New lv Mutants of Pea Are Deficient in Phytochrome B

The lv-1 mutant of pea (Pisum sativum L.) is deficient in responses regulated by phytochrome B (phyB) in other species but has normal levels of spectrally active phyB. We have characterized three further lv mutants (lv-2, lv-3, and lv-4), which are all elongated under red (R) and white light but are indistinguishable from wild type under far-red light. The phyB apoprotein present in the lv-1 mutant was undetectable in all three new lv mutants. The identification of allelic mutants with and without phyB apoprotein suggests that Lv may be a structural gene for a B-type phytochrome. Furthermore, it indicates that the lv-1 mutation results specifically in the loss of normal biological activity of this phytochrome. Red-light-pulse and fluence-rate-response experiments suggest that lv plants are deficient in the low-fluence response (LFR) but retain a normal very-low-fluence-rate-dependent response for leaflet expansion and inhibition of stem elongation. Comparison of lv alleles of differing severity indicates that the LFR for stem elongation can be mediated by a lower level of phyB than the LFR for leaflet expansion. The retention of a strong response to continuous low-fluence-rate R in all four lv mutants suggests that there may be an additional phytochrome controlling responses to R in pea. The kinetics of phytochrome destruction and reaccumulation in the lv mutant indicate that phyB may be involved in the light regulation of phyA levels.     

Sister Chromatids Are Preferred over Homologs as Substrates for Recombinational Repair in Saccharomyces Cerevisiae

A diploid Saccharomyces cerevisiae strain was constructed in which the products of both homolog recombination and unequal sister chromatid recombination events could be selected. This strain was synchronized in G1 or in G2, irradiated with X-rays to induce DNA damage, and monitored for levels of recombination. Cells irradiated in G1 were found to repair recombinogenic damage primarily by homolog recombination, whereas those irradiated in G2 repaired such damage preferentially by sister chromatid recombination. We found, as have others, that G1 diploids were much more sensitive to the lethal effects of X-ray damage than were G2 diploids, especially at higher doses of irradiation. The following possible explanations for this observation were tested: G2 cells have more potential templates for repair than G1 cells; G2 cells are protected by the RAD9-mediated delay in G2 following DNA damage; sister chromatids may share more homology than homologous chromosomes. All these possibilities were ruled out by appropriate tests. We propose that, due to a special relationship they share, sister chromatids are not only preferred over homologous chromatids as substrates for recombinational repair, but have the capacity to repair more DNA damage than do homologs.     

Isolation and Initial Characterization of Arabidopsis Mutants That Are Deficient in Phytochrome A

Phytochrome, a red/far-red-light photoreceptor protein of plants, is encoded by a small gene family. Phytochrome A (PHYA), the product of the PHYA gene, is the predominant molecular species of phytochrome in etiolated tissue and has been best characterized biochemically. To define a role for PHYA, we isolated new mutants, designated fre1 (far-red elongated), in Arabidopsis thaliana that were specifically deficient in PHYA spectral activity and protein accumulation. These mutants were identified on the basis of their long hypocotyl phenotype under continuous far-red light. Although the fre1 mutants lacked the hypocotyl response to continuous far-red light, their responses to continuous white light and to end-of-day far-red-light treatments were normal. Thus, PHYA appears to play only a minor role in the regulation of hypocotyl elongation under natural conditions. In contrast, the fre1 mutation affected greening a fre1 mutant was less able than the wild type to deetiolate after growth in the dark. However, the potentiation effect of a red-light pulse on accumulation of chlorophyll was not changed significantly in the fre1 mutants. Thus, the function of PHYA might be highly specialized and restricted to certain phases of Arabidopsis development.     

Vanadate-Resistant Mutants of Neurospora crassa Are Deficient in a High-Affinity Phosphate Transport System

Mutant strains of Neurospora crassa have been selected which grow on media containing vanadate, an inhibitor of the plasma membrane ATPase. The mutations all map to a single region (designated van) on the left arm of linkage group VII. The van mutants are unable to take up vanadate from the medium and are also deficient in the uptake of phosphate via a derepressible, high-affinity phosphate transport system. In the van mutants, the K(m) for phosphate transport is elevated as much as 35-fold, indicating that the van locus may code for a structural component of the high-affinity phosphate transport system.     

