Getting the most out of natural variation in C4 photosynthesis

Photosynthesis Research

Volumn 119, Issue 1-2, 2014, Pages 157-167

  Covshoff, Sarah ^a   Burgess, Steven J ^a   Kneřová, Jana ^a   Kümpers, Britta M C ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

C4 photosynthesis; Cleome gynandra; Flaveria; Maize; Setaria viridis; Sorghum

Indexed keywords

FLAVERIA; FLAVERIA BIDENTIS; GYNANDROPSIS GYNANDRA; SETARIA (PLANT); SETARIA VIRIDIS; SORGHUM (GENUS); SORGHUM BICOLOR; ZEA MAYS;

CLEOME; FLAVERIA; GENE EXPRESSION REGULATION; GENETIC VARIABILITY; GENETICS; MAIZE; PHOTOSYNTHESIS; REVIEW; SETARIA (PLANT); SORGHUM;

CLEOME; FLAVERIA; GENE EXPRESSION REGULATION, PLANT; GENETIC VARIATION; PHOTOSYNTHESIS; SETARIA PLANT; SORGHUM; ZEA MAYS;

EID: 84891632161     PISSN: 01668595     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11120-013-9872-8     Document Type: Review

References (105)

1. 4 dicot Flaveria trinervia. Plant Cell 19(11):3391-3402
2. Bennetzen JL, Schmutz J, Wang H, Percifield R, Hawkins J, Pontaroli AC, Estep M, Feng L, Vaughn JN, Grimwood J, Jenkins J, Barry K, Lindquist E, Hellsten U, Deshpande S, Wang X, Wu X, Mitros T, Triplett J, Yang X, Ye CY, Mauro-Herrera M, Wang L, Li P, Sharma M, Sharma R, Ronald PC, Panaud O, Kellogg EA, Brutnell TP, Doust AN, Tuskan GA, Rokhsar D, Devos KM (2012) Reference genome sequence of the model plant Setaria. Nat Biotechnol 30(6):555-561
3. Bevan M, Walsh S (2005) The Arabidopsis genome: a foundation for plant research. Genome Res 15(12):1632-1642
4. 2 response of photosynthesis in a Flaveria linearis mutant. Plant Physiol 92(1):186-190
5. 4 species. Plant Physiol 155(1):142-156
6. Brown HR, Bouton JH (1993) Physiology and genetics of interspecific hybrids between photosynthetic types. Annu Rev Plant Physiol Plant Mol Biol 44:435-456
7. 2 insensitivity of photosynthesis. Plant Physiol 103(4):1183-1188
8. 4 research-maize, Flaveria or Cleome? Trends Plant Sci 10(5):215-221
9. 4 photosynthesis. Science 331(6023):1436-1439
10. 4 photosynthesis. Plant Cell 22(8):2537-2544
11. 4 plants as biofuel feedstocks: optimising biomass production and feedstock quality from a lignocellulosic perspective. J Integr Plant Biol 53(2):120-135
12. 4 photosynthetic characters through hybridization of Flaveria species. Plant Physiol 90(4):1538-1545
13. Carpita NC, McCann MC (2008) Maize and sorghum: genetic resources for bioenergy grasses. Trends Plant Sci 13(8):415-420
14. Chang YM, Liu WY, Shih AC, Shen MN, Lu CH, Lu MY, Yang HW, Wang TY, Chen SC, Chen SM, Li WH, Ku MS (2012) Characterizing regulatory and functional differentiation between maize mesophyll and bundle sheath cells by transcriptomic analysis. Plant Physiol 160(1):165-177
15. 4 plant Flaveria bidentis. Plant J 6(6):949-956
16. 3 crops to increase yield potential. Curr Opin Biotechnol 23(2):209-214
17. 4 photosynthetic development in a mesophyll cell-defective mutant. Plant Physiol 146(4):1469-1481
18. Covshoff S, Furbank RT, Leegood RC, Hibberd JM (2013) Leaf rolling allows quantification of mRNA abundance in mesophyll cells of sorghum. J Exp Bot 64(3):807-813
19. Doust AN, Kellogg EA, Devos KM, Bennetzen JL (2009) Foxtail millet: a sequence-driven grass model system. Plant Physiol 149(1):137-141
20. 2 concentrating mechanisms. Advances in Photosynthesis Research. Kluwer Academic Publishers, Dordrecht, pp 29-60
