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Chloroplasts in Living Cells and the String-of-Grana Concept of Chloroplast Structure Revisited.

In 1980, Wildman et al. (Bot Gaz 141: 24-36) proposed a three-dimensional model for chloroplast structure whereby the grana were arranged in non-overlapping rows, like beads on a string. This string-of-grana model was developed from phase microscope analysis of living cells and partially disrupted, isolated chloroplasts. However, models based on analyses by various electron microscope (EM) techniques (which inevitably encompass a relatively small fraction of the whole chloroplast) indicated that grana are interconnected in all directions by intergranal lamellae and not just along a single 'string.' Hence the string-of-grana model was not widely accepted. Recently, confocal laser scanning microscopy (CLSM) of both living and fixed cells, which gives views of the three-dimensional disposition of grana by imaging Photosystem II fluorescence over much larger sample volumes, that is, the entire chloroplast, has revealed that, although many grana are apparently not in any discernible arrangement, some are indeed present in strings of varying lengths in a range of taxa. The topic therefore warrants revisiting, using techniques, for example, such as EM tomography to assess the degree of variation in the geometry of intergranal connections in whole chloroplasts, and its possible functional consequences and developmental origins.

Journal Article↗

Ion Homeostasis in Chloroplasts under Salinity and Mineral Deficiency: II. Solute Distribution between Chloroplasts and Extrachloroplastic Space under Excess or Deficiency of Sulfate, Phosphate, or Magnesium.

Spinach (Spinacia oleracea var "Yates") plants grown hydroponically were exposed to an excess or deficiency of various mineral ions. Solutes were measured in leaf extracts and in isolated intact chloroplasts. Under phosphate (120 millimoles per liter NaH(2) PO(4)), sulfate (200 millimolar per liter (Na(2) SO(4)), or magnesium excess (150 millimolar per liter MgCl(2)), concentrations of these ions in leaf extracts increased, but in chloroplasts, concentrations of all ions remained constant. Concentrations of quarternary ammonium compounds in chloroplasts increased. Under mild phosphate or magnesium deficiency, concentrations of these ions decreased in chloroplasts less than in whole leaf extracts. Under severe sulfate deficiency causing chlorosis in younger leaves, sulfate concentrations in chloroplasts remained even unchanged, despite a drastic decrease of sulfate concentrations both in green and in chlorotic leaves. Together with results from a companion study (G Schröppel-Meier, WM Kaiser 1988 Plant Physiol 87: 822-827) our data demonstrate that leaf cells are able to keep the concentrations of several mineral ions rather constant in metabolically active compartments even at extremely large variations of ion concentrations in the culture solution and in the leaves.

Journal Article↗

A SecY homologue is required for the elaboration of the chloroplast thylakoid membrane and for normal chloroplast gene expression.

Results of in vitro and genetic studies have provided evidence for four pathways by which proteins are targeted to the chloroplast thylakoid membrane. Although these pathways are initially engaged by distinct substrates and involve some distinct components, an unresolved issue has been whether multiple pathways converge on a common translocation pore in the membrane. A homologue of eubacterial SecY called cpSecY is localized to the thylakoid membrane. Since SecY is a component of a protein-translocating pore in bacteria, cpSecY likely plays an analogous role. To explore the role of cpSecY, we obtained maize mutants with transposon insertions in the corresponding gene. Null cpSecY mutants exhibit a severe loss of thylakoid membrane, differing in this regard from mutants lacking cpSecA. Therefore, cpSecY function is not limited to a translocation step downstream of cpSecA. The phenotype of cpSecY mutants is also much more pleiotropic than that of double mutants in which both the cpSecA- and DeltapH-dependent thylakoid-targeting pathways are disrupted. Therefore, cpSecY function is likely to extend beyond any role it might play in these targeting pathways. CpSecY mutants also exhibit a defect in chloroplast translation, revealing a link between chloroplast membrane biogenesis and chloroplast gene expression.

Amino Acid Sequence↗

Primary structure of spinach-chloroplast thioredoxin f. Protein sequencing and analysis of complete cDNA clones for spinach-chloroplast thioredoxin f.

