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Record W2595034014 · doi:10.1074/jbc.o117.000002

Masochistic Enzymology: Dennis Vance's Work on Phosphatidylcholine

2017· article· en· W2595034014 on OpenAlexaboutno aff
George Carman, Alexandra Taylor

Bibliographic record

VenueJournal of Biological Chemistry · 2017
Typearticle
Languageen
FieldMedicine
TopicCOVID-19 Clinical Research Studies
Canadian institutionsnot available
FundersNational Institute of General Medical Sciences
KeywordsPhosphatidylcholinePhosphatidylethanolaminePhospholipidCholineBiochemistryMethylationChemistryMolecular biologyBiologyGeneMembrane

Abstract

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Masochistic enzymology: Dennis Vance's work on phosphatidylcholine.Journal of Biological ChemistryVol. 292Issue 17PreviewVOLUME 292 (2017) PAGES 4753–4754 Full-Text PDF Open AccessBiochemical and Evolutionary Significance of Phospholipid MethylationJournal of Biological ChemistryVol. 273Issue 42PreviewAll nucleated mammalian cells synthesize phosphatidylcholine from choline via the CDP-choline pathway. Hepatocytes have a second pathway for the synthesis of phosphatidylcholine, a stepwise methylation of phosphatidylethanolamine, catalyzed by phosphatidylethanolamineN-methyltransferase and encoded by the Pemptgene. We report that when Pempt-deficient mice were fed a choline-deficient diet for 3 days, severe liver pathology occurred apparently due to a lack of phosphatidylcholine biosynthesis. The hepatic concentration of phosphatidylcholine decreased by 50% compared with wild type mice on the diet. Full-Text PDF Open Access Purification of Phosphatidylethanolamine N-Methyltransferase from Rat Liver (Ridgway, N. D., and Vance, D. E. (1987) J. Biol. Chem. 262, 17231–17239) The Active Synthesis of Phosphatidylcholine Is Required for Very Low Density Lipoprotein Secretion from Rat Hepatocytes (Yao, Z., and Vance, D. E. (1988) J. Biol. Chem. 263, 2998–3004) Cloning and Expression of a Novel Phosphatidylethanolamine N-Methyltransferase. A Specific Biochemical and Cytological Marker for a Unique Membrane Fraction in Rat Liver (Cui, Z., Vance, J. E., Chen, M. H., Voelker, D. R., and Vance, D. E. (1993) J. Biol. Chem. 268, 16655–16663 Biochemical and Evolutionary Significance of Phospholipid Methylation (Walkey, C. J., Yu, L., Agellon, L. B., and Vance, D. E. (1998) J. Biol. Chem. 273, 27043–27046 In the 1980s and '90s, Dennis Vance and colleagues at the University of Alberta published a series of papers demonstrating the importance of the phospholipid phosphatidylcholine (PC) to the assembly and secretion of lipoproteins from the liver. According to William Dowhan at the University of Texas Health Science Center at Houston, these studies represented “an entry into the evolving area of molecular biology” in the field of mammalian lipid enzymology. PC is a major membrane phospholipid found in eukaryotic cells. It is a major component of the membrane bilayers of all cellular organelles. PC is also an integral part of the monolayers surrounding certain plasma lipoproteins, such as high density lipoproteins (HDL), or “good” cholesterol; low density lipoproteins (LDL), or “bad” cholesterol; and very low density lipoproteins (VLDL). VLDL is assembled in the liver and secreted into the bloodstream, where it is a precursor to LDL; without PC, the lipids can remain behind and build up in the cell. PC is formed by two pathways: the choline pathway, which is found in all mammalian tissues and uses the dietary nutrient choline as its precursor; and the phosphatidylethanolamine N-methyltransferase (PEMT) pathway, which starts with methionine and operates almost exclusively in the liver. By 1987, Vance had been working for many years to understand the regulation of these two pathways. His lab had been trying to purify the enzyme PEMT since 1976. Membrane-bound enzymes are notoriously difficult to purify because they do not dissolve in aqueous buffers. A detergent was needed to solubilize the enzyme, which meant that normal purification methods, such as column chromatography, had to be modified. Once the enzyme was solubilized in buffer, it would very quickly lose activity. For these reasons, Vance refers to the purification of membrane proteins as “masochistic enzymology.” Neale Ridgway, who was a doctoral student in Vance's lab, was able to accomplish this feat in 1987. Vance says Ridgway “had this desire to purify the enzyme, and he didn't give up.” Ridgway had a stroke of inspiration one day when he decided to use a phosphate rather than a Tris buffer in the purification process. He succeeded in stabilizing and then purifying the enzyme. “Thus PEMT became one of the first membrane-bound enzymes to be purified from mammalian sources,” says George Carman at Rutgers University, a JBC associate editor. “This was a miraculous feat that Ridgway had performed,” he says. “It was a major accomplishment in the field of lipid metabolism.” Next, Vance and colleagues cultured rat liver cells to understand the relative importance of the two pathways to PC production. They fed rats a choline-free diet to hinder production of PC by the choline pathway. They then cultured cells from the rats' livers and added back choline or methionine. They found that both pathways were needed to secrete normal amounts of VLDL into the circulation. The studies “provided an important link between the liver phospholipid metabolism and lipoprotein production,” says Dowhan. Vance's lab then worked for several years to clone the cDNA that encodes PEMT. “These days, you can isolate a gene almost at will using bioinformatics,” Carman says. “But back then, it was not trivial.” Using sequences from the cDNA, by 1998 they had developed a knockout mouse that was unable to make PC via the PEMT pathway. These mice appeared normal until choline was removed from their diet, hindering PC production via the choline pathway. Without choline, the rats' cells were unable to secrete VLDL. The rats developed liver failure after only a few days. The comparison of a healthy rat liver with that of a PEMT knockout mouse was striking. Vance and his colleagues had shown how important the PEMT pathway is when the choline pathway is impaired. “It was totally unexpected and totally amazing at the time,” Vance recalls. “Nobody could believe it.” Vance's recent work has focused on physiological roles for PEMT. He is examining the implications of the enzyme for obesity and type 2 diabetes. Only by powering through the tedious tasks of extracting PEMT and isolating the gene were Vance and his team able to lay the foundation for this later work. The 1998 paper, Carman says, “could never have been done if they didn't purify the enzyme in the first place in 1987.”

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.003
metaresearch head score (Gemma)0.004
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Not applicable · Consensus signal: Not applicable
GenreCandidate signal: Other · Consensus signal: none
Teacher disagreement score0.010
Threshold uncertainty score0.033

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0030.004
Meta-epidemiology (narrow)0.0010.001
Meta-epidemiology (broad)0.0010.001
Bibliometrics0.0020.001
Science and technology studies0.0020.005
Scholarly communication0.0030.005
Open science0.0010.003
Research integrity0.0020.008
Insufficient payload (model declined to judge)0.0100.009

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.092
GPT teacher head0.430
Teacher spread0.338 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designNot applicable
Domainnot available
GenreOther

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

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Citations0
Published2017
Admission routes1
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