sivonen K, Börner T. 2008. Bioactive compounds produced by cyanobacteria, p 159-197. In Herrero A, Flores E (ed), The cyanobacteria: molecular biology, genomics and evolution, vol 1. Caister Academic Press, Norfolk, United Kingdom.
201. Long BM, Jones GJ, Orr PT. 2001. Cellular microcystin content in N-limited Microcystis aeruginosa can be predicted from growth rate. Appl. Environ. Microbiol. 67:278-283. (Pubitemid 32044429)
202. Deblois CP, Juneau P. 2010. Relationship between photosynthetic processes and microcystin in Microcystis aeruginosa grown under different photon irradiances. Harmful Algae 9:18-24.
203. 2 to increase the efficiency of photosynthetic carbon fixation? Plant Physiol. 119:9-16. (Pubitemid 29384575)
204. Smith EC, Griffiths H. 1996. A pyrenoid-based carbon-concentrating mechanism is present in terrestrial bryophytes of the class Anthocerotae. Planta 200:203-212. (Pubitemid 26407058)
205. Griffiths D. 1970. The pyrenoid. Bot. Rev. 36:29-58.
206. 2-concentrating mechanism and carbon isotope discrimination in lichens and bryophytes. Planta 198:6-16.
207. Borkhsenious ON, Mason CB, Moroney JV. 1998. The intracellular localization of ribulose-1,5-bisphosphate carboxylase/oxygenase in Chlamydomonas reinhardtii. Plant Physiol. 116:1585-1591. (Pubitemid 128500549)
208. 2 concentrating mechanisms in algae: mechanisms, environmental modulation, and evolution. Annu. Rev. Plant Biol. 56:99-131. (Pubitemid 40802405)
209. Bedoshvili Y, Popkova T, Likhoshway Y. 2009. Chloroplast structure of diatoms of different classes. Cell Tissue Biol. 3:297-310.
210. 2 concentration in unicellular green-algae. Can. J. Bot. 69:1062-1069.
211. 2. EMBO J. 17:1208-1216. (Pubitemid 28105500)
212. Markelova AG, Sinetova MP, Kupriyanova EV, Pronina NA. 2009. Distribution and functional role of carbonic anhydrase Cah3 associated with thylakoid membranes in the chloroplast and pyrenoid of Chlamydomonas reinhardtii. Russ. J. Plant Physiol. 56:761-768.
213. Sinetova MA, Kupriyanova EV, Markelova AG, Allakhverdiev SI, Pronina NA. 2012. Identification and functional role of the carbonic anhydrase Cah3 in thylakoid membranes of pyrenoid of Chlamydomonas reinhardtii. Biochim. Biophys. Acta Bioenerg. 1817:1248-1255.
214. Genkov T, Meyer M, Griffiths H, Spreitzer RJ. 2010. Functional hybrid Rubisco enzymes with plant small subunits and algal large subunits engineered RbcS cDNA for expression in Chlamydomonas. J. Biol. Chem. 285:19833-19841.
215. Ma Y, Pollock SV, Xiao Y, Cunnusamy K, Moroney JV. 2011. Identification of a novel gene, CIA6, required for normal pyrenoid formation in Chlamydomonas reinhardtii. Plant Physiol. 156:884-896.
216. Kowallik K. 1969. The crystal lattice of the pyrenoid matrix of Prorocentrum micans. J. Cell Sci. 5:251-269.
217. Leadbeater BSC, Manton I. 1971. Fine structure and light microscopy of a new species of Chrysochromulina (C. acantha). Arch. Microbiol. 78:58-69.
218. Bertagnolli BL, Nadakavukaren MJ. 1970. An ultrastructural study of pyrenoids from Chlorella pyrenoidosa. J. Cell Sci. 7:623-630.
219. Markowitz MM, Hoffman LR. 1974. Chloroplast inclusions in zoospores of Oedocladium. J. Phycol. 10:308-315.
220. 2-concentrating mechanism is correlated with the formation of the starch sheath around the pyrenoid of Chlamydomonas reinhardtii. Planta 195:210-216.
221. 2 concentrating mechanism in a starch-less mutant of Chlamydomonas reinhardtii. Physiol. Plant 98:798-802.
222. Tortell PD. 2000. Evolutionary and ecological perspectives on carbon acquisition in phytoplankton. Limnol. Oceanogr. 45:744-750. (Pubitemid 30247486)
223. Bobik TA, Havemann GD, Busch RJ, Williams DS, Aldrich HC. 1999. The propanediol utilization (pdu) operon of Salmonella enterica serovar Typhimurium LT2 includes genes necessary for formation of polyhedral organelles involved in coenzyme B-12-dependent 1,2-propanediol degradation. J. Bacteriol. 181:5967-5975. (Pubitemid 29459906)
224. Chen P, Andersson DI, Roth JR. 1994. The control region of the pdu/ cob regulon in Salmonella typhimurium. J. Bacteriol. 176:5474-5482. (Pubitemid 24273538)
225. Stojiljkovic I, Baumler AJ, Heffron F. 1995. Ethanolamine utilization in Salmonella typhimurium: nucleotide sequence, protein expression, and mutational analysis of the cchA cchB eutE eutJ eutG eutH gene cluster. J. Bacteriol. 177:1357-1366.
