Membrane lipid biosynthesis in Acholeplasma laidlawii B. Relationship between fatty acid structure and the positional distribution of esterified fatty acids in phospho- and glycolipids from growing cells

MicroRNA expression profiling in bone marrow: implications in hematological malignancies

MicroRNA (miRNA) have been recently attributed a crucial role in the control of gene expression in numerous physiological and pathological processes including growth, differentiation and even oncogenesis. Besides detailed mechanistic studies on their generation and function, there has been a great deal of interest in the study of miRNA as surrogate markers of disease. Numerous studies have attempted to define miRNA profiles as predictors of disease outcome, or for the classification/diagnosis of different pathologies. In the present review, we summarize the main studies describing the involvement of miRNA in bone marrow (BM) diseases and in normal BM function during hematopoiesis.

The comparative metabolism of the mollicutes (Mycoplasmas): the utility for taxonomic classification and the relationship of putative gene annotation and phylogeny to enzymatic function in the smallest free-living cells

Mollicutes or mycoplasmas are a class of wall-less bacteria descended from low G + C% Gram-positive bacteria. Some are exceedingly small, about 0.2 micron in diameter, and are examples of the smallest free-living cells known. Their genomes are equally small; the smallest in Mycoplasma genitalium is sequenced and is 0.58 mb with 475 ORFs, compared with 4.639 mb and 4288 ORFs for Escherichia coli. Because of their size and apparently limited metabolic potential, Mollicutes are models for describing the minimal metabolism necessary to sustain independent life. Mollicutes have no cytochromes or the TCA cycle except for malate dehydrogenase activity. Some uniquely require cholesterol for growth, some require urea and some are anaerobic. They fix CO2 in anaplerotic or replenishing reactions. Some require pyrophosphate not ATP as an energy source for reactions, including the rate-limiting step of glycolysis: 6-phosphofructokinase. They scavenge for nucleic acid precursors and apparently do not synthesize pyrimidines or purines de novo. Some genera uniquely lack dUTPase activity and some species also lack uracil-DNA glycosylase. The absence of the latter two reactions that limit the incorporation of uracil or remove it from DNA may be related to the marked mutability of the Mollicutes and their tachytelic or rapid evolution. Approximately 150 cytoplasmic activities have been identified in these organisms, 225 to 250 are presumed to be present. About 100 of the core reactions are graphically linked in a metabolic map, including glycolysis, pentose phosphate pathway, arginine dihydrolase pathway, transamination, and purine, pyrimidine, and lipid metabolism. Reaction sequences or loci of particular importance are also described: phosphofructokinases, NADH oxidase, thioredoxin complex, deoxyribose-5-phosphate aldolase, and lactate, malate, and glutamate dehydrogenases. Enzymatic activities of the Mollicutes are grouped according to metabolic similarities that are taxonomically discriminating. The arrangements attempt to follow phylogenetic relationships. The relationships of putative gene assignments and enzymatic function in My. genitalium, My. pneumoniae, and My. capricolum subsp. capricolum are specially analyzed. The data are arranged in four tables. One associates gene annotations with congruent reports of the enzymatic activity in these same Mollicutes, and hence confirms the annotations. Another associates putative annotations with reports of the enzyme activity but from different Mollicutes. A third identifies the discrepancies represented by those enzymatic activities found in Mollicutes with sequenced genomes but without any similarly annotated ORF. This suggests that the gene sequence is significantly different from those already deposited in the databanks and putatively annotated with the same function. Another comparison lists those enzymatic activities that are both undetected in Mollicutes and not associated with any ORF. Evidence is presented supporting the theory that there are relatively small gene sequences that code for functional centers of multiple enzymatic activity. This property is seemingly advantageous for an organism with a small genome and perhaps under some coding restraint. The data suggest that a concept of "remnant" or "useless genes" or "useless enzymes" should be considered when examining the relationship of gene annotation and enzymatic function. It also suggests that genes in addition to representing what cells are doing or what they may do, may also identify what they once might have done and may never do again.