Thymidine 5′-Monophosphate-Requiring Mutants of Saccharomyces cerevisiae Are Deficient in Thymidylate Synthetase

Thymidylate synthetase activity was measured in crude extracts of the yeast Saccharomyces cerevisiae by a sensitive radiochemical assay. Spontaneous non-conditional mutants auxotrophic for thymidine 5'-monophosphate (tmp1) lacked detectable thymidylate synthetase activity in cell-free extracts. In contrast, the parent strains (tup1, -2, or -4), which were permeable to thymidine 5'-monophosphate, contained levels of activity similar to those found in wild-type cells. Specific activity of thymidylate synthetase in crude extracts of normal cells or of cells carrying tup mutations was essentially unaffected by the ploidy or mating type of the cells, by the medium used for growth, by the respiratory capacity of the cells, by concentrations of exogenous thymidine 5'-monophosphate as high as 50 mug/ml, or by subsequent removal of thymidine 5'-monophosphate from the medium. Extracts of a strain bearing the temperature-sensitive cell division cycle mutation cdc21 lacked detectable thymidylate synthetase activity under all conditions tested. Its parent and another mutant (cdc8), which arrests with the same terminal phenotype under restrictive conditions, had normal levels of the enzyme. Cells of a temperature-sensitive thymidine 5'-monophosphate auxotroph arrested with a morphology identical to the cdc21 strain at the nonpermissive temperature and contained demonstrably thermolabile thymidylate synthetase activity. Tetrad analysis and the properties of revertants showed that the thymidylate synthetase defects were a consequence of the same mutation causing, in the auxotrophs, a requirement for thymidine 5'-monophosphate and, in the conditional mutants, temperature sensitivity. Complementation tests indicated that tmp1 and cdc21 are the same locus. These results identify tmp1 as the structural gene for yeast thymidylate synthetase.     

Genetic and Biochemical Characterization of Human AP Endonuclease 1 Mutants Deficient in Nucleotide Incision Repair Activity

Background

Human apurinic/apyrimidinic endonuclease 1 (APE1) is a key DNA repair enzyme involved in both base excision repair (BER) and nucleotide incision repair (NIR) pathways. In the BER pathway, APE1 cleaves DNA at AP sites and 3′-blocking moieties generated by DNA glycosylases. In the NIR pathway, APE1 incises DNA 5′ to a number of oxidatively damaged bases. At present, physiological relevance of the NIR pathway is fairly well established in E. coli, but has yet to be elucidated in human cells.

Methodology/Principal Finding

We identified amino acid residues in the APE1 protein that affect its function in either the BER or NIR pathway. Biochemical characterization of APE1 carrying single K98A, R185A, D308A and double K98A/R185A amino acid substitutions revealed that all mutants exhibited greatly reduced NIR and 3′→5′ exonuclease activities, but were capable of performing BER functions to some extent. Expression of the APE1 mutants deficient in the NIR and exonuclease activities reduced the sensitivity of AP endonuclease-deficient E. coli xth nfo strain to an alkylating agent, methylmethanesulfonate, suggesting that our APE1 mutants are able to repair AP sites. Finally, the human NIR pathway was fully reconstituted in vitro using the purified APE1, human flap endonuclease 1, DNA polymerase β and DNA ligase I proteins, thus establishing the minimal set of proteins required for a functional NIR pathway in human cells.

Conclusion/Significance

Taken together, these data further substantiate the role of NIR as a distinct and separable function of APE1 that is essential for processing of potentially lethal oxidative DNA lesions.     