226. Kofoid E, Rappleye C, Stojiljkovic I, Roth J. 1999. The 17-gene ethanolamine (eut) operon of Salmonella typhimurium encodes five homologues of carboxysome shell proteins. J. Bacteriol. 181:5317-5329. (Pubitemid 29416352)
227. Bobik TA. 2006. Polyhedral organelles compartmenting bacterial metabolic processes. Appl. Microbiol. Biotechnol. 70:517-525.
228. Penrod JT, Roth JR. 2006. Conserving a volatile metabolite: a role for carboxysome-like organelles in Salmonella enterica. J. Bacteriol. 188:2865-2874.
229. McClelland M, Sanderson KE, Spieth J, Clifton SW, Latreille P, Courtney L, Porwollik S, Ali J, Dante M, Du F, Hou S, Layman D, Leonard S, Nguyen C, Scott K, Holmes A, Grewal N, Mulvaney E, Ryan E, Sun H, Florea L, Miller W, Stoneking T, Nhan M, Waterston R, Wilson RK. 2001. Complete genome sequence of Salmonella enterica serovar Typhimurium LT2. Nature 413:852-856. (Pubitemid 33026853)
230. Munk AC, Copeland A, Lucas S, Lapidus A, Del Rio TG, Barry K, Detter JC, Hammon N, Israni S, Pitluck S, Brettin T, Bruce D, Han C, Tapia R, Gilna P, Schmutz J, Larimer F, Land M, Kyrpides NC, Mavromatis K, Richardson P, Rohde M, Goker M, Klenk HP, Zhang Y, Roberts GP, Reslewic S, Schwartz DC. 2011. Complete genome sequence of Rhodospirillum rubrum type strain (S1). Stand. Genomic Sci. 4:293-302.
231. 2 fixation in crop species. J. Exp. Bot. 64:753-768.
232. Wu M, Eisen J. 2008. A simple, fast, and accurate method of phylogenomic inference. Genome Biol. 9:R151. doi:10.1186/gb-2008-9-10-r151.
233. Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17:754-755. (Pubitemid 32851390)
234. Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574. (Pubitemid 37038874)
235. Gouy M, Guindon S, Gascuel O. 2010. SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol. Biol. Evol. 27:221-224.
236. Castresana J. 2000. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol. Biol. Evol. 17:540-552. (Pubitemid 30210700)
237. Alm EJ, Huang KH, Price MN, Koche RP, Keller K, Dubchak IL, Arkin AP. 2005. The MicrobesOnline Web site for comparative genomics. Genome Res. 15:1015-1022. (Pubitemid 40994222)
238. Shively JM, Bock E, Westphal K, Cannon GC. 1977. Icosahedral inclusions (carboxysomes) of Nitrobacter agilis. J. Bacteriol. 132:673-675. (Pubitemid 8217411)
239. van Eykelenburg C. 1980. Ecophysiological studies on Spirulina platensis. Effect of temperature, light intensity and nitrate concentration on growth and ultrastructure. Antonie Van Leeuwenhoek 46:113-127.
240. Hanson R. 2010. Jmol-a paradigm shift in crystallographic visualization. J. Appl. Crystallogr. 43:1250-1260.
241. Peitsch MC. 1995. Protein modeling by e-mail. Nat. Biotechnol. 13:658-660.
242. Arnold K, Bordoli L, Kopp J, Schwede T. 2006. The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 22:195-201. (Pubitemid 43205406)
243. Kiefer F, Arnold K, Künzli M, Bordoli L, Schwede T. 2009. The SWISS-MODEL Repository and associated resources. Nucleic Acids Res. 37:D387-D392.
244. Newman J, Branden C-I, Jones TA. 1993. Structure determination and refinement of ribulose 1,5-bisphosphate carboxylase/oxygenase from Synechococcus PCC6301. Acta Crystallogr. D Biol. Crystallogr. 49:548-560.
245. Kimber MS, Pai EF. 2000. The active site architecture of Pisum sativum beta-carbonic anhydrase is a mirror image of that of alpha-carbonic anhydrases. EMBO J. 19:1407-1418. (Pubitemid 30182148)
246. 2-requiring mutant of the cyanobacterium, Synechococcus sp. PCC7942. Mol. Gen. Genet. 226:401-408.