Fluctuations in IR spectral parameters detected in mixed acyl chain membranes of Acholeplasma laidlawii B

Acholeplasma laidlawii B cells were grown at 37 degrees C on three binary C16:0-d(31)/C18:1 fatty acid mixtures at initial mol ratios of 3:2, 1:1, and 2:3. These mol ratios produced final C16:0-d(31)/C18:1 lipid acyl chain mol ratios of 1.66 +/- 0.23 (n=6), 1.3 +/- 0.20 (n=6) and 0.58 +/- 0.09 (n=10), respectively, in the membrane of the microorganism. Membrane conformational order for the deuterated and proteated acyl chains in intact cells was monitored by FT-IR spectroscopy through the thermotropic response of the acyl chain CD2 and CH2 stretching frequencies. Intact cells and isolated membranes revealed broad phase transitions centered well below the growth temperature. This result differs from previous studies (Moore, D.J. and Mendelsohn, R. (1994) Biochemistry 33, 4080-4085) of cells grown on a single saturated fatty acid source, where Tm was close to the growth temperature. Fluctuations in IR spectral parameters from the liquid crystalline phases were detected in ten separate samples of cells grown on a 2:3 mixture (final mol ratio 0.58:1) of C16:0-d(31)/C18:1, and in no other cell preparation. These were manifest by reduced precision in the measurement of CH2 and CD2 stretching frequencies and are attributed to fluctuations in the membrane conformational order. In addition to conformational order fluctuations in intact cells, similar behavior was noted for the simple binary phosphatidylcholine (PC) mixture, DOPC/1-C16:0-d(31),2-C18:1 PC (2:1 molar ratio). In this instance, the fluctuations were also detected through the temporal and thermotropic response of the relative intensity of the 1341 cm(-1) band assigned to end-gauche conformers about the penultimate C-C bond in the oleoyl chains. The relationship of these observations to the Raman spectroscopic detection of packing fluctuations in highly unsaturated PC's (Litman, B.J., Lewis, N., and Levin, I.W. (1991) Biochemistry 30, 313-319) is considered.

Membrane lipid composition and cell size of Acholeplasma laidlawii strain A are strongly influenced by lipid acyl chain length

The small, cell-wall-less prokaryote Acholeplasma laidlawii strain A-EF22 could grow with membrane lipids having an average acyl chain length Cn varying over 14.5- almost 20 carbons by exogenous supplementation with selected fatty acids. For 16 < Cn < 18, the cells grew with lipids containing 100% (mol/100 mol) monounsaturated acyl chains, whereas for Cn < 16 and Cn > 18, cell growth only occurred with gradually lower fractions of unsaturated chains. Cn was actively increased and decreased by chain elongation or de novo fatty acid synthesis upon incorporation of short-chain and long-chain fatty acids, respectively. The membrane lipid composition was strongly affected by the acyl chain length and unsaturation, and the metabolic responses are readily explained as a regulation mechanism based on the established phase equilibria of the individual lipids in the A. laidlawii membrane. Monoglucosyldiacylglycerol (Glc-acyl2-Gro) was the dominating lipid with short chains but the fraction of this lipid decreased with increasing Cn, correlating with the decreasing lamellar to nonlamellar phase transition temperatures for this lipid. The fractions of diglucosyldiacylglycerol (Glc2-acyl2Gro) and phosphatidylglycerol (PtdGro), forming lamellar phases only, increased with increasing Cn over the entire chain-length interval. A weaker correlation was usually observed between the relative amount of a lipid and the extent of chain unsaturation; however, the fractions of Glc2-acyl2Gro and PtdGro increased clearly with an increasing degree of unsaturation. Moreover, the synthesis of the nonbilayer-forming lipids acyl2Gro and monoacyl-Glc-acyl2Gro was strongly stimulated by a high degree of chain saturation. Concomitantly, the phase equilibria of Glc-acyl2Gro are shifted towards lamellar phases at the growth temperature. The fraction of the three potentially nonbilayer-forming lipids varied over 10-80% (mol/100 mol) total lipids as a function of the acyl chain composition. The combined molar fractions of the three phospholipids increased strongly with chain unsaturation. However, the fraction of phosphate moieties in the different lipids was constant over the entire chain-length interval. It is concluded that the regulation of the membrane lipid composition aims at maintaining similar phase equilibria and surface charge densities of the lipid bilayer. The size of A. laidlawii cells was changed in a systematic manner and correlated qualitatively with the packing properties of the lipids. Cell diameters were increased by an increase in acyl chain length and saturation, and was affected by additives such an n-dodecane and acyl2Gro.

