Evolutionary Aspects and Regulation of Tetrapyrrole Biosynthesis in Cyanobacteria Under Aerobic and Anaerobic Environments
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Hyperbilirubinemia
Porphyrins Porphyrins (Porphins) are cyclic tetrapyrol compounds formed by the linkage )). of four pyrrole rings through methenyl bridges (( HC In the reduced porphyrins (Porphyrinogens) the linkage of four pyrrole rings (tetrapyrol) through methylene bridges (( CH2 )) The characteristic property of porphyrins is the formation of complexes with the metal ion bound to nitrogen atoms of the pyrrole rings. e.g. Heme (iron porphyrin). Proteins which contain heme ((hemoproteins)) are widely distributed e.g. Hemoglobin, Myoglobin, Cytochromes, Catalase & Tryptophan pyrrolase. Natural porphyrins have substituent side chains on the eight hydrogen atoms numbered on the pyrrole rings. These side chains are: CH 1-Methyl-group (M)… (( 3 )) 2-Acetate-group (A)… (( CH2COOH )) 3-Propionate-group (P)… (( CH2CH2COOH )) 4-Vinyl-group (V)… (( CH CH2 )) Porphyrins with asymmetric arrangement of the side chains are classified as type III porphyrins while those with symmetric arrangement of the side chains are classified as type I porphyrins. Only types I & III are present in nature & type III series is more important because it includes heme. 1 Heme Biosynthesis Heme biosynthesis occurs through the following steps: 1-The starting reaction is the condensation between succinyl-CoA ((derived from citric acid cycle in the mitochondria)) & glycine, this reaction is a rate limiting reaction in the hepatic heme synthesis, it occurs in the mitochondria & is catalyzed by ALA synthase (Aminolevulinate synthase) enzyme in the presence of pyridoxal phosphate as a cofactor. The product of this reaction is α-amino-β-ketoadipate which is rapidly decarboxylated to form δ-aminolevulinate (ALA). 2-In the cytoplasm condensation reaction between two molecules of ALA is catalyzed by ALA dehydratase enzyme to form two molecules of water & one 2 molecule of porphobilinogen (PBG) which is a precursor of pyrrole. -
RLIN1, Encoding a Putative Coproporphyrinogen III Oxidase, Is Involved in Lesion Initiation in Rice
Available online at www.sciencedirect.com Journal of Genetics and Genomics 38 (2011) 29e37 www.jgenetgenomics.org RLIN1, encoding a putative coproporphyrinogen III oxidase, is involved in lesion initiation in rice Changhui Sun a,b,d,1, Linchuan Liu b,c,1, Jiuyou Tang b, Aihong Lin b,c, Fantao Zhang b,d, Jun Fang b, Genfa Zhang a,*, Chengcai Chu a,b,c,* a Key Laboratory for Cell Proliferation and Regulation Biology of Ministry of Education, College of Life Science, Beijing Normal University, Beijing 100875, China b The State Key Laboratory of Plant Genomics and National Plant Gene Research Center (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Datun Road, Chaoyang District, Beijing 100101, China c Graduate School of the Chinese Academy of Sciences, Yuquan Road, Beijing 100039, China d Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China Received 11 October 2010; revised 17 October 2010; accepted 20 October 2010 Abstract Lesion mimic is necrotic lesions on plant leaf or stem in the absence of pathogenic infection, and its exact biological mechanism is varied. By a large-scale screening of our T-DNA mutant population, we identified a mutant rice lesion initiation 1 (rlin1), which was controlled by a single nuclear recessive gene. Map-based cloning revealed that RLIN1 encoded a putative coproporphyrinogen III oxidase in tetrapyrrole biosynthesis pathway. Sequencing results showed that a G to T substitution occurred in the second exon of RLIN1 and led to a missense mutation from Asp to Tyr. Ectopic expression of RLIN1 could rescue rlin1 lesion mimic phenotype. -
Porphyrins & Bile Pigments