The primary structure of thioredoxin f from spinach chloroplasts was determined by standard amino acid sequencing and furthermore by sequencing the corresponding nuclear genome region. The protein, with a calculated molecular mass of 12,564 Da and a molar absorption coefficient at 280 nm of 17,700 M-1 cm-1, consists of 113 residues and exhibits 24% residue identities with spinach chloroplast thioredoxin mb or Escherichia coli thioredoxin. A monospecific antibody elicited against thioredoxin f has been used to select recombinant phage from spinach cDNA libraries in lambda gt11. The inserts of positive clones were sequenced. They code for a polypeptide of 190 amino acids, composed of the thioredoxin f sequence (113 residues) and an upstream element (77 residues) which most probably constitutes the N-terminal transit peptide that directs the polypeptide into chloroplasts. In vitro transcription and translation of this construct generates a polypeptide of approximately 21 kDa, which is imported by isolated spinach chloroplasts and processed to the mature 12.5-kDa protein.

Amino Acid Sequence↗

Mutational analysis of the maize chloroplast ATPase-beta subunit gene promoter: the isolation of promoter mutants in E. coli and their characterization in a chloroplast in vitro transcription system.

This paper describes the use of Escherichia coli to isolate Bal31 deletion mutants and single-base substitution mutants that functionally define the promoter of the maize chloroplast beta-ATPase gene (atpB). Promoter function in E. coli and in a chloroplast in vitro transcription system was determined by S1 nuclease protection experiments using RNA products from each mutant. The results show that in vitro the chloroplast RNA polymerase responds to the promoter point mutations in a quantitatively similar fashion to the E. coli RNA polymerase. Deletion analysis demonstrates that sequences 5' of the -35 region are not necessary for chloroplast promoter function in vitro and that the presence of an adjacent promoter drastically decreases the transcriptional activity of the atpB promoter in E. coli.

Adenosine Triphosphatases↗

Light-dependent changes in psbD and psbC transcripts of barley chloroplasts: accumulation of two transcripts maintains psbD and psbC translation capability in mature chloroplasts.

The psbD and psbC genes encode two polypeptides of Photosystem II. These genes are adjacent in the barley chloroplast genome and are part of a 5.7 kbp transcription unit. In dark-grown barley, four large transcripts hybridize to psbD and psbC; two additional transcripts hybridize to psbC. Illumination of 4.5-day-old dark-grown seedlings causes a decrease in the six psbD--psbC transcripts found in etioplasts and the accumulation of two different transcripts of 4.0 and 3.2 kb which hybridize to psbD and psbC. The light-induced transcripts have a common 5' end approximately 600 nt upstream of psbD and 3' ends 1175 and 175 nt downstream of psbC. The shift in psbD--psbC transcript population occurs during a phase of chloroplast maturation when transcript levels and translation of chloroplast genes such as psaA--psaB and psbB decline approximately 3- to 5-fold. In contrast, translation of the psbD and psbC gene products declines to a lesser extent, suggesting that the light-induced accumulation of the 4.0 and 3.2 kb psbD--psbC transcripts is required to maintain psbD and psbC gene product translation in mature chloroplasts.

Chlorophyll↗

Nuclear and chloroplast mutations affect the synthesis or stability of the chloroplast psbC gene product in Chlamydomonas reinhardtii.

The psbC gene of Chlamydomonas reinhardtii encodes P6, the 43 kd photosystem II core polypeptide. The sequence of P6 is highly homologous to the corresponding protein in higher plants with the exception of the N-terminal region where the first 12 amino acids are missing. Translation of P6 is initiated at GUG in C. reinhardtii. The chloroplast mutant MA16 produces a highly unstable P6 protein. The mutation in this strain maps near the middle of the psbC gene and consists of a 6 bp duplication that creates a Ser-Leu repeat at the end of one transmembrane domain. Two nuclear mutants, F34 and F64, and one chloroplast mutant, FuD34, are unable to synthesize P6. All of these mutants accumulate wild-type levels of psbC mRNA. The FuD34 mutation has been localized near the middle of the 550 bp 5' untranslated region of psbC where the RNA can be folded into a stem-loop structure. A chloroplast suppressor of F34 has been isolated that partially restores synthesis of the 43 kd protein. The mutation of this suppressor is near that of FuD34, in the same stem-loop region. These chloroplast mutations appear to define the target site of a nuclear factor that is involved in P6 translation.

