Cloning and in silico analysis of a gene encoding a putative β-carbonic anhydrase from cowpea (Vigna unguiculata L. Walp)

References

• Badger MR, Price GD. 1994. The role of carbonic anhydrase in photosynthesis. Annu Rev Plant Physiol Plant Mol Biol. 45:369–392. 10.1146/annurev.pp.45.060194.002101
   Web of Science ®Google Scholar
• Boukar O, Massawe F, Muranaka S, Franco J, Maziya-Dixon B, Singh B, Fatokun C. 2011. Evaluation of cowpea germplasm lines for protein and mineral concentrations in grains. Plant Genet Resour. 9:515–522. 10.1017/S1479262111000815
   Web of Science ®Google Scholar
• Bracey MH, Bartlett SG. 1995. Sequence of a cDNA encoding carbonic anhydrase from barley. Plant Physiol. 108:433–434. 10.1104/pp.108.1.433
   PubMed Web of Science ®Google Scholar
• Chaves MM, Flexas J, Pinheiro C. 2009. Photosynthesis under drought and salt stress: regulation mechanisms from whole plant to cell. Ann Bot. 103:551–560. 10.1093/aob/mcn125
   PubMed Web of Science ®Google Scholar
• Chen CC, Hwang JK, Yang JM. 2006. (PS)2: protein structure prediction server. Nucleic Acids Res. 34:152–157. 10.1093/nar/gkl187
   PubMed Web of Science ®Google Scholar
• Coba de la Pena T, Frugier F, McKhann HI, Bauer P, Brown S, Kondorosi A, Crespi M. 1997. A carbonic anhydrase gene is induced in the nodule primordium and its cell-specific expression is controlled by the presence of Rhizobium during development. Plant J. 11:407–420. 10.1046/j.1365-313X.1997.11030407.x
   PubMed Web of Science ®Google Scholar
• Combet C, Blanchet C, Geourjon C, Deléage G. 2000. NPS@: network protein sequence analysis. Trend Biochem Sci. 25:147–150. 10.1016/S0968-0004(99)01540-6
   PubMed Web of Science ®Google Scholar
• Cronk JD. 2002. β-carbonic anhydrase: new insights from structural studies. In: Goyal A, Mehta SL, Lodha ML, editors. Reviews in plant biochemistry and biotechnology. New Delhi: Soc Plant Biochem Biotech. vol. I, p. 191–208.
   Google Scholar
• Crooks GE, Hon G, Chandonia JM, Brenner SE. 2004. WebLogo: a sequence logo generator. Genome Res. 14:1188–1190. 10.1101/gr.849004
   PubMed Web of Science ®Google Scholar
• Díaz Torres N, González G, Biswas S, Scott KM, McKenna R. 2012. Preliminary X-ray crystallographic analysis of α-carbonic anhydrase from Thiomicrospira crunogena XCL-2. Acta Crystallogr Sect F Struct Biol Cryst Commun. 68:1064–1066. 10.1107/S1744309112031053
   PubMed Web of Science ®Google Scholar
• El-Mashad AA, Mohamed HI. 2012. Brassinolide alleviates salt stress and increases antioxidant activity of cowpea plants (Vigna sinensis). Protoplasma. 249:625–635. 10.1007/s00709-011-0300-7
   PubMed Web of Science ®Google Scholar
• Gillon JS, Yakir D. 2000. Naturally low carbonic anhydrase activity in C-4 and C-3 plants limits discrimination against (COO)-O-18 during photosynthesis. Plant Cell Environ. 23:903–915. 10.1046/j.1365-3040.2000.00597.x
   Web of Science ®Google Scholar
• Goenaga R, Gillaspie V, Quiles A. 2008. Assessing yield potential of cowpea genotypes grown under virus pressure. Hort Sci. 43:673–676.
   Google Scholar
• Grosdidier A, Zoete V, Michielin O. 2011. SwissDock, a protein-small molecule docking web service based on EADock DSS. Nucleic Acids Res. 39:W270–W277. 10.1093/nar/gkr366
   PubMed Web of Science ®Google Scholar
• Gu R, Fonseca S, Puskás LG, Hackler JRL, Zvara A, Dudits D, Pais MS. 2004. Transcript identification and profiling during salt stress and recovery of Populus euphratica. Tree Physiol. 24:265–276. 10.1093/treephys/24.3.265
   PubMed Web of Science ®Google Scholar
• Guliyev N, Bayramov S, Babayev, H. 2008. Effect of water deficit on rubisco and carbonic anhydrase activities in different wheat genotypes. In: Allen JF, Grantt E, Golbeck JH, Osmond R, editors. Photosynthesis, energy from the sun. 14th International Congress on Photosynthesis, vol. 24. Glasgow: Springer; p. 1465–1468.
   Google Scholar
• Hacisalihoglu G, Hart JJ, Wang YH, Cakmak I, Kochian LV. 2003. Zinc efficiency is correlated with enhanced expression and activity of zinc-requiring enzymes in wheat. Plant Physiol. 131:595–602. 10.1104/pp.011825
   PubMed Web of Science ®Google Scholar
• Ignatova LK, Rudenko NN, Mudrik VA, Fedorchuk TP, Ivanov BN. 2011. Carbonic anhydrase activity in Arabidopsis thaliana thylakoid membrane and fragments enriched with PSI or PSII. Photosynth Res. 110:89–98. 10.1007/s11120-011-9699-0
   PubMed Web of Science ®Google Scholar
• Kamaraj B, Purohit R. 2013. In silico analysis of betaine aldehyde dehydrogenase 2 of Oryza sativa and significant mutations responsible for fragrance. J Plant Interact. 8: 321–333 10.1080/17429145.2012.758785
   Web of Science ®Google Scholar
• Kaul T, Reddy PS, Mahanty S, Thirulogachandar V, Reddy RA, Kumar B, Sopory SK, Reddy MK. 2011. Biochemical and molecular characterization of stress-induced β-carbonic anhydrase from a C4 plant, Pennisetum glaucum. J Plant Physiol. 168:601–610. 10.1016/j.jplph.2010.08.007
   PubMed Web of Science ®Google Scholar
• Kim HJ, Bracey MH, Bartlett SG. 1994. Nucleotide sequence of a gene encoding carbonic anhydrase in Arabidopsis thaliana. Plant Physiol. 105:449. 10.1104/pp.105.1.449
   PubMed Web of Science ®Google Scholar
• 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. 19:1407–1419. 10.1093/emboj/19.7.1407
   PubMed Web of Science ®Google Scholar
• Laskowski RA, MacArthur MW, Moss DS, Thornton JM. 1993. PROCHECK – a program to check the stereochemical quality of protein structures. J Appl Crystallogr. 26:283–291. 10.1107/S0021889892009944
   Web of Science ®Google Scholar
• Laurie AT, Jackson RM. 2005. Q-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites. Bioinformatics. 21:1908–1916. 10.1093/bioinformatics/bti315
   PubMed Web of Science ®Google Scholar
• Liljas A, Lauberg MA. 2000. Weel invented three times. The molecular structure of the three carbonic anhydrases. EMBO J. 19:16–17. 10.1093/emboj/19.1.16
   PubMed Web of Science ®Google Scholar
• Majeau N, Coleman JR. 1994. Correlation of carbonic anhydrase and ribulose-1,5- bisphosphate carboxylase/oxygenase expression in pea. Plant Physiol. 104:1393–1399.
   PubMed Web of Science ®Google Scholar
• Marschner H. 2003. Mineral nutrition of higher plants. Mechanisms from whole plant to cell. Ann Bot. 103:551–560.
   Google Scholar
• Mukhopadhyay M, Das A, Subba P, Bantawa P, Sarkar B, Ghosh P, Mondal TK. 2013. Structural, physiological and biochemical profiling of tea plantlets under zinc stress. Biol Plant. 57:474–480. 10.1007/s10535-012-0300-2
   Web of Science ®Google Scholar
• Murashige T, Skoog F. 1962. A revised medium for rapid growth and bioassays with tobacco tissue culture. Physiol Plant. 15:473–497. 10.1111/j.1399-3054.1962.tb08052.x
   Web of Science ®Google Scholar
• Murillo-Amador B, Troyo-Diéguez E, García-Hernández JL, López-Aguilar R, Ávila-Serrano AG, Zamora-Salgado S, Rueda-Puente EO, Kaya C. 2006. Effect of NaCl salinity in the genotypic variation of cowpea (Vigna unguiculata) during early vegetative growth. Sci Hort. 108:423–431. 10.1016/j.scienta.2006.02.010
   Web of Science ®Google Scholar
• Murray MG, Thompson WF. 1980. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res. 8:4321–4325. 10.1093/nar/8.19.4321
   PubMed Web of Science ®Google Scholar
• Nelson M, Dempster WF, Allen JP, Silverstone S, Alling A, van Thillo M. 2008. Cowpeas and pinto beans: performance and yields of candidate space crops in the laboratory biosphere closed ecological system. Adv Space Res. 41:748–753. 10.1016/j.asr.2007.03.001
   Web of Science ®Google Scholar
• Ragunathan P, Raghunath G, Kuramitsu S, Yokoyama S, Kumarevel T, Ponnuraj K. 2013. Crystallization, characterization and preliminary X-ray crystallographic analysis of GK2848, a putative carbonic anhydrase of Geobacillus kaustophilus. Acta Crystallogr Sect F Struct Biol Cryst Commun. 69:162–164. 10.1107/S1744309112051913
   PubMed Web of Science ®Google Scholar
• Reed ML, Graham D. 1981. Carbonic anhydrase in plants: distribution, properties and possible physiological roles. In: Reinhold L, Harbome JB, Swain T, editors. Progress in photochemistry, vol. 7. Oxford (UK): Pergamon Press; p. 47–94.
   Google Scholar
• Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 4:406–425.
   PubMed Web of Science ®Google Scholar
• Schmittgen TD, Livak KJ. 2008. Analyzing real-time PCR data by the comparative CT method. Nat Protoc. 3:1101–1108. 10.1038/nprot.2008.73
   PubMed Web of Science ®Google Scholar
• Sly WS, Hu PY. 1995. Human carbonic anhydrases and carbonic anhydrase deficiencies. Annu Rev Biochem. 64:375–401. 10.1146/annurev.bi.64.070195.002111
   PubMed Web of Science ®Google Scholar
• Thompson JD, Higgins DG, Gibson TJ. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673–4680. 10.1093/nar/22.22.4673
   PubMed Web of Science ®Google Scholar
• Tiwari A, Kumar P, Singh S, Ansari SA. 2005. Carbonic anhydrase in relation to higher plants. Photosynthetica 43:1–11. 10.1007/s11099-005-1011-0
   Web of Science ®Google Scholar
• Wang Q, Fristedt R, Yu X, Chen Z, Liu H, Lee Y, Guo H, Merchant SS, Lin C. 2012. The γ-carbonic anhydrase subcomplex of mitochondrial complex I is essential for development and important for hotomorphogenesis of Arabidopsis. Plant Physiol. 160:1373–1383. 10.1104/pp.112.204339
   PubMed Web of Science ®Google Scholar
• Yu S, Zhang X, Guan Q, Takano T, Liu S. 2007. Expression of a carbonic anhydrase gene is induced by environmental stresses in rice (Oryza sativa L.). Biotech Lett. 29:89–94. 10.1007/s10529-006-9199-z
   PubMed Web of Science ®Google Scholar