Bio. 2. ASPU. Lectu.6. Prof. Dr. F. ALQuobaili Porphyrins & Bile Pigments • Biomedical Importance These topics are closely related, because heme is synthesized from porphyrins and iron, and the products of degradation of heme are the bile pigments and iron. Knowledge of the biochemistry of the porphyrins and of heme is basic to understanding the varied functions of hemoproteins in the body. The porphyrias are a group of diseases caused by abnormalities in the pathway of biosynthesis of the various porphyrins. A much more prevalent clinical condition is jaundice, due to elevation of bilirubin in the plasma, due to overproduction of bilirubin or to failure of its excretion and is seen in numerous diseases ranging from hemolytic anemias to viral hepatitis and to cancer of the pancreas. • Metalloporphyrins & Hemoproteins Are Important in Nature Porphyrins are cyclic compounds formed by the linkage of four pyrrole rings through methyne (==HC—) bridges. A characteristic property of the porphyrins is the formation of complexes with metal ions bound to the nitrogen atom of the pyrrole rings. Examples are the iron porphyrins such as heme of hemoglobin and the magnesium‐containing porphyrin chlorophyll, the photosynthetic pigment of plants. • Natural Porphyrins Have Substituent Side Chains on the Porphin Nucleus The porphyrins found in nature are compounds in which various side chains are substituted for the eight hydrogen atoms numbered in the porphyrin nucleus. As a simple means of showing these substitutions, Fischer proposed a shorthand formula in which the methyne bridges are omitted and a porphyrin with this type of asymmetric substitution is classified as a type III porphyrin. -
Comparing the Reaction Mechanism of Dark-Operative Protochlorophyllide
With or without light: comparing the reaction mechanism of dark-operative protochlorophyllide oxidoreductase with the energetic requirements of the light-dependent protochlorophyllide oxidoreductase Pedro J. Silva REQUIMTE, Faculdade de Cienciasˆ da Saude,´ Universidade Fernando Pessoa, Rua Carlos da Maia, Porto, Portugal ABSTRACT The addition of two electrons and two protons to the C17DC18 bond in protochloro- phyllide is catalyzed by a light-dependent enzyme relying on NADPH as electron donor, and by a light-independent enzyme bearing a .Cys/3Asp-ligated [4Fe–4S] cluster which is reduced by cytoplasmic electron donors in an ATP-dependent manner and then functions as electron donor to protochlorophyllide. The precise sequence of events occurring at the C17DC18 bond has not, however, been determined experimentally in the dark-operating enzyme. In this paper, we present the computational investigation of the reaction mechanism of this enzyme at the B3LYP/6-311CG(d,p)//B3LYP/6-31G(d) level of theory. The reaction mechanism begins with single-electron reduction of the substrate by the .Cys/3Asp-ligated [4Fe–4S], yielding a negatively-charged intermediate. Depending on the rate of Fe–S cluster re-reduction, the reaction either proceeds through double protonation of the single-electron-reduced substrate, or by alternating proton/electron transfer. The computed reaction barriers suggest that Fe–S cluster re-reduction should be Submitted 24 March 2014 the rate-limiting stage of the process. Poisson–Boltzmann computations on the Accepted 9 August 2014 full enzyme–substrate complex, followed by Monte Carlo simulations of redox Published 2 September 2014 and protonation titrations revealed a hitherto unsuspected pH-dependence of the Corresponding author reaction potential of the Fe–S cluster. -
Noncanonical Coproporphyrin-Dependent Bacterial Heme Biosynthesis Pathway That Does Not Use Protoporphyrin
Noncanonical coproporphyrin-dependent bacterial heme biosynthesis pathway that does not use protoporphyrin Harry A. Daileya,b,c,1, Svetlana Gerdesd, Tamara A. Daileya,b,c, Joseph S. Burcha, and John D. Phillipse aBiomedical and Health Sciences Institute and Departments of bMicrobiology and cBiochemistry and Molecular Biology, University of Georgia, Athens, GA 30602; dMathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439; and eDivision of Hematology, Department of Medicine, University of Utah School of Medicine, Salt Lake City, UT 84132 Edited by J. Clark Lagarias, University of California, Davis, CA, and approved January 12, 2015 (received for review August 25, 2014) It has been generally accepted that biosynthesis of protoheme of a “primitive” pathway in Desulfovibrio vulgaris (13). This path- (heme) uses a common set of core metabolic intermediates that way, named the “alternative heme biosynthesis” path (or ahb), has includes protoporphyrin. Herein, we show that the Actinobacteria now been characterized by Warren and coworkers (15) in sulfate- and Firmicutes (high-GC and low-GC Gram-positive bacteria) are reducing bacteria. In the ahb pathway, siroheme, synthesized