Saccharomyces Cerevisiae Cho2 Mutants Are Deficient in Phospholipid Methylation and Cross-Pathway Regulation of Inositol Synthesis

Five allelic Saccharomyces cerevisiae mutants deficient in the methylation of phosphatidylethanolamine (PE) have been isolated, using two different screening techniques. Biochemical analysis suggested that these mutants define a locus, designated CHO2, that may encode a methyltransferase. Membranes of cho2 mutant cells grown in defined medium contain approximately 10% phosphatidylcholine (PC) and 40-50% PE as compared to wild-type levels of 40-45% PC and 15-20% PE. In spite of this greatly altered phospholipid composition, cho2 mutant cells are viable in defined medium and are not auxotrophic for choline or other phospholipid precursors such as monomethylethanolamine (MME). However, analysis of yeast strains carrying more than one mutation affecting phospholipid biosynthesis indicated that some level of methylated phospholipid is essential for viability. The cho2 locus was shown by tetrad analysis to be unlinked to other loci affecting phospholipid synthesis. Interestingly, cho2 mutants and other mutant strains that produce reduced levels of methylated phospholipids are unable to properly repress synthesis of the cytoplasmic enzyme inositol-1-phosphate synthase. This enzyme was previously shown to be regulated at the level of mRNA abundance in response to inositol and choline in the growth medium. We cloned the CHO2 gene on a 3.6-kb genomic DNA fragment and created a null allele of cho2 by disrupting the CHO2 gene in vivo. The cho2 disruptant, like all other cho2 mutants, is viable, exhibits altered regulation of inositol biosynthesis and is not auxotrophic for choline or MME.     

Homologous Recombinational Repair Factors Are Recruited and Loaded onto the Viral DNA Genome in Epstein-Barr Virus Replication Compartments