Amino Acid Sequence↗

Chloroplast and cytosolic triosephosphate isomerases from spinach: purification, microsequencing and cDNA cloning of the chloroplast enzyme.

Chloroplast and cytosolic triosephosphate isomerases from spinach were separated and purified to homogeneity. Both enzymes were partially sequenced by Edman degradation. Using degenerate primers designed against the amino acid sequences, a homologous probe for the chloroplast enzyme was amplified and used to isolate several full-size cDNA clones. Chloroplast triosephosphate isomerase is encoded by a single gene in spinach. Analysis of the chloroplast cDNA sequence in the context of its homologues from eukaryotes and eubacteria reveals that the gene arose through duplication of its preexisting nuclear counterpart for the cytosolic enzyme during plant evolution.

Amino Acid Sequence↗

A new gene encoding tRNA(Pro) (GGG) is present in the chloroplast genome of black pine: a compilation of 32 tRNA genes from black pine chloroplasts.

The chloroplast genome of black pine (Pinus thunbergii), a gymnosperm, contains 32 different tRNA genes, 30 of which correspond to those previously identified in tobacco and rice chloroplast genomes. Two additional genes encode tRNA(Pro) (GGG) and tRNA(Arg) (CCG); the former is newly identified while the latter is present in liverwort, Physcomitrella patens and Angiopteris lygodiifolia, chloroplast genomes. Moreover, a partial copy of the split tRNA(Gly) (UCC) gene and full copies of tRNA(His) (GUG), tRNA(Thr) (GGU) and tRNA(Ser) (GCU) genes are present in the large single-copy region of the genome, suggesting extensive rearrangements of the chloroplast genome during evolution. No tRNA genes whose tRNA products can recognize codons CUU/C (Leu) and GCU/C (Ala) have been found. We propose that the 32 tRNAs are sufficient to read all the 61 sense codons in the black pine system using the "two-out-of-three" and the "U:N wobble" mechanisms.

Base Sequence↗

Chloroplast quest: a journey from the cytosol into the chloroplast and beyond.

Chloroplasts are characteristic organelles of plants and algae and the site of oxygenic photosynthesis. They are surrounded by a double membrane and possess an internal membrane system, the thylakoids, on which the photosynthetic machinery is located. They originated more than 1.2 billion years ago from an endosymbiotic event between an already photosynthetic ancestor of present day cyanobacteria and a mitochondriate host cell. During the transformation of the internalized cyanobacterium into a cell organelle most of the genetic information of the endosymbiot got lost or was transferred into the nucleus of the host. Chloroplast proteins encoded by nuclear genes are synthesized on cytoplasmic ribosomes and have to be relocated into the organelle. This is achieved by a proteinaceous import machinery in the outer and inner envelope of the chloroplasts. Proteins destined for the thylakoid membrane and the thylakoid lumen are further translocated by several different pathways into or across this membrane. The subject of this review is the quest of nuclear encoded chloroplast proteins into the organelle and to their final suborganellar location.

Arabidopsis↗

RNA editing sites in tobacco chloroplast transcripts: editing as a possible regulator of chloroplast RNA polymerase activity.

Genetic information in chloroplast DNA is sometimes altered at the transcript level by a process known as RNA editing. Sequence analysis of amplified cDNAs for 69 potential editing sites revealed 13 real editing sites in transcripts of 11 tobacco chloroplast genes. Together with those reported previously, these bring the total of edited sites observed in tobacco chloroplast transcripts to 31 (all involve C to U conversion). Alignment of sequences around the 31 editing sites revealed no obvious consensus, apart from an apparent bias for U or C at position -1 and A at position +2. Editing in tobacco rpoA mRNA restores the conserved leucine residue which is known to be important for transcriptional activation of the alpha subunit of E. coli RNA polymerase. Editing of this site is partial and the extent of editing depends on developmental conditions, suggesting that editing is, at least in part, involved in the regulation of chloroplast-encoded RNA polymerase activity.

Amino Acid Sequence↗

NADK2, an Arabidopsis chloroplastic NAD kinase, plays a vital role in both chlorophyll synthesis and chloroplast protection.

As one of terminal electron acceptors in photosynthetic electron transport chain, NADP receives electron and H(+) to synthesize NADPH, an important reducing energy in chlorophyll synthesis and Calvin cycle. NAD kinase (NADK), the catalyzing enzyme for the de novo synthesis of NADP from substrates NAD and ATP, may play an important role in the synthesis of NADPH. NADK activity has been observed in different sub-cellular fractions of mitochondria, chloroplast, and cytoplasm. Recently, two distinct NADK isoforms (NADK1 and NADK2) have been identified in Arabidopsis. However, the physiological roles of NADKs remain unclear. In present study, we investigated the physiological role of Arabidiposis NADK2. Sub-cellular localization of the NADK2-GFP fusion protein indicated that the NADK2 protein was localized in the chloroplast. The NADK2 knock out mutant (nadk2) showed obvious growth inhibition and smaller rosette leaves with a pale yellow color. Parallel to the reduced chlorophyll content, the expression levels of two POR genes, encoding key enzymes in chlorophyll synthesis, were down regulated in the nadk2 plants. The nadk2 plants also displayed hypersensitivity to environmental stresses provoking oxidative stress, such as UVB, drought, heat shock and salinity. These results suggest that NADK2 may be a chloroplast NAD kinase and play a vital role in chlorophyll synthesis and chloroplast protection against oxidative damage.

Amino Acid Sequence↗

Chloroplast culture: the chlorophyll repair potential of mature chloroplasts incubated in a simple medium.

The chlorophyll repair potential of mature Cucumis chloroplasts incubated in a simple Tris-HCl/sucrose medium is described. The chloroplasts were isolated from green, fully expanded Cucumis cotyledons which were capable of chlorophyll repair. This was evidenced by a functional chlorophyll biosynthetic pathway in the mature tissue. The biosynthesis of protocholorphyllide from exogenous delta-aminolevulinic acid was used as a marker for the operation of the chlorophyll biosynthetic chain between delta-aminolevulinic acid and protochlorophyllide. The conversion of exogenous protochlorophyllide into chlorophyll a was used as a marker for the operation of the chlorophyll pathway beyond protochlorophyllide. It appeared from these studies that contrary to published reports, unfortified fully developed Cucumis chloroplasts incubated in Tris-HCl/sucrose without the addition of cofactors exhibited a partial and limited chlorophyll repair capability. Their net tetrapyrrole biosynthetic competence from delta-aminolevulinic acid was confined to the accumulation of coproporphyrin. No net tetrapyrrole biosynthesis beyond coproporphyrin was observed. However, the plastids were capable of incorporating small amounts of delta-amino[4-(14)C]levulinic acid into [14C]protochlorophyllide but were incapable of converting exogenous protochlorophyllide into chlorophyll. After prolonged incubation of the unfortified chloroplasts in the dark, a fluorescent protochlorophyllide-like compound accumulated. This compound [Cp (E430-F631) was shown to be neither protochlorophyllide nor zinc-prototochlorophyllide but and a fluorescence emission maximum at 631 nm (F631) in methanol/acetone (4 : 1, v/v). Cp(E430-F631) WAS SHOWN TO BE NEITHER PROTOCHLOROPHYLLIDE NOR ZINC-PROTOTOCHLOROPHYLLIDE BUT an enzymatic degradation product of chlorophyll. The exact chemical identity of this compound has not yet been determined.

Cells, Cultured↗

Protein synthesis in chloroplasts. IV. Polypeptides of the chloroplast envelope.

Envelope membranes were isolated from washed chloroplasts of pea seedlings. As judged by the protein-to-chlorophyll ratio, average preparations contain less than 8 percent contamination with internal lamellar membranes. Electrophoresis on sodium dodecylsulphate polyacrylamide gels shows that the envelope membranes contain at least 25 polypeptides. The molecular weight distribution of the envelope polypeptides is different from that of the lamellar polypeptides, there being more polypeptides of molecular weights above 50 000 in the envelopes. Two envelope polypeptides become labelled when isolated intact chloroplasts are incubated in the light with (35S) methionine. One of these is similar in molecular weight to the main polypeptide labelled in lamellae, but the other is unique to the envelope fraction. Incorporation of label into both polypeptides is totally light-dependent and is inhibited by chloramphenicol. When (35S) methionine is fed to detached pea shoots with and without cycloheximide, the labelling of other envelope polypeptides is inhibited. We conclude that two polypeptides of the chloroplast envelop are synthesised by chloroplast ribosomes.