21. 4 species Flaveria trinervia: the role of the proximal promoter region. BMC Plant Biol 8:4
22. Friso G, Majeran W, Huang M, Sun Q, van Wijk KJ (2010) Reconstruction of metabolic pathways, protein expression, and homeostasis machineries across maize bundle sheath and mesophyll chloroplasts: large-scale quantitative proteomics using the first maize genome assembly. Plant Physiol 152(3):1219-1250
23. 4 acid decarboxylation types? J Exp Bot 62(9):3103-3108
24. 4 plant Flaveria bidentis. Plant Physiol 111(3):725-734
25. Furumoto T, Hata S, Izui K (2000) Isolation and characterization of cDNAs for differentially accumulated transcripts between mesophyll cells and bundle sheath strands of maize leaves. Plant Cell Physiol 41(11):1200-1209
26. 4 species Flaveria bidentis. Plant Physiol 144(4):1936-1945
27. Furumoto T, Yamaguchi T, Ohshima-Ichie Y, Nakamura M, Tsuchida-Iwata Y, Shimamura M, Ohnishi J, Hata S, Gowik U, Westhoff P, Bräutigam A, Weber AP, Izui K (2011) A plastidial sodium-dependent pyruvate transporter. Nature 476(7361):472-475
28. 4 photosynthesis. Plant Physiol 155(1):56-63
29. 4? Plant Cell 23(6):2087-2105
30. 4 photosynthesis: a unique blend of modified biochemistry, anatomy and ultrastructure. Biochim Biophys Acta 895:81-106
31. 4 perennial biomass crops in relation to nitrogen, temperature and water. Biomass Bioenerg 27(1):21-30
32. 4 photosynthesis. Annu Rev Plant Biol 61:181-207
33. 4 photosynthesis to increase the yield of rice-rationale and feasibility. Curr Opin Plant Biol 11(2):228-231
34. 4-like species). Plant Physiol 87(2):484-490
35. 2 exchange, cytogenetics, and leaf anatomy of hybrids between photosynthetically distinct Flaveria species. Plant Physiol 89(3):839-844
36. Iltis HH, Cochrane TS (2007) Studies in the Cleomaceae V: a new genus and ten new combinations for the flora of North America. Novon 17(4):447-451
37. 4 phosphoenolpyruvate carboxylase in Flaveria: determinants for high tolerance towards the inhibitor l-malate. Plant Cell Environ 31(6):793-803
38. Jiao Y, Tausta SL, Gandotra N, Sun N, Liu T, Clay NK, Ceserani T, Chen M, Ma L, Holford M, Zhang HY, Zhao H, Deng XW, Nelson T (2009) A transcriptome atlas of rice cell types uncovers cellular, functional and developmental hierarchies. Nat Genet 41(2):258-263
39. Johnson MT, Carpenter EJ, Tian Z, Bruskiewich R, Burris JN, Carrigan CT, Chase MW, Clarke ND, Covshoff S, Depamphilis CW, Edger PP, Goh F, Graham S, Greiner S, Hibberd JM, Jordon-Thaden I, Kutchan TM, Leebens-Mack J, Melkonian M, Miles N, Myburg H, Patterson J, Pires JC, Ralph P, Rolf M, Sage RF, Soltis D, Soltis P, Stevenson D, Stewart CN Jr, Surek B, Thomsen CJ, Villarreal JC, Wu X, Zhang Y, Deyholos MK, Wong GK (2012) Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes. PLoS One 7(11):e50226
40. 4 photosynthetic pathway into rice. J Exp Bot 62(9):3001-3010
41. 4 photosynthesis. Plant J 69(1):47-56
42. Kolkman JM, Conrad LJ, Farmer PR, Hardeman K, Ahern KR, Lewis PE, Sawers RJ, Lebejko S, Chomet P, Brutnell TP (2005) Distribution of Activator (Ac) throughout the maize genome for use in regional mutagenesis. Genetics 169(2):981-995
43. Koornneef M, Meinke D (2010) The development of Arabidopsis as a model plant. Plant J 61(6):909-921
44. 4 in the genus Cleome (Cleomaceae). Ann Bot 107(2):269-283
45. 4 Flaveria species. Plant Physiol 128(1):125-139
46. 4 photosynthesis. Plant Cell 23(11):3879-3892