Homologous recombination is an important biological process that facilitates genome rearrangement and repair of DNA double-strand breaks (DSBs). The induction of Epstein-Barr virus (EBV) lytic replication induces ataxia telangiectasia-mutated (ATM)-dependent DNA damage checkpoint signaling, leading to the clustering of phosphorylated ATM and Mre11/Rad50/Nbs1 (MRN) complexes to sites of viral genome synthesis in nuclei. Here we report that homologous recombinational repair (HRR) factors such as replication protein A (RPA), Rad51, and Rad52 as well as MRN complexes are recruited and loaded onto the newly synthesized viral genome in replication compartments. The 32-kDa subunit of RPA is extensively phosphorylated at sites in accordance with those with ATM. The hyperphosphorylation of RPA32 causes a change in RPA conformation, resulting in a switch from the catalysis of DNA replication to the participation in DNA repair. The levels of Rad51 and phosphorylated RPA were found to increase with the progression of viral productive replication, while that of Rad52 proved constant. Furthermore, biochemical fractionation revealed increases in levels of DNA-bound forms of these HRRs. Bromodeoxyuridine-labeled chromatin immunoprecipitation and PCR analyses confirmed the loading of RPA, Rad 51, Rad52, and Mre11 onto newly synthesized viral DNA, and terminal deoxynucleotidyltransferase-mediated dUTP nick end labeling analysis demonstrated DSBs in the EBV replication compartments. HRR factors might be recruited to repair DSBs on the viral genome in viral replication compartments. RNA interference knockdown of RPA32 and Rad51 prevented viral DNA synthesis remarkably, suggesting that homologous recombination and/or repair of viral DNA genome might occur, coupled with DNA replication to facilitate viral genome synthesis.Replication protein A (RPA), the eukaryotic single-stranded DNA (ssDNA)-binding protein, is a heterotrimeric complex composed of three tightly associated subunits of 70, 32, and 14 kDa (referred as to RPA70, RPA32, and RPA14, respectively) that is essential for DNA replication, recombination, and all major types of DNA repair (4). RPA participates in such diverse pathways through its ability to interact with DNA and numerous proteins involved in its processing. During DNA replication, RPA associates with ssDNA at forks and facilitates nascent-strand DNA synthesis by replicative DNA polymerases localized at replication foci during S phase. Under DNA-damaging conditions, RPA binds to ssDNA at damaged sites and interacts with repair and recombination components to process double-strand DNA breaks (DSBs) and other lesions (6, 14, 21, 32, 38, 41).RPA undergoes both DNA damage-independent and -dependent phosphorylation on the N-terminal 33 residues of RPA32. Unstressed cell cycle-dependent phosphorylation occurs during the G₁/S-phase transition and in M phase, primarily at the conserved cyclin-CDK phosphorylation sites of Ser-23 and Ser-29 in the N terminus of the RPA32 subunit (13, 15). In contrast, stress-induced hyperphosphorylation of RPA is much more extensive. Nine potential phosphorylation sites within the N-terminal domain of RPA32, Ser-4, Ser-8, Ser-11/Ser-12/Ser-13, Thr-21, Ser-23, Ser-29, and Ser-33, in response to DNA-damaging agents, have been suggested (33, 54). Although this region of RPA32 is not required for the ssDNA-binding activity of RPA (5, 22), a phosphorylation-induced subtle conformation change in RPA, resulting from altered intersubunit interactions, regulates the interaction of RPA with both interacting proteins and DNA (30). The hyperphosphorylated form of RPA32 is unable to localize to replication centers in normal cells, while binding to DNA damage foci is unaffected (46). Therefore, RPA phosphorylation following damage is thought to both prevent RPA from catalyzing DNA replication and potentially serve as a marker to recruit repair factors to sites of DNA damage. RPA localizes to nuclear foci