Cell Membrane↗

Spinach chloroplast mRNA for a 32 000 dalton polypeptide: size and localization on the physical map of the chloroplast DNA.

The RNA from chloroplasts of young spinach plants contains mRNAs which are translated in a cell-free protein synthesizing system from lysed rabbit reticulocytes. Using [35S]methionine to label the products of translation, the main peptides have apparent molecular weights of 55,000, 45,000, 40,000, 32,000, 20,000 and 17,000. The sizes of the mRNAs as estimated by sucrose gradient centrifugation under non-denaturing conditions are between 12 and 23 S. A prominent product synthesized with RNA isolated from young spinach plants has an approximate molecular weight of 32,000. The mRNA for this 32,000 dalton protein sediments at 14 S on sucrose gradient. The position of the DNA sequence coding for this mRNA on the restriction site map of spinach chloroplast DNA was determined by hybridization and hybrid-arrested translation. A preliminary transcription map shows that in RNA from spinach chloroplasts which is larger than 10 S different RNA species are present which hybridize to nearly all fragments of the larger of the two single-copy regions of the chloroplast DNA.

Chloroplasts↗

Protein synthesis in chloroplasts. IX. Assembly of newly-synthesized large subunits into ribulose bisphosphate carboxylase in isolated intact pea chloroplasts.

Isolated pea (Pisum sativum) chloroplasts incorporate [35S]methionine into the large subunit of the chloroplast enzyme ribulose bisphosphate carboxylase. When chloroplasts are incubated in a medium containing KCl as osmoticum, newly-synthesised large subunits are not incorporated into the holoenzyme but can be separated from pre-existing enzyme by gel electrophoresis under non-denaturating conditions. Furthermore, newly-synthesised large subunits are not precipitated by antibodies which precipitate pre-existing holoenzyme and large subunit prepared from holoenzyme. When chloroplasts are incubated in a medium containing sorbitol as osmoticum, some of the newly-synthesised large subunits comigrate with holoenzyme on both 3% and 5% polyacrylamide non-denaturing gels. Such comigrating large subunits are precipitated by antibodies raised against the holoenzyme. These results indicate assembly of large subunits into ribulose bisphosphate carboxylase in the sorbitol medium. Time course experiments indicate that there is a time-lag of several minutes between onset of synthesis of large subunits and the onset of assembly. Newly-synthesised large subunits which do not comigrate with holoenzyme on both 3% and 5% polyacrylamide non-denaturing gels are associated with a protein of subunit molecular weight 60 000. This protein may be specifically combined with newly-synthesised large subunits, and the resulting aggregate be involved in the assembly of complete molecules of ribulose bisphosphate carboxylase.

Carboxy-Lyases↗

Chloroplast envelope protein encoded by chloroplast genome.

The gene product of an open reading frame of chloroplast genome, ORF 231 in pea, was immunochemically detected in chloroplast and etioplast envelopes. This is the first protein of a Chloroplast Envelope Membrane encoded by a chloroplast genome. It was named CEM A and the gene, cem A. CEM A is an acidic protein having an apparent molecular mass of 34 kDa on SDS-PAGE, and a minor component detected in the fractionated inner envelope.

Amino Acid Sequence↗

Specificity of chloroplast-localized peptide deformylases as determined with peptide analogs of chloroplast-translated proteins.

Peptide deformylase (DEF; EC 3.5.1.88) removes the N-formyl group from nascent polypeptides. Two nuclear-encoded DEFs in Arabidopsis thaliana (At) are localized to chloroplasts, and thus, the N-termini of chloroplast-translated proteins may be a consequence of AtDEFs' substrate specificity. Using peptide analogs of select chloroplast-translated proteins, AtDEF1 activity was as much as 100-fold lower than AtDEF2 activity and showed little variance with peptide sequence. However, AtDEF2 activity was significantly influenced by peptide sequence, with the most efficiently processed substrate mimicking the N-terminus of the nascent D1 polypeptide, a core protein of photosystem II. Though AtDEF2's specificity was predictive of N-formyl retention for some chloroplast proteins, exceptions suggests that additional factors in vivo aid in determining the retention of an N-formyl group.

Amidohydrolases↗