47. 2-concentrating mechanisms in Egeria densa, a submersed aquatic plant. Physiol Plant 115(4):487-495
48. Li P, Brutnell TP (2011) Setaria viridis and Setaria italica, model genetic systems for the Panicoid grasses. J Exp Bot 62(9):3031-3037
49. Li P, Ponnala L, Gandotra N, Wang L, Si Y, Tausta SL, Kebrom TH, Provart N, Patel R, Myers CR, Reidel EJ, Turgeon R, Liu P, Sun Q, Nelson T, Brutnell TP (2010) The developmental dynamics of the maize leaf transcriptome. Nat Genet 42(12):1060-1067
50. Liu WY, Chang YM, Chen SC, Lu CH, Wu YH, Lu MY, Chen DR, Shih AC, Sheue CR, Huang HC, Yu CP, Lin HH, Shiu SH, Ku MS, Li WH (2013) Anatomical and transcriptional dynamics of maize embryonic leaves during seed germination. PNAS 110(10):3979-3984
51. Long SP, Zhu XG, Naidu SL, Ort DR (2006) Can improvement in photosynthesis increase crop yields? Plant Cell Environ 29(3):315-330
52. Ludwig M (2011) The molecular evolution of β-carbonic anhydrase in Flaveria. J Exp Bot 62(9):3071-3081
53. 2-concentrating mechanism. Plant Physiol 117(3):1071-1081
54. 4-type photosynthesis in Hydrilla verticillata. Plant Physiol 115(4):1681-1689
55. Majeran W, Cai Y, Sun Q, van Wijk KJ (2005) Functional differentiation of bundle sheath and mesophyll maize chloroplasts determined by comparative proteomics. Plant Cell 17(11):3111-3140
56. 4 leaf development and differentiation defined by microscopy and quantitative proteomics in maize. Plant Cell 22(11):3509-3542
57. 4 Me1 gene from Flaveria bidentis requires an interaction between 5′ and 3′ sequences. Plant Cell 9(9):1515-1525
58. 4 photosynthesis. Plant J 51(5):886-896
59. 4 vein pattern in Flaveria (Asteraceae). Am J Bot 94(3):382-399
60. 4 photosynthesis evolution. Am J Bot 92(11):1911-1928
61. Meinke DW, Cherry JM, Dean C, Rounsley SD, Koornneef M (1998) Arabidopsis thaliana: a model plant for genome analysis. Science 282(5389):662-682
62. 4 photosynthetic metabolism of Flaveria bidentis (L.). Planta 199:262-269
63. Mitchell PL, Sheehy JE (2006) Supercharging rice photosynthesis to increase yield. New Phytol 171(4):688-693
64. 4 eudicots. Am J Bot 94(3):362-381
65. 4 species. Plant Physiol 85(1):294-298
66. 4 photosynthesis. Annu Rev Plant Physiol Plant Mol Biol 43:25-47
67. 4 dicotyledon that is closely related to Arabidopsis thaliana. J Exp Bot 61(5):1311-1319
68. Osmond CB, Björkman O, Anderson DJ (1980) Physiological processes in plant ecology: toward a synthesis with Atriplex. Springer, Berlin
69. 4 plant. J Biol Chem 281(35):25485-25491
70. Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Mehboob-ur-Rahman, Ware D, Westhoff P, Mayer KF, Messing J, Rokhsar DS (2009) The Sorghum bicolor genome and the diversification of grasses. Nature 457(7229):551-556
71. Pengelly JJ, Kwasny S, Bala S, Evans JR, Voznesenskaya EV, Koteyeva NK, Edwards GE, Furbank RT, von Caemmerer S (2011) Functional analysis of corn husk photosynthesis. Plant Physiol 156(2):503-513
72. 4 cycle. Plant Physiol 160(2):1070-1080
73. 4 model and provides candidates for regulation. Plant Cell 23(12):4208-4220
74. Powell AM (1978) Systematics of Flaveria (Flaveriinae-Asteraceae). Ann Missouri Bot Gard 65(2):590-636
75. 4 photosynthesis. New Phytol 161(2):341-370
76. 4 photosynthesis. J Exp Bot 62(9):2989-3000
77. 4 photosynthesis in Amaranthaceae sensu stricto. Am J Bot 94(12):1992-2003
78. 4 plant lineages of planet Earth. J Exp Bot 62(9):3155-3169
79. 4 photosynthesis. Annu Rev Plant Biol 63:19-47
80. Sawers RJ, Liu P, Anufrikova K, Hwang JT, Brutnell TP (2007) A multi-treatment experimental system to examine photosynthetic differentiation in the maize leaf. BMC Genomics 8:12
81. Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK (2009) The B73 maize genome: complexity, diversity, and dynamics. Science 326(5956):1112-1115
82. 4 photosynthesis? Photosynth Res. doi: 10.1007/s11120-013-9810-9
83. Sharpe RM, Mahajan A, Takacs EM, Stern DB, Cahoon AB (2011) Developmental and cell type characterization of bundle sheath and mesophyll chloroplast transcript abundance in maize. Curr Genet 57(2):89-102
84. 4 gene expression. Annu Rev Plant Physiol Plant Mol Biol 50:187-217
85. Slack CR, Hatch MD (1967) Comparative studies on the activity of carboxylases and other enzymes in relation to the new pathway of photosynthetic carbon dioxide fixation in tropical grasses. Biochem J 103(3):660-665
86. 3 plant tobacco. Mol Gen Genet 245(3):286-293
87. 4 carbonic anhydrase in Flaveria. Plant Physiol 150(3):1515-1529
88. The Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796-815
89. 4 plant C. gynandra. Plant Cell Rep 31(7):1189-1198
90. 3 modes in contrasting environments. Proc Natl Acad Sci USA 85(18):6733-6737
91. 4 grasses for cellulosic biofuel production. Front Plant Sci 4:107
92. 4 photosynthesis. Glob Change Biol 14(12):2963-2977
93. 4 photosynthesis. Oecologia 169(2):341-352
94. Vollbrecht E, Duvick J, Schares JP, Ahern KR, Deewatthanawong P, Xu L, Conrad LJ, Kikuchi K, Kubinec TA, Hall BD, Weeks R, Unger-Wallace E, Muszynski M, Brendel VP, Brutnell TP (2010) Genome-wide distribution of transposed Dissociation elements in maize. Plant Cell 22(6):1667-1685
95. 4 plant Flaveria bidentis reduces Rubisco carbamylation and leaf photosynthesis. Plant Physiol 137(2):747-755
96. 4 photosynthesis. New Phytol 190(1):9-20
97. 4 phosphoenolpyruvate carboxylase. Genes and proteins: a case study with the genus Flaveria. Ann Bot 93(1):13-23
98. 4 photosynthesis-looking for the master switch. Plant Physiol 154(2):598-601
99. 4 plants. Planta 184:377-388
100. Williams-Carrier R, Stiffler N, Belcher S, Kroeger T, Stern DB, Monde RA, Coalter R, Barkan A (2010) Use of Illumina sequencing to identify transposon insertions underlying mutant phenotypes in high-copy Mutator lines of maize. Plant J 63(1):167-177
101. 4 Flaveria: an intricate interplay of transcriptional and posttranscriptional processes. Plant Cell 24(1):137-151
102. 4 photosynthesis in sorghum: isolation, characterization and RFLP mapping of mesophyll- and bundle-sheath-specific cDNAs obtained by differential screening. Plant Mol Biol 37(2):319-335
103. Xin Z, Wang ML, Barkley NA, Burow G, Franks C, Pederson G, Burke J (2008) Applying genotyping (TILLING) and phenotyping analyses to elucidate gene function in a chemically induced sorghum mutant population. BMC Plant Biol 8:103
104. Zhang J, Peterson T (2005) A segmental deletion series generated by sister-chromatid transposition of Ac transposable elements in maize. Genetics 171(1):333-344
105. Zhang G, Liu X, Quan Z, Cheng S, Xu X, Pan S, Xie M, Zeng P, Yue Z, Wang W, Tao Y, Bian C, Han C, Xia Q, Peng X, Cao R, Yang X, Zhan D, Hu J, Zhang Y, Li H, Li H, Li N, Wang J, Wang C, Wang R, Guo T, Cai Y, Liu C, Xiang H, Shi Q, Huang P, Chen Q, Li Y, Wang J, Zhao Z, Wang J (2012) Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential. Nat Biotechnol 30(6):549-554