unable to synthesize protoporphyrin. Instead, they oxidize copro- from uroporphyrinogen III, can be further metabolized by suc- porphyrinogen to coproporphyrin, insert ferrous iron to make Fe- cessive demethylation and decarboxylation to yield protoheme (14, coproporphyrin (coproheme), and then decarboxylate coproheme 15) (Fig. 1 and Fig. S1). A similar pathway exists for protoheme- to generate protoheme. This pathway is specified by three genes containing archaea (15, 16). named hemY, hemH, and hemQ. The analysis of 982 representa- Current gene annotations suggest that all enzymes for pro- tive prokaryotic genomes is consistent with this pathway being karyotic heme synthetic pathways are now identified. -
Published Version (PDF 2MB)
This may be the author’s version of a work that was submitted/accepted for publication in the following source: Harris, Tegan M., Price, Erin P., Sarovich, Derek S., Nørskov-Lauritsen, Niels, Beissbarth, Jemima, Chang, Anne B., & Smith-Vaughan, Heidi C. (2020) Comparative genomic analysis identifies x-factor (Haemin)-independent haemophilus haemolyticus:A formal re-classification of ’haemophilus in- termedius’. Microbial Genomics, 6(1), Article number: 000303. This file was downloaded from: https://eprints.qut.edu.au/211802/ c 2020 The Authors This work is covered by copyright. Unless the document is being made available under a Creative Commons Licence, you must assume that re-use is limited to personal use and that permission from the copyright owner must be obtained for all other uses. If the docu- ment is available under a Creative Commons License (or other specified license) then refer to the Licence for details of permitted re-use. It is a condition of access that users recog- nise and abide by the legal requirements associated with these rights. If you believe that this work infringes copyright please provide details by email to [email protected] License: Creative Commons: Attribution 4.0 Notice: Please note that this document may not be the Version of Record (i.e. published version) of the work. Author manuscript versions (as Sub- mitted for peer review or as Accepted for publication after peer review) can be identified by an absence of publisher branding and/or typeset appear- ance. If there is any doubt, please refer to the published source. https://doi.org/10.1099/mgen.0.000303 RESEARCH ARTICLE Harris et al., Microbial Genomics 2020;6 DOI 10.1099/mgen.0.000303 Comparative genomic analysis identifies X- factor (haemin)- independent Haemophilus haemolyticus: a formal re-classification of 'Haemophilus intermedius' Tegan M. -
Differential Transcriptional Analysis of the Cyanobacterium Cyanothece Sp
JOURNAL OF BACTERIOLOGY, June 2008, p. 3904–3913 Vol. 190, No. 11 0021-9193/08/$08.00ϩ0 doi:10.1128/JB.00206-08 Copyright © 2008, American Society for Microbiology. All Rights Reserved. Differential Transcriptional Analysis of the Cyanobacterium Cyanothece sp. Strain ATCC 51142 during Light-Dark and Continuous-Light Growthᰔ† Jo¨rg Toepel,1 Eric Welsh,2 Tina C. Summerfield,1 Himadri B. Pakrasi,2 and Louis A. Sherman1* Purdue University, Department of Biological Sciences, 201 S. University Street, West Lafayette, Indiana 47907,1 and Washington University, Department of Biology, Reebstock Hall, St. Louis, Missouri 631302 Received 9 February 2008/Accepted 26 March 2008 We analyzed the metabolic rhythms and differential gene expression in the unicellular, diazotrophic cya- nobacterium Cyanothece sp. strain ATCC 51142 under N2-fixing conditions after a shift from normal 12-h light-12-h dark cycles to continuous light. We found that the mRNA levels of ϳ10% of the genes in the genome demonstrated circadian behavior during growth in free-running (continuous light) conditions. The genes for Downloaded from N2 fixation displayed a strong circadian behavior, whereas photosynthesis and respiration genes were not as tightly regulated. One of our main objectives was to determine the strategies used by these cells to perform N2 fixation under normal day-night conditions, as well as under the greater stress caused by continuous light. We determined that N2 fixation cycled in continuous light but with a lower N2 fixation activity. Glycogen degra- dation, respiration, and photosynthesis were also lower; nonetheless, O2 evolution was about 50% of the normal peak. We also demonstrated that nifH (encoding the nitrogenase Fe protein), nifB, and nifX were strongly induced in continuous light; this is consistent with the role of these proteins during the assembly of the enzyme jb.asm.org complex and suggested that the decreased N2 fixation activity was due to protein-level regulation or inhibition. -
Identification of Cell Surface Sugars in N2-Fixing Cyanobacterium
254 Proceedings of the South Dakota Academy of Science, Vol. 97 (2018) IDENTIFICATION OF CELL SURFACE SUGARS IN N2-FIXING CYANOBACTERIUM CYANOTHECE ATCC 51142 USING FLUORESCEIN LABELED LECTINS James Young, Michael Hildreth and Ruanbao Zhou* Department of Biology and Microbiology South Dakota State University Brookings, SD 57007 *Corresponding author email: [email protected] ABSTRACT Some cyanobacteria carry out both O2-producing photosynthesis and O2-sensitive nitrogen fixation, making them unique contributors to global carbon and nitrogen cycles and potential contributors to industrial and agricul- tural applications. Much research has focused on how cyanobacteria protect the O2-sensitive N2-fixing enzyme, nitrogenase. Cyanobacteria separate these two incompatible biochemical processes either spatially, in filamentous 2N -fixing cyanobacteria, or temporally, in unicellular cyanobacteria. Approximately 10% of the vegetative cells in filamentous N2-fixing cyanobacteria such as Anabaena spp. become heterocysts that are present singly at semiregular intervals along the filaments. Heterocysts are morphologically and biochemically specialized for N2-fixation. By sequestering nitrogenase within heterocysts, Anabaena spp. can carry out, simultaneously, oxygenic photosynthesis and the O2-labile assimilation of N2. Heterocysts have three mechanisms to protect nitrogenase: (1) form an additional two-layer of cell wall with a layer of glycolipids and an outer, protec- tive layer of specific polysaccharides to block the environmental 2O ; (2) stop O2 production by shutting down PSII; and (3) increase respiration to consume O2. Unlike filamentous cyanobacteria,Cyanothece ATCC 51142 (hereafter cya- nothece), a unicellular cyanobacterium, rhythmically separates photosynthesis and nitrogen fixation. However, cyanothece still has to deal with environmen- tal oxygen. Little is known about how cyanothece protects nitrogenase from inactivation by environmental O2. -
Surprising Roles for Bilins in a Green Alga Jean-David Rochaix1 Departments of Molecular Biology and Plant Biology, University of Geneva,1211 Geneva, Switzerland
COMMENTARY COMMENTARY Surprising roles for bilins in a green alga Jean-David Rochaix1 Departments of Molecular Biology and Plant Biology, University of Geneva,1211 Geneva, Switzerland It is well established that the origin of plastids which serves as chromophore of phyto- can be traced to an endosymbiotic event in chromes (Fig. 1). An intriguing feature of which a free-living photosynthetic prokaryote all sequenced chlorophyte genomes is that, invaded a eukaryotic cell more than 1 billion although they lack phytochromes, their years ago. Most genes from the intruder genomes encode two HMOXs, HMOX1 were gradually transferred to the host nu- andHMOX2,andPCYA.InPNAS,Duanmu cleus whereas a small number of these genes et al. (6) investigate the role of these genes in were maintained in the plastid and gave the green alga Chlamydomonas reinhardtii rise to the plastid genome with its associated and made unexpected findings. protein synthesizing system. The products of Duanmu et al. first show that HMOX1, many of the genes transferred to the nucleus HMOX2, and PCYA are catalytically active were then retargeted to the plastid to keep it and produce bilins in vitro (6). They also functional. Altogether, approximately 3,000 demonstrate in a very elegant way that these nuclear genes in plants and algae encode proteins are functional in vivo by expressing plastid proteins, whereas chloroplast ge- a cyanobacteriochrome in the chloroplast Fig. 1. Tetrapyrrole biosynthetic pathways. The heme nomes contain between 100 and 120 genes of C. reinhardtii, where, remarkably, the and chlorophyll biosynthetic pathways diverge at pro- (1). A major challenge for eukaryotic pho- photoreceptor is assembled with bound toporphyrin IX (ProtoIX). -