Studies on temperature adaptation in Tetrahymena. Positional distribution of fatty acids and species analysis of phosphatidylethanolamine from Tetrahymena pyriformis grown at different temperatures

Phosphatidylethanolamine of 15 degrees C-grown Tetrahymena pyriformis (NT-I) cells contains more polyunsaturated fatty acids than 39.5 degrees C-grown cells. This increase in unsaturation is due to an increase in linoleic (C18 : 2) and linolenic (C18 : 3) acids, and a decrease in myristic (C14 : 0), palmitic (C16 : 0), palmitoleic (C16 : 1) and heptadecanoic (C17 : 0) acids. Compared with 39.5 degrees C-grown cells, the proportion of palmitic acid (C16 : 0) decreased in the 1-position as does at the 2-position in 15 degrees C-grown cells. On the contrary, there is a significant increase in linoleic (C18 : 2 delta 9, 12) and gamma-linolenic (gamma-C18 : 3) acids in the 1- and 2-positions, respectively. Phosphatidylethanolamine has been subfractionated into seven different diglyceride species. In 15 degrees C cells, the amounts of fractions 2 (1-linolenoyl-2-linoleoyl) and 3 (1-linolenoyl-2-palmitoleoyl, 1-linolenoyl-2-oleoyl) increased while there was a great decrease in subfraction 7 (1-myristoyl-2-palmitoleoyl, 1-palmitoyl-2-palmitoleoyl). Since subfractions 1 and 2 contain over 70% linoleic (C18 : 2) and linolenic (C18 : 3) acids, these fractions might be composed mainly of 1-linolenoyl-2-linolenoyl and 1-linolenoyl-2-linoleoyl molecular species at 15 degrees C. These data support evidence that phosphatidylethanolamine would play a principal role as an acceptor of acyl chains for temperature acclimation.

Positional specificity in the incorporation of isomeric cis- and trans-octadecenoic acids into glycerolipids of cultured soya cells

Heterotrophically grown cell suspension cultures of soya (Glycine max L.) were incubated with two different mixed substrates consisting of positional isomers of either cis-[1-(14)C]octadecenoic acids (Δ8 to δ15) or trans-[1-(14)C]octadecenoic acids (Δ8 to Δ16), each with known composition. With both substrates, about one-fourth of the radioactivity supplied was incorporated into the diacylglycerophosphocholines, while another one-fourth of the radioactivity was almost equally distributed between diacylglycerophos-phoethanolamines and triacylglycerols. All the positional isomers of cis-and trans-octadecenoic acids supplied to the cells were readily incorporated into various classes of glycerolipids. None of the octadecenoic acids was isomerized, elongated or desaturated during incubation. From the cis-octadecenoic acids, only the naturally occurring Δ9-isomer (oleic acid) was preferentially incorporated into position 2 of diacylglycerophosphocholines, diacylglycerophospho-ethanolamines, and triacyglycerols; all the other isomers exhibited a strong affinity for position 1 of the glycerophospholipids and positions 1 and 3 of the triacylglycerols. From the trans-octadecenoic acids, only the Δ9-isomer (elaidic acid) was preferentially incorporated into position 2 of diacylglycerophospho-cholines and triacylglycerols; all the other isomers preferred position 1 and positions 1 and 3, respectively, of these lipids. In diacylglycerophospho-ethanolamines, however, each of the trans-octadecenoic acids, including the Δ9-isomer, exhibited a strong affinity for position 1. Apparently, the enzymes involved in the incorporation of exogenous monounsaturated fatty acids into membrane lipids of plant cells can recognize the preferred substrate in a mixture of closely related isomers.

Water binding and phase structures for different Acholeplasma laidlawii membrane lipids studied by deuteron nuclear magnetic resonance and x-ray diffraction

Water binding capability and phase structures for different lipid species extracted from Acholeplasma laidlawii A membranes have been studied using deuteron nuclear magnetic resonance and low-angle X-ray diffraction. The dominating membrane lipids are monoglucosyldiglyceride and diglucosyldiglyceride and each of them takes up limited amounts of water (bound plus trapped), i.e., up to 13% (w/w), whereas the phospholipids and phosphoglycolipids have larger hydration capacities. Addition of magnesium and calcium ions, but not sodium ions, to the diglucosyldiglyceride increases the hydration capability. This increase is accompanied by the formation of a metastable liquid crystalline phase and a hysteresis effect for the transition temperature. Large differences in water deuteron quadrupole splitting were observed between mono- and diglucosyldiglyceride. Both 2H nuclear magnetic resonance and low-angle X-ray diffraction studies on lipids containing biosynthetically incorporated omega-d3-palmitic acid clearly indicate the existence of a reverse hexagonal phase structure for the monoglucosyldiglyceride and lamellar structures for the diglucosyldiglyceride and the other membrane lipids. The low hydration capability of the large diglucosyldiglyceride polar head is discussed in terms of polar head configuration. Both mono- and diglucosyldiglyceride have several physical properties similar to those of phosphatidylethanolamine.

Membrane lipid biosynthesis in Acholeplasma laidlawii b: elongation of medium- and long-chain exogenous fatty acids in growing cells

The chain elongation of a wide variety of exogenous fatty acids and the subsequent incorporation of the chain elongation products into the total membrane lipids of Acholeplasma laidlawii B were systematically studied. Within each chemical class of fatty acids examined, the extent of chain elongation increased with increases in chain length, reached a maximum value, and then declined with further increases in chain length. Depending on chemical structure, exogenous fatty acids containing less than 6 to 9 carbon atoms or more than 15 to 18 carbon atoms were not substrates for the chain elongation system. The substrate specificity of this fatty acid elongation system was strikingly broad, and straight-chain, methyl isobranched, and methyl anteisobranched saturated fatty acids, as well as cis- and trans-monounsaturated, cis-cyclopropane, and cis-polyunsaturated fatty acids, underwent chain elongation in vivo. The extent of chain elongation and the average chain length of the primary elongation products correlated well with the physical properties (melting temperatures) of the exogenous fatty acid substrates. The specificity of fatty acid chain elongation in A. laidlawii B maintained the fluidity and physical state of the membrane lipids within a rather wide but definitely limited range. The fatty acid chain elongation system of this organism could be markedly influenced by the presence of a second exogenous fatty acid that was not itself a substrate for the chain elongation system but was incorporated directly into the membrane lipids. The presence of a relatively low-melting exogenous fatty acid increased both the extent of chain elongation and the average chain length of the elongation products generated, whereas the presence of a relatively high-melting fatty acid had the opposite effect. The extent of chain elongation and nature of the elongation products formed were not, however, dependent on the fluidity and physical state of the membrane lipids per se. The second exogenous fatty acid appeared instead to exert its characteristic effect by competing with the chain elongation substrate and elongation products for the stereospecific acylation of positions 1 and 2 of sn-glycerol-3-phosphate. The similar effects of alterations in environmental temperature, cholesterol content, and exposure to the antibiotic cerulenin on the fatty acid chain elongation and de novo biosynthetic activities suggested that the chain elongation system of this organism may be a component of the de novo biosynthetic system.

Membrane lipid biosynthesis in Acholeplasma laidlawii B: incorporation of exogenous fatty acids into membrane glyco- and phospholipids by growing cells

The extent of incorporation of a wide variety of exogenous saturated, unsaturated, branched-chain, and cyclopropane fatty acids into the membrane lipids of Acholeplasma laidlawii B was systematically studied. Within each fatty acid class the extent of incorporation generally increased markedly with increasing chain length, reached a maximum, and then declined progressively but less sharply with further increases above that chain length giving maximal direct incorporation. Certain shorter-chain members of each fatty acid class underwent complete or partial conversion to longer-chain homologues before utilization for complex lipid biosynthesis. The degree and extent of chain elongation and direct incorporation and the characteristic dependence of each of these processes on fatty acid chain length and structure correlated well with the physical properties (melting temperatures) of the exogenous fatty acids. The in vivo specificity of the enzyme systems responsible for the incorporation of exogenous fatty acids was such that the fluidity and physical state of the membrane lipids were maintained within a definite, albeit a relatively wide, range. We also observed that the neutral glycolipids typically have similar fatty acid compositions, which are somewhat different from those of the major phosphatides, which also exhibit similar fatty acid spectra. The phosphorylated glycolipid glycerophosphoryldiglucosyl diglyceride, however, always maintained a unique fatty acid composition quite different from that of the diglucosyl diglyceride from which it is presumably derived. These characteristic differences in fatty acid composition appear to function to minimize differences in phase transition temperatures, thus producing a more physicochemically homogeneous mixture of membrane lipids than would result from a nonspecific incorporation of fatty acids.