where DNA repair is occurring after DNA damage and is essential for multiple DNA repair pathways, participating in damage recognition, excision, and resynthesis reactions (4, 56).Mammalian cells can repair DSBs by homologous recombination (HR) or by nonhomologous end joining. HR is an accurate repair process, the first step of which is the resection of the 5′ ends of the DSB to generate 3′ ssDNA overhangs. This reaction is carried out by the Mre11/Rad50/Nbs1 (MRN) complex, which not only functions as a damage sensor upstream of ataxia telangiectasia-mutated (ATM)/ATM-Rad3-related (ATR) activation but also plays a role in DSB repair (4). RPA and members of the RAD52 epistasis group of gene products, such as Rad51, Rad52, and Rad54, bind to the resulting 3′ ssDNA strands and form a helical, nucleoprotein filament that facilitates the invasion of a damaged DNA strand into the homologous double-stranded DNA partner. The human Rad51 protein is a structural and functional homolog of the Escherichia coli RecA protein, which promotes homologous pairing and strand transfer reactions in vitro. Both Rad51 and Rad52 bind specifically to the terminal regions of tailed duplex DNA, the substrate thought to initiate recombination in vivo. Furthermore, nucleoprotein filaments of Rad51, formed on tailed DNA, catalyze strand invasion of homologous duplex DNA in a reaction that is stimulated by Rad52 and RPA (3).Epstein-Barr virus (EBV) is a human herpesvirus that infects B lymphocytes, inducing their continuous proliferation. In B-lymphoblastoid cell lines, there is no production of virus particles, which is termed latent infection (52). Reactivation from latency is characterized by the expression of lytic genes, and one of the first detectable changes is the expression of the BZLF1 immediate-early gene product, which trans-activates viral promoters (16), leading to an ordered cascade of viral early and late gene expression. This lytic EBV DNA replication occurs in discrete sites in nuclei, called replication compartments, in which seven viral replication proteins are assembled (44). The viral genome is amplified several hundredfold by the viral replication machinery and is thought to generate highly branched replication intermediates through HR coupled with viral DNA replication (48). With the progression of lytic replication, the replication compartments become larger and appeared to fuse to form large globular structures that eventually filled the nucleus at late stages of infection (8, 45).We previously isolated latently EBV-infected Tet-BZLF1/B95-8 cells in which the exogenous BZLF1 protein is conditionally expressed under the control of a tetracycline-regulated promoter, leading to a highly efficient induction of lytic replication (28). Using this system, we have demonstrated that the induction of the EBV lytic program results in the inhibition of replication of cellular DNA in spite of the replication of viral DNA (28) and elicits a cellular DNA damage response, with the activation of the ATM-Chk2-p53 DNA damage transduction pathway (29). The DNA damage sensor MRN complex and phosphorylated ATM are recruited and retained in viral replication compartments (29).Here we report that RPA32 is extensively phosphorylated after EBV lytic replication is induced, with the phosphorylation sites in accordance with those for ATM. Phosphorylated RPA, Rad51, and Rad52, which are involved in HR repair (HRR), are recruited and retained in viral replication compartments as well as the MRN complex. Furthermore, DSBs could be demonstrated to occur during viral genome synthesis in the EBV replication compartments. HRR factors might be recruited to repair DSBs on the viral genome in viral replication compartments. RNA interference (RNAi) knockdown of RPA32 and Rad51 prevented viral DNA synthesis remarkably, suggesting that HR and/or repair of viral DNA genome might occur, coupled with DNA replication, to facilitate viral genome synthesis.     

Functional Characterization of Excision Repair and RecA-Dependent Recombinational DNA Repair in Campylobacter jejuni

The presence and functionality of DNA repair mechanisms in Campylobacter jejuni are largely unknown. In silico analysis of the complete translated genome of C. jejuni NCTC 11168 suggests the presence of genes involved in methyl-directed mismatch repair (MMR), nucleotide excision repair, base excision repair (BER), and recombinational repair. To assess the functionality of these putative repair mechanisms in C. jejuni, mutS, uvrB, ung, and recA knockout mutants were constructed and analyzed for their ability to repair spontaneous point mutations, UV irradiation-induced DNA damage, and nicked DNA. Inactivation of the different putative DNA repair genes did not alter the spontaneous mutation frequency. Disruption of the UvrB and RecA orthologues, but not the putative MutS or Ung proteins, resulted in a significant reduction in viability after exposure to UV irradiation. Assays performed with uracil-containing plasmid DNA showed that the putative uracil-DNA glycosylase (Ung) protein, important for initiation of the BER pathway, is also functional in C. jejuni. Inactivation of recA also resulted in a loss of natural transformation. Overall, the data indicate that C. jejuni has multiple functional DNA repair systems that may protect against DNA damage and limit the generation of genetic diversity. On the other hand, the apparent absence of a functional MMR pathway may enhance the frequency of on-and-off switching of phase variable genes typical for C. jejuni and may contribute to the genetic heterogeneity of the C. jejuni population.The gram-negative, microaerophilic bacterium Campylobacter jejuni is one of the most frequent causes of human bacterial gastroenteritis worldwide (7). Infections with C. jejuni are also associated with the development of a paralyzing neuropathy, the Guillain-Barré syndrome (64). C. jejuni can be isolated from various sources, including the chicken intestine and surface water (38). At the population level, C. jejuni is genetically highly diverse (11, 60, 62), which may facilitate bacterial environmental adaptation. Genetic diversity in C. jejuni is generated via horizontal gene transfer (9, 10, 51), intragenomic rearrangements (9), and the presence of numerous stretches of nucleotide repeats that are prone to mispairing during DNA replication (26, 41, 42, 46). In addition, the genomic DNA is probably subject to various types of damage caused by a range of endogenous and environmental factors which may cause single- or double-strand breaks, nucleotide modifications, abasic sites, bulky adducts, and mismatches (14). Virtually all bacteria have evolved more or less sophisticated DNA repair mechanisms to limit the detrimental effects of DNA damage and to maintain the structure and genetic integrity of their DNA (16). The importance of DNA repair for the survival and genetic diversity of C. jejuni, however, is still largely unknown.Bacterial DNA repair mechanisms can be divided into three classes, namely, direct repair, excision repair, and recombinational repair (14). Direct repair involves the reversal of the mutagenic event without the need for synthesis of a new phosphodiester bond. During excision repair, DNA abnormalities are removed and repaired using the intact strand as a template. Recombinational repair involves the reversal of DNA abnormalities via homologous recombination. In contrast to direct repair, DNA repair by excision and recombination does require synthesis of new phosphodiester bonds (56). The focus of the current work is on the presence of the latter two repair mechanisms in C. jejuni.Most knowledge of excision and recombinational DNA repair processes comes from studies of Escherichia coli. In E. coli, methyl-directed mismatch repair (MMR) is operating at the level of excision repair. MMR repairs replication errors that arise from misincorporations (mismatches) and strand slippage (frameshift errors). In addition, MMR inhibits recombination between homologous sequences (47). During MMR, MutS recognizes and binds to replication errors and, together with MutL, activates MutH. This protein cleaves the unmethylated daughter strand at hemimethylated GATC sequences. Part of the daughter strand with the mutation is excised by single-strand nucleases, and the gap is repaired (25, 37). A second excision repair mechanism of E. coli is nucleotide excision repair (NER). NER detects and repairs conformational changes present in DNA. Major components of the NER pathway are the UvrABC proteins. The UvrA and UvrB proteins form the damage recognition complex. After binding to the DNA, UvrB forms a stable complex with the damaged DNA (UvrB-DNA) and UvrA dissociates. UvrC binds to the UvrB-DNA complex, and incisions are made, thereby excising the damaged DNA as a 12- or 13-nucleotide-long oligomer. The resulting gap is repaired using the undamaged strand as a template (55). The third excision repair mechanism of E. coli is base excision repair (BER). This system detects and repairs modified bases. Different glycosylases, such as the uracil-DNA glycosylase Ung, are involved in the recognition of specific DNA alterations. These enzymes remove damaged bases from the DNA by cleavage of N-glycosylic bonds, leaving an apurinic or apyrimidinic site (AP site). An AP endonuclease (XthA) is necessary for cleavage of the phosphodiester bond, and the remaining deoxyribose phosphate moiety is removed by a deoxyribose phosphodiesterase (RecJ) after which the gap in the DNA is repaired (49). The recombinational repair mechanism of E. coli is involved in the repair of stalled or collapsed replication forks caused by conformational changes resulting from unrepaired mutations (8). When nicks or other lesions are present in the DNA, E. coli RecA binds to the damaged DNA and catalyzes recombinational repair via double-strand break repair or daughter strand gap repair (35).The subset and specificity of DNA repair mechanisms differ between species (1). The goal of this study was to decipher the presence and functionality of three excision repair mechanisms (MMR, NER, and BER) and RecA-dependent recombinational repair in C. jejuni. Using a set of genetically defined mutants, we present evidence that recombinational repair and the NER system, but not the MMR pathway, are functional in C. jejuni. In addition, proof was obtained that C. jejuni has a functional Ung protein involved in the BER pathway.     

Sinorhizobium meliloti Mutants Deficient in Phosphatidylserine Decarboxylase Accumulate Phosphatidylserine and Are Strongly Affected during Symbiosis with Alfalfa

Sinorhizobium meliloti contains phosphatidylglycerol, cardiolipin, phosphatidylcholine, and phosphatidylethanolamine (PE) as major membrane lipids. PE is formed in two steps. In the first step, phosphatidylserine synthase (Pss) condenses serine with CDP-diglyceride to form phosphatidylserine (PS), and in the second step, PS is decarboxylated by phosphatidylserine decarboxylase (Psd) to form PE. In this study we identified the sinorhizobial psd gene coding for Psd. A sinorhizobial mutant deficient in psd is unable to form PE but accumulates the anionic phospholipid PS. Properties of PE-deficient mutants lacking either Pss or Psd were compared with those of the S. meliloti wild type. Whereas both PE-deficient mutants grew in a wild-type-like manner on many complex media, they were unable to grow on minimal medium containing high phosphate concentrations. Surprisingly, the psd-deficient mutant could grow on minimal medium containing low concentrations of inorganic phosphate, while the pss-deficient mutant could not. Addition of choline to the minimal medium rescued growth of the pss-deficient mutant, CS111, to some extent but inhibited growth of the psd-deficient mutant, MAV01. When the two distinct PE-deficient mutants were analyzed for their ability to form a nitrogen-fixing root nodule symbiosis with their alfalfa host plant, they behaved strikingly differently. The Pss-deficient mutant, CS111, initiated nodule formation at about the same time point as the wild type but did form about 30% fewer nodules than the wild type. In contrast, the PS-accumulating mutant, MAV01, initiated nodule formation much later than the wild type and formed 90% fewer nodules than the wild type. The few nodules formed by MAV01 seemed to be almost devoid of bacteria and were unable to fix nitrogen. Leaves of alfalfa plants inoculated with the mutant MAV01 were yellowish, indicating that the plants were starved for nitrogen. Therefore, changes in lipid composition, including the accumulation of bacterial PS, prevent the establishment of a nitrogen-fixing root nodule symbiosis.Rhizobia are soil bacteria able to form a symbiosis with legume plants, which leads to the formation of nitrogen-fixing root nodules. The establishment and functioning of this symbiosis are based on the recognition of signal molecules, which are produced by both the bacterial and plant partners. Known recognition factors of the bacterial endosymbiont include nodulation (Nod) factors, extracellular polysaccharides, lipopolysaccharides, K antigens, and cyclic glucans (24, 53). These factors are required for nodule formation, the infection process, and the colonization of the root nodule. Recently it was demonstrated that adequate levels of phosphatidylcholine (PC) are also required in order to allow the formation of a fully functional symbiosis between Bradyrhizobium japonicum and its soybean host plant (35). Under conditions of phosphate limitation, Sinorhizobium meliloti replaces the majority of its phospholipids with phosphorus-free membrane lipids, such as sulfolipids, ornithine-containing lipids, and diacylglyceryl-N,N,N-trimethylhomoserine lipids (20). Rhizobial mutants lacking the ability to form any one of these phosphorus-free membrane lipids or all three lipids at the same time form effective nitrogen-fixing root nodules (30, 31), demonstrating that not all major bacterial membrane lipids are required for the onset of a successful symbiosis.Escherichia coli is the prokaryote with the best-studied membrane lipid biosynthesis. In E. coli, three major membrane phospholipids, phosphatidylethanolamine (PE), phosphatidylglycerol (PG), and cardiolipin (CL), are present. Certain functions have been defined for specific membrane phospholipids in E. coli. Anionic phospholipids (PG and CL) were shown to be involved in the initiation of DNA replication (60) and in the translocation of outer membrane precursor proteins (27). The zwitterionic PE is essential for a proper functioning of the electron transfer chain (34), for the assembly and functionality of lactose permease (4, 5), and for motility and chemotaxis (47). Certain specific functions have also been shown for other membrane lipids. Recently PC has been shown to be required for pathogenesis of Legionella pneumophila, Brucella abortus, and Agrobacterium tumefaciens on their hosts (7, 8, 9, 59). The cationic membrane lipid lysyl-phosphatidylglycerol is involved in conferring resistance to cationic antimicrobial peptides of the host''s innate immune system to Staphylococcus aureus (40), and the presence of LPG in Rhizobium tropici also increases resistance to the cationic peptide polymyxin B (52).In the initial step of the pathway leading to PE formation, phosphatidylserine (PS) synthase (Pss) is responsible for the formation of PS from CDP-diacylglycerol and serine (EC 2.7.8.8) (Fig. ​(Fig.1).1). In the subsequent step, PS is decarboxylated by PS decarboxylase (Psd) (EC 4.1.1.65) to yield PE (17, 58). In S. meliloti, PE is a substrate for the enzyme phospholipid N-methyltransferase (PmtA) (15), leading to the formation of PC. A gene coding for the Pss enzyme (pssA) has been found and cloned from prokaryotes (11, 19, 38, 51), lower eukaryotes, such as Saccharomyces cerevisiae (28, 37), and plants (12). In a previous work we described the construction and characterization of an S. meliloti mutant deficient in Pss (51).Open in a separate windowFIG. 1.Biosynthesis of phospholipids in Sinorhizobium meliloti. SAM, S-adenosylmethionine; SAHC, S-adenosylhomocysteine; PgsA, phosphatidylglycerolphosphate synthase; Pgp, phosphatidylglycerolphosphate phosphatase; Cls, cardiolipin synthase; Pss, phosphatidylserine synthase; Psd, phosphatidylserine decarboxylase; PmtA, phospholipid N-methyltransferase; Pcs, phosphatidylcholine synthase.Psds have been described and characterized for a wide range of organisms, including bacteria, such as E. coli (22, 23, 29) and Bacillus subtilis (32), lower eukaryotes, such as S. cerevisiae (6, 54-56) and Plasmodium falciparum (1), plants, such as Arabidopsis thaliana (36, 41), and mammals (CHO [Chinese hamster ovary] cells) (26). All Psd sequences identified so far seem to be phylogenically related (see Fig. S1A in the supplemental material). Interestingly, S. meliloti lacks a good homologue to any of the above-mentioned Psds.Here we describe the identification and characterization of the sinorhizobial psd gene coding for Psd. The mutant MAV01, in which the sinorhizobial psd gene is deleted, accumulated PS to about 20% of total lipids when grown in complex growth medium. We compared the mutant MAV01 to a sinorhizobial mutant deficient in Pss (CS111) (51) under free-living conditions and during symbiosis. The Pss-deficient mutant, CS111, forms about 30% fewer nodules than the wild type on its alfalfa host plant, whereas the PS-accumulating mutant, MAV01, forms 90% fewer nodules than the wild type. Nodule formation in the mutant MAV01 sets in about 20 days later than that in the wild type. The few nodules formed by the psd-deficient mutant seem to be almost devoid of bacteria and are not able to fix nitrogen. Leaves of alfalfa plants inoculated with the mutant MAV01 are yellowish, indicating that the plants are starved for nitrogen. The accumulation of PS, therefore, although allowing wild-type-like growth in different growth media, strongly interferes with nodule development.     

Genetic and Biochemical Studies on Mannose-Negative Mutants That Are Deficient in Phosphomannose Isomerase in Escherichia coli K-12

Two mannose-negative mutants of Escherichia coli K-12 have been isolated. These mutants are deficient in the ability to synthesize phosphomannose isomerase and capsular polysaccharide when grown on glucose-containing media. Interrupted mating experiments to determine the kinetics of genetic transfer show that the two mannose-negative mutations map together between the histidine and tryptophan regions of the E. coli chromosome.     

Dynamic Processing of Displacement Loops during Recombinational DNA Repair

1. Download high-res image (126KB)
2. Download full-size image

     

Sporulation and Antibiotic Production by Bacillus subtilis Mutants Deficient in Intracellular Proteases

Erythropoietin (Ep) was isolated from the urine of patients with aplastic anemia [Yanagawa et al., J. Biol. Chem., 259, 2707 (1984)] and burst-promoting activity (BPA) was extensively purified from the residue obtained after removal of Ep. These erythropoietic factors were studied for their effcects on erythroid burst-colony formation of human peripheral blood mononuclear cells in methylcellulose cultures. Reddish bursts were formed with the addition of Ep alone. Addition of BPA not only elevated the number of bursts but also greatly reduced the amount of Ep required for burst formation. The presence of BPA alone in cultures did not permit bursts to form but did permit the growth of small colonies that did not contain hemoglobin (Hb). Addition of Ep to these small colonies led to the formation of erythroid bursts. Administration of Ep to the cultures could be delayed for 6 days without decreasing the number of bursts if the cultures were initiated in the presence of BPA; in the absence of BPA, the erythroid precursors (BUF-E) were rapidly lost if Ep was not provided at the start of the cultures. BPA produced larger bursts than those formed in the presence of Ep alone. Microassays of Hb in the bursts indicated that BPA increased the amonut of Hb per burst. This increase could not be entirely explained by the augumentation in cell number per burst but was partly ascribable to the increased amount of Hb per cell.     

Nalidixic Acid-Resistant Mutants of Escherichia coli Deficient in Isocitrate Dehydrogenase

icd Mutants of Escherichia coli K-12, selected for their resistance to nalidixic acid, are deficient in isocitrate dehydrogenase.     

Recombinational Repair in Schizosaccharomyces pombe: A Role in Maintaining Genome Integrity

Recombinational DNA repair was first detected in budding yeast Saccharomyces cerevisiaeand was also studied in fission yeast Schizosaccharomyces pombeover the recent decade. The discovery of Sch. pombehomologs of the S. cerevisiae RAD52genes made it possible not only to identify and to clone their vertebrate counterparts, but also to study in detail the role of DNA recombination in certain cell processes. For instance, recombinational repair was shown to play a greater role in maintaining genome integrity in fission yeast and in vertebrates compared with S. cerevisiae. The present state of the problem of recombinational double-strand break repair in fission yeast is considered in this review with a focus on comparisons between Sch. pombeand higher eukaryotes. The role of double-strand break repair in maintaining genome stability is discussed.