Rhythmic and Sustained Oscillations in Metabolism and Gene Expression of Cyanothece Sp
ORIGINAL RESEARCH ARTICLE published: 06 December 2013 doi: 10.3389/fmicb.2013.00374 Rhythmic and sustained oscillations in metabolism and gene expression of Cyanothece sp. ATCC 51142 under constant light Sandeep B. Gaudana1†‡, S. Krishnakumar1‡, Swathi Alagesan1, Madhuri G. Digmurti 1, Ganesh A. Viswanathan1, Madhu Chetty 2 and Pramod P.Wangikar1* 1 Department of Chemical Engineering, Indian Institute of Technology Bombay, Powai, Mumbai, India 2 Gippsland School of Information Technology, Monash University, VIC, Australia Edited by: Cyanobacteria, a group of photosynthetic prokaryotes, oscillate between day and night time Thomas E. Hanson, University of metabolisms with concomitant oscillations in gene expression in response to light/dark Delaware, USA cycles (LD).The oscillations in gene expression have been shown to sustain in constant light Reviewed by: (LL) with a free running period of 24 h in a model cyanobacterium Synechococcus elongatus Kathleen Scott, University of South Florida, USA PCC 7942. However, equivalent oscillations in metabolism are not reported under LL in Ivan Berg, Albert-Ludwigs-Universität this non-nitrogen fixing cyanobacterium. Here we focus on Cyanothece sp. ATCC 51142, a Freiburg, Germany unicellular, nitrogen-fixing cyanobacterium known to temporally separate the processes *Correspondence: of oxygenic photosynthesis and oxygen-sensitive nitrogen fixation. In a recent report, Pramod P.Wangikar, Department of metabolism of Cyanothece 51142 has been shown to oscillate between photosynthetic Chemical Engineering, Indian Institute of Technology Bombay, Powai, and respiratory phases under LL with free running periods that are temperature dependent Mumbai 400076, India but significantly shorter than the circadian period. Further, the oscillations shift to circadian e-mail: [email protected] pattern at moderate cell densities that are concomitant with slower growth rates. -
Cyanobacterial Heterocysts
Downloaded from http://cshperspectives.cshlp.org/ on September 25, 2021 - Published by Cold Spring Harbor Laboratory Press Cyanobacterial Heterocysts Krithika Kumar2, Rodrigo A. Mella-Herrera1,2, and James W. Golden1 1Division of Biological Sciences, University of California-San Diego, La Jolla, California 92093 2Department of Biology, Texas A&M University, College Station, Texas 77843 Correspondence: [email protected] Many multicellular cyanobacteria produce specialized nitrogen-fixing heterocysts. During diazotrophic growth of the model organism Anabaena (Nostoc) sp. strain PCC 7120, a regulated developmental pattern of single heterocysts separated by about 10 to 20 photosyn- thetic vegetative cells is maintained along filaments. Heterocyst structure and metabolic activity function together to accommodate the oxygen-sensitive process of nitrogen fixation. This article focuses on recent research on heterocyst development, including morphogen- esis, transport of molecules between cells in a filament, differential gene expression, and pattern formation. rganisms composed of multiple differenti- Filaments are composed of only two cell types Oated cell types can possess structures, func- and these are arrayed in a one-dimensional tions, and behaviors that are more diverse and pattern similar to beads on a string (Figs. 1 efficient than those of unicellular organisms. and 2). Among multicellular prokaryotes, heterocyst- Many cyanobacterial species are capable of forming cyanobacteria offer an excellent model nitrogen fixation. However, oxygenic -
Ultradian Metabolic Rhythm in the Diazotrophic Cyanobacterium Cyanothece Sp
Ultradian metabolic rhythm in the diazotrophic cyanobacterium Cyanothece sp. ATCC 51142 a,1 a,b,1 a,c d a,e,2 Jan Cervený , Maria A. Sinetova , Luis Valledor , Louis A. Sherman , and Ladislav Nedbal aGlobal Change Research Centre–CzechGlobe, Academy of Sciences of the Czech Republic, 664 24 Drásov, Czech Republic; bLaboratory of Intracellular Regulation, Institute of Plant Physiology, Russian Academy of Sciences, Moscow 127276, Russia; cDepartment of Molecular Systems Biology, University of Vienna, A1090 Vienna, Austria; dDepartment of Biological Sciences, Purdue University, West Lafayette, IN 47907; and eSystems Biology Laboratory, Faculty of Informatics, Masaryk University, 602 00 Brