Biochemical Society Transactions (2002) Volume 30, part 4 This work was supported by grants from the Biotechnology and Biological Sciences Research Council, U.K. 9 10 References I 2 3 4 5 6 7 8 II Griffiths, W. T. ( 1978) Biochem. J. 174, 68 1-692 Lebedev, N. and Timko, M. P. ( I 998) Photosynth. Res. 58, 5-23 Aubert, C., Vos, M. H., Mathis, P., Eker, A. P. and Brettel, K. (2000) Nature (London) 405, 586-590 Baker, M. E. ( I 994) Biochem. J. 300, 605-607 Townley, H. E., Sessions, R. B., Clarke, A. R., Daffom, T. R. and Grifiths, W. T. (2001) Proteins 44,329-335 Persson, B., Krook, M. and Jomvall, H. ( I 99 I ) Eur. J, Biochem. 200, 537-543 Bohren, K. M., Grimshaw, C. E., Lai, C. J., Hamson, D. H., Ringe, D., Petsko, G. A. and Gabbay, K. H. ( 1994) Biochemistry 33, 202 1-2032 Varughese, K. I., Xuong. N. H., Kiefer, P. M., Matthews, D. A. and Whiteley, J, M. ( I 994) Proc. Natl. Acad. Sci. U.S.A.9 I,5582-5586 12 13 14 15 16 17 Ensor, C. M. and Tai, H. H. ( I 99 I ) Biochem. Biophys. 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Kohchit *School of Biological Sciences, University of Southampton, Bassett Crescent East, Southampton SO I 6 7PX, U.K., and tGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0 I0 I , japan - Abstract T h e haem oxygenase (HO) enzyme catalyses the oxidation of haem to biliverdin IXa, CO and Fe2+, and performs a wide variety of roles in Nature, including degradation of haem from haemoglobin, iron acquisition and phycobilin biosynthesis. In plants, H O s are required for the synthesis of the chromophore of the phytochrome family of photoreceptors. There are four H O genes in the Arabidopsis genome. Analysis of a mutant deficient in H 0 1 (the hyl mutant) has demonstrated that this plastid-localized protein is the major H O in the phytochrome chromophore synthesis pathway. H 0 2 may also have a minor role in this pathway, but our understanding of the divergent roles of this small gene family is still far from complete. Key words: biliverdin, chloroplasts, light and plastid signalling, photoreceptor, tetrapyrroles. Abbreviations used: BV, biliverdin; EST, expressed sequence tag; HO, haern oxygenase protein; HO, haem oxygenase gene; POB, phytochromobilin. 'To whom correspondence should be addressed (e-mail [email protected]). 0 2002 Biochemical Society 604 Haem oxygenase (HO) a universal enzyme for haem degradation HO was originally identified as a key enzyme in the degradation of haem through its role in bilirubin production in rat liver [l], and is still the only enzyme known that can catalyse haem degradation. As shown in Scheme 1, H O oxidizes haem at the a-meso position to give biliverdin (BV) I X a , Fe2+ and CO in a reaction requiring molecular oxygen and electrons from N A D P H . T h e mechanism of this reaction has been described in detail recently, and proceeds through a number of relatively stable intermediates, including a-meso hydroxyhaem and verdohaem [2]. As discussed below, additional proteins are required to utilize N A D P H , and the type of protein used is speciesdependent : mammalian H O s require cytochrome P450 reductase [2], while bacterial HOs have been shown to use ferredoxin [3,4] or putidaredoxin [5] together with an accompanying NAD(P)Hdependent reductase. While haem degradation is a common feature of all HOs, this enzyme actually has a great variety of roles in Nature, due in part to the diversity Tetrapyrroles: Their Life, Birth and Death Another example of a role in iron metabolism comes from the red alga Rhodella violacea, in which a HO gene is transcriptionally activated by iron limitation [12]. Finally, high levels of HO expression in the mammalian nervous system, together with the identification of physiological responses to CO, have led to the proposal that H O s may specifically mediate the release of C O in neural cells, where it is thought to have a signalling role [13]. of the reaction products. In mammals, BV I X a is reduced to bilirubin, through the action of BV reductase, which is then conjugated to glucuronic acid prior to excretion [2]. In other organisms, however, BV IXa is used for a whole range of purposes. In cyanobacteria and algae it is the precursor of phycobilins used for light-harvesting during photosynthesis [6]. In plants, as we shall see below, BV IXa is reduced to phytochromobilin (PQB), the chromophore of the phytochrome family of photoreceptors [7]. In reptiles, fish, insects and the eggshells of birds, BV IXa is used directly for pigmentation, and it has even been shown to function as a signalling molecule during dorsal development in Xenopus laevis embryos [S]. Even in mammals, excretion is not necessarily the end of the story. Both BV IXa and bilirubin have been shown to have strong antioxidant properties in vitro [9], and this has led to speculation that HO may have a protective role against tissue injury [lo]. Similarly, the release of iron and subsequent induction of iron-sequestering proteins such as ferritin has also been proposed as an important function of HOs in counteracting oxidative stress in mammalian cells [l 11. Certainly, iron acquisition seems to be the raison d’gtre of some bacterial HOs, such as in the pathogenic bacterium Corynebacterium diphtheriae [S]. HOs in plants T h e first direct evidence for the presence of H O in photosynthetic organisms came from feeding experiments in the red alga Cyanidium caldarium [14]. These demonstrated that the phycobiliprotein chromophore, phycocyanobilin, was synthesized from haem in a manner identical to that used in mammalian systems. Subsequently, this system was utilized to first measure [15], and then partially purify [16], an algal HO. In higher plants, the similarity of the phytochrome chromophore, PQB, to phycobilins (such as phycocyanobilin) and the demonstration that BV IXa was the precursor of PQB led to the proposal that a similar pathway might be utilized for PQB synthesis [17]. Evidence that exogenous haem could support PQB synthesis in isolated etioplasts [7] and that the ferrochelatase inhibitor N-methylmesoporphyrin I X could inhibit phytochrome chromophore synthesis in the pea [18] further supported this idea. T h e question of the role of H O in phytochrome synthesis was finally resolved through the analysis of mutants unable to synthesize PQB [ 191. Biochemical analyses of the phytochrome chromophore deficient 1 ( p c d l ) mutant of pea [20] and the yellow-green-2 ( y g - 2 ) mutant of tomato [21] demonstrated that both of these phytochromedeficient mutants lacked HO activity. T h e positional cloning of an equivalent mutant of Arabidopsis, h y l , demonstrated that the affected gene showed sequence similarity with mammalian and cyanobacterial HOs [22,23] and that the gene product possessed HO activity in vitro [22]. This gene was named H 0 1 , and encodes a 282-aminoacid protein with a predicted molecular mass of 32.6 kDa. This included a 55-amino-acid chloroplast transit peptide, predicting a mature protein of 26.6 kDa following cleavage of the transit peptide. A chloroplast location for HO1 was confirmed using a green fluorescent protein reporter, and immunoblot studies demonstrated that HO1 was found predominantly in the stroma Scheme I The HO reaction Substrates and products are not shown stoichiometrically Heme I H02C CO2H NADPH102 4 k H co/Fa** H H Biliverdin IXa [221. 605 0 2002 Biochemical Society Biochemical Society Transactions (2002) Volume 30, part 4 H 0 1 genes have now been identified from a number of plant species, including rice 1261, tomato 1251 and pea (P. J. Linley, M. Landsberger, T. Kohchi and M. J. Terry, unpublished work), and are present in numerous E S T (expressed sequence tag) collections. Given the plastid localization of H 0 1 , one of the surprising features of the phylogenetic analysis shown in Figure 1 is that higher plant sequences are equally divergent from mammalian and cyanobacterial or algal (including those present on the algal plastid genome [12]) sequences. Despite this, T h e Arabidopsis genome-sequencing programme has now revealed that HOs comprise a small gene family, with four members in total 124,251. As shown in Figure 1, these genes fall into two distinct classes : HOI-like genes (including H 0 3 and H 0 4 of Arabidopsis) and H 0 2 genes [25]. Interestingly, while all plant HO1-like genes contain the conserved histidine that functions as the proximal haem ligand (His-25 in mammalian H 0 1 [2]), in the H 0 2 genes this is replaced by an arginine. T h e functional implications of such a substitution are not yet clear. Figure I Phylogenetic tree showing animal, plant and bacterial HOs H O protein sequences (34 sequences from 24 species) were aligned using the ClustalW algorithm [45]. The bar is equivalent to 0.I amino acid substitutions per position ( i e a 10% difference in amino acid sequence identity), and for the purposes of the phylogenetic alignment the N-terminal transit peptides of plant sequences and the Cterminal membrane-anchor domains of animal sequences were removed. The accession numben of the sequences used were as follows. Plant HOs: pine (Pt H O I , AF320030), Medicogo truncotulo (Mt H O I , ESTs AW98 I0 I 7 and AL38 I 336), pea (Ps H O I , AF276228), soybean (Gm H O I , AF320024; Grn H 0 3 , AF320025), Arobidopsis tholrono (At H O I , AF I 32475 ; A t H02, AF I 32477; A t H 0 3 , AF320022; A t H04, AF320023), rye (Sc H O I ; composite sequence from ESTs BE586278 and BE586940), rice (0s H O I , C28969), sorghum (Sb HO I, AF320026; Sb H 0 2 , AF320027), maize (Zm H O I , EST AWO I7939), tomato (Le H O I , AF320028; Le H 0 2 , AF320029) and tobacco (Nt H O I , partial cDNA sequence AF473906). Bacterial HOs: Pseudomonos oeruginoso (Po BphO, A83 I3 I), Deinococcus rodrodurons (Dr BphO, AF3967 lo), Corynebocterium diphtherioe (Cd HmuO, U73860) and Streptomyces coelrcolor (Sc HO, AL 133220). Algal (plastid genome) and cyanobacterial HOs: Synechosystis PCC6803 (Syns HO I , D9090 I : Syns H 0 2 , D909 I2), Synechococcus PCC7942 (Sync H O I , AF048758), Guilordro theta (Gt PbsA, NC-000926), Porphyro purpureo (Pp PbsA, NC-000926), Rhodello violoceo (Rv PbsA, AH005544) and Prochlorococcus morinus (Pm H O I , AY030299). Animal HOs: rat (Rn H O I , NM-0 12580; Rn H 0 2 , NM-024387), human (Hs H O I , NM-002 133; Hs H 0 2 , XM-036680) chicken (Gg HO I , P I479 I ) and Fugu (Jr H O I , AF0228 14). Note that H O I and H 0 2 nomenclature for plant, animal and cyanobacterial HOs does not imply any functional or greater sequence similarity between these proteins, and defines only separate groups within each phylum. Plant Bacte,rial ibac'ter.id/ istid 01 Animal 0 2002 Biochemical Society 606 ec:nome) Tetrapyrroles: Their Life, Birth and Death preliminary biochemical evidence suggests that plant H O l s are more similar to their cyanobacterial and algal counterparts than they are to the mammalian enzymes. Arabidopsis H 0 1 is a soluble protein that is able to utilize ferredoxin and a ferredoxin-NADP+ oxidoreductase in vitro [22]. These properties have also been seen for the cyanobacterial [3,4] and algal [6,16,27] enzymes. In contrast, mammalian H O uses NADPHcytochrome P450 reductase [2] and is membranebound through a hydrophobic C-terminal extension [28] that is absent from plant HOs [22,23,25]. Other mechanistic features of the algal and cyanobacterial enzymes, such as a dependence on a second reductant such as ascorbate and a requirement for an iron chelator [3,29], are also shared by Arabidopsis H 0 1 ( T . Muramoto, NI. J. Terry, A. Yokota and T. Kohchi, unpublished work). T h e cofactor requirements of the other HOs have yet to be determined. Indeed, it has yet to be formally established whether they have H O activity at all. This is particularly pertinent for H02, as it lacks the conserved histidine that is thought to be crucial for H O function (see above). mutants with long hypocotyls in white light [35]. Further analysis of this mutant suggests that it is almost completely ‘blind’ to red and far-red light and contains no detectable holophytochrome [25,35,36], indicating that at this developmental stage H01 is the H O primarily responsible for POB synthesis. However, despite this apparently clear-cut observation, mutants deficient in H 0 2 do show a small decrease in holophytochrome and a parallel (small) decrease in light responsivity, suggesting that H 0 2 does have a role in POB synthesis in seedlings [25]. This is supported by the observation that HO2 is expressed throughout the seedling, as indeed is HOI [25]. So what of H 0 3 and H 0 4 ? One of the characteristics of all chromophore-deficient mutants is that they ‘recover’ as they mature [19]. One possibility is that HOs other than H 0 1 play increasingly important roles later in development. Indeed, the ho2 mutant has an early-flowering phenotype that appears to be somewhat stronger relative to hyl than for comparative seedling responses [25]. It is possible that H 0 3 and H 0 4 also have a more prominent role at other developmental st ages. An alternative hypothesis is that these additional HOs have different cellular locations and that their primary function is not POB synthesis, but haem degradation. T h e cytoplasm and mitochondria, for example, will have large haem pools, and it might seem unlikely that haem would be imported into plastids for degradation. In the absence of H 0 1 , BV IXa synthesized outside the plastid may be utilized for POB synthesis, as has been seen with the application of exogenous BV IXa [36]. I n this context it is interesting that a cytoplasmically localized rat H 0 1 could partially rescue a HO-deficient mutant of the moss Ceratodon [37]. While this is an attractive explanation, preliminary experiments with green fluorescent protein constructs indicate that H 0 2 , H 0 3 and H 0 4 proteins are all localized predominantly to the plastid ( T . Kohchi, unpublished work). These results would not preclude a dual localization within the cell, but do suggest that another explanation for the multiplicity of HO isoforms is required. Another possibility, as suggested by Davis et al. [25], is that H 0 3 and H 0 4 may have tissue-specific roles. In this case it was noted that H 0 l and H 0 2 were not strongly expressed in root tips of etiolated seedlings, a region in which phytochrome genes are highly expressed. Localization studies on H 0 3 and HOJ expression will hopefully resolve this issue. Role of HO in phytochrome synthesis T h e phytochromes comprise a family of photoreceptors (there are five in Arabidopsis) that modulate growth and development in response to changes in the surrounding light environment [30]. They respond primarily to red and far-red light and are photoreversibly regulated via the covalently bound chromophore, POB. T h e pathway leading to phytochrome holoprotein synthesis is depicted in Figure 2. Phytochrome genes are nuclear-encoded, and the apoproteins are synthesized on cytoplasmic ribosomes. In contrast, both H O [22] and the next enzyme in the pathway, POB synthase, are plastid-localized [31,32], indicating that the complete POB synthetic pathway is present in plastids (see also [7]). T h e primary product of POB synthase is actually the 32-isomer of POB [32,33], while 3E-POB is believed to be the immediate precursor of the bound chromophore [7]. A POB isomerase to accomplish this reaction, if present, has yet to be identified. Assembly of apophytochrome to POB is autocatalytic [34] and is currently thought to take place in the cytoplasm [7]. Once assembled, phytochrome transduces its signal through both cytoplasmically and nuclearlocalized signalling components, and is itself transported to the nucleus [30]. T h e H 0 1 -deficient hyl mutant of Arabidopsis was originally identified from a genetic screen for 607 0 2002 Biochemical Society Biochemical Society Transactions (2002) Volume 30, part 4 Figure 2 Role of HO in the synthesis ofthe phytochrome family of plant photoreceptors The phytochromes are synthesized from two components. The apoproteins are encoded by nuclear genes and the chromophore, PQB, is synthesized in the plastid from 5-aminolaevulinic acid ( A M ) via the haem and BV branch of the tetrapyrrole pathway. Assembly of holophytochrome is autocatalytic and is thought to occur in the cytoplasm. 3E-POB r red/far-red light RESPONSES HOLOPHYTOCHROME One example where the role of HOs in phytochrome chromophore synthesis is well defined comes from the recent identification of HO genes on the same operons as genes encoding bacteriophytochromes [38]. This observation is made even more intriguing by the finding that these bacteriophytochromes, present in heterotrophic bacteria such as Deinococcus, appear to use BV IXa itself as their chromophore [38]. can lead to an inhibition of chlorophyll synthesis through a feedback effect on 5-aminolaevulinic acid production, which is rate-limiting for tetrapyrrole synthesis [40]. This in turn can lead to effects on plastid development [41] and has been proposed as an explanation for the extremely pale phenotype of h y l [19]. T h e h y l mutant has also been identified in a screen for genomes uncoupled (gun) mutants, in which the control of nuclear gene expression by the developmental status of the plastid has been disturbed [42,43]. Mutants deficient in H01 ( h y l ) and the next enzyme in the pathway, PQB synthase (hyZ), turned out to be allelic to gun2 and gun3 respectively [43], and these mutations are likely to affect plastid development, through disruption of the normal regulatory mechanisms mediated by plastid signalling pathways. There is increasing evidence that tetrapyrroles play an important role in plastid signalling, and it has been proposed that the signal may represent a balance between two tetrapyrrole species [43,44]. It is therefore probable that h y l affects plastid signalling through perturbation of the tetrapyrrole pathway, although a more direct involvement cannot be ruled out. Do HOs have additional roles in plastid development? In addition to being elongated, the h y l mutant is also pale in colour due to defects in normal chloroplast development, consistent with the known roles of phytochromes in this aspect of development [39]. However, despite retaining some phytochrome responses, h y l is paler than a quadruple mutant lacking phytochromes A, B, D and E (G. Whitelam, personal communication). This suggests that H O deficiency affects chloroplast development in a manner independent of the absence of phytochrome. Analysis of tetrapyrrole synthesis in chromophore mutants of tomato has shown that a block in plastidic haem degradation 0 2002 Biochemical Society 608 Tetrapyrroles: Their Life, Birth and Death These phenotypic traits represent an extreme situation, i.e. a complete absence of H01. Is it possible that regulation of H 0 1 expression has a role in modulating plastid development? Initial studies on the regulation of H 0 1 mRNA levels suggest that this is not a highly regulated gene, with only a 2-fold increase in light-grown compared with dark-grown Arabidopsis seedlings [23]. A small increase such as this would be in keeping with an increased requirement for haem turnover in the light. However, it is equally likely that, if H01 were to play an important regulatory role, it would be responsive to the flux through the haem branch of the tetrapyrrole pathway, perhaps through modulation of its activity or abundance. These questions still remain to be addressed, but we are now at least in a position to do so. 17 18 19 20 21 22 23 24 25 26 27 Work on HOs is supported by BBSRC grant 5 I /P I0948 to M.J.T., a grant from the Japanese Society for the Promotion of Science 'Research for the Future' program (JSPS-RFTFOOLO 1605) to T.K.. and a BBSRC lSlS award (ISIS 982) to M.J.T.and T.K. M.J.T. is a Royal Society University Research Fellow. 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