NdhF

The chloroplast NADH dehydrogenase F (ndhF) gene is found in all vascular plant divisions and is highly conserved. Its DNA fragment resides in the small single-copy region of the chloroplast genome, and is thought to encode a hydrophobic protein containing 664 amino acids and to have a mass of 72.9 kDa.^[1]

Application

The ndhF fragment has been a very useful tool in phylogenetic reconstruction at a number of taxonomic levels.^[2]^[3]^[4]^[5]

References

^ Neyland, Ray; Lowell E. Urbatsch (1996). "The ndhF chloroplast gene detected in all vascular plant divisions". Planta. 200 (2): 273–277 P. doi:10.1007/bf00208318. PMID 8904810. S2CID 351989.
^ Dong, Wenpan; Jing Liu; Jing Yu; Ling Wang; Shiliang Zhou (2012). "Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding". PLOS ONE. 7 (4): e35071. Bibcode:2012PLoSO...735071D. doi:10.1371/journal.pone.0035071. PMC 3325284. PMID 22511980.
^ Patterson, T. B.; T. J. Givnish (2002). "Phylogeny, concerted convergence, and phylogenetic niche conservatism in the core Liliales: insights from rbcL and ndhF sequence data". Evolution. 56 (2): 233–252. doi:10.1111/j.0014-3820.2002.tb01334.x. PMID 11926492.
^ Givnish, T.J.; Pires, J.C.; Graham, S.W.; McPherson, M.A.; Prince, L.M.; Patterson, T.B.; Rai, H.S.; Roalson, E.R.; Evans, T.M.; Hahn, W.J; Millam, K.C.; Meerow, A.W.; Molvray, M.; Kores, P.; O’Brien, H.E.; Kress, W.J.; Hall, J.; Sytsma, K.J. "Phylogeny of the monocotyledons based on the highly informative plastid gene ndhF: evidence for widespread concerted convergence" (PDF): 28–51. Archived from the original (PDF) on 16 January 2014. Retrieved 4 January 2014. {{cite journal}}: Cite journal requires |journal= (help) In Columbus et al. (2006)
^ Givnish, T.J.; Pires, J.C.; Graham, S.W.; McPherson, M.A.; Prince, L.M.; Patterson, T.B.; Rai, H.S.; Roalson, E.R.; Evans, T.M.; Hahn, W.J; Millam, K.C.; Meerow, A.W.; Molvray, M.; Kores, P.; O’Brien, H.E.; Kress, W.J.; Hall, J.; Sytsma, K.J. (2005). "Repeated evolution of net venation and fleshy fruits among monocots in shaded habitats confirms a priori predictions: evidence from an ndhF phylogeny". Proceedings of the Royal Society B: Biological Sciences. 272 (1571): 1481–1490. doi:10.1098/rspb.2005.3067. PMC 1559828. PMID 16011923.

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[1] Neyland, Ray; Lowell E. Urbatsch (1996). "The ndhF chloroplast gene detected in all vascular plant divisions". Planta. 200 (2): 273–277 P. doi:10.1007/bf00208318. PMID 8904810. S2CID 351989.

[2] Dong, Wenpan; Jing Liu; Jing Yu; Ling Wang; Shiliang Zhou (2012). "Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding". PLOS ONE. 7 (4): e35071. Bibcode:2012PLoSO...735071D. doi:10.1371/journal.pone.0035071. PMC 3325284. PMID 22511980.

[Patterson_2002-3] Patterson, T. B.; T. J. Givnish (2002). "Phylogeny, concerted convergence, and phylogenetic niche conservatism in the core Liliales: insights from rbcL and ndhF sequence data". Evolution. 56 (2): 233–252. doi:10.1111/j.0014-3820.2002.tb01334.x. PMID 11926492.

[Givnish_2006-4] Givnish, T.J.; Pires, J.C.; Graham, S.W.; McPherson, M.A.; Prince, L.M.; Patterson, T.B.; Rai, H.S.; Roalson, E.R.; Evans, T.M.; Hahn, W.J; Millam, K.C.; Meerow, A.W.; Molvray, M.; Kores, P.; O’Brien, H.E.; Kress, W.J.; Hall, J.; Sytsma, K.J. "Phylogeny of the monocotyledons based on the highly informative plastid gene ndhF: evidence for widespread concerted convergence" (PDF): 28–51. Archived from the original (PDF) on 16 January 2014. Retrieved 4 January 2014. {{cite journal}}: Cite journal requires |journal= (help) In Columbus et al. (2006)

[Givnish_2005-5] Givnish, T.J.; Pires, J.C.; Graham, S.W.; McPherson, M.A.; Prince, L.M.; Patterson, T.B.; Rai, H.S.; Roalson, E.R.; Evans, T.M.; Hahn, W.J; Millam, K.C.; Meerow, A.W.; Molvray, M.; Kores, P.; O’Brien, H.E.; Kress, W.J.; Hall, J.; Sytsma, K.J. (2005). "Repeated evolution of net venation and fleshy fruits among monocots in shaded habitats confirms a priori predictions: evidence from an ndhF phylogeny". Proceedings of the Royal Society B: Biological Sciences. 272 (1571): 1481–1490. doi:10.1098/rspb.2005.3067. PMC 1559828. PMID 16011923.

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v t e Carbon–oxygen lyases (EC 4.2) (primarily dehydratases)
4.2.1: Hydro-Lyases	Carbonic anhydrase Fumarase Aconitase Enolase Alpha Enolase 2 Enoyl-CoA hydratase/3-Hydroxyacyl ACP dehydrase Methylglutaconyl-CoA hydratase Tryptophan synthase Cystathionine beta synthase Porphobilinogen synthase 3-Isopropylmalate dehydratase Urocanase Uroporphyrinogen III synthase Nitrile hydratase
4.2.2: Acting on polysaccharides	Hyaluronate lyase Pectin lyase
4.2.3: Acting on phosphates	Threonine synthase
4.2.99: Other	Carboxymethyloxysuccinate lyase Hydroperoxide lyase

v t e Enzymes
Activity	Active site Binding site Catalytic triad Oxyanion hole Enzyme promiscuity Diffusion-limited enzyme Cofactor Enzyme catalysis
Regulation	Allosteric regulation Cooperativity Enzyme inhibitor Enzyme activator
Classification	EC number Enzyme superfamily Enzyme family List of enzymes
Kinetics	Enzyme kinetics Eadie–Hofstee diagram Hanes–Woolf plot Lineweaver–Burk plot Michaelis–Menten kinetics
Types	EC1 Oxidoreductases (list) EC2 Transferases (list) EC3 Hydrolases (list) EC4 Lyases (list) EC5 Isomerases (list) EC6 Ligases (list) EC7 Translocases (list)

NdhF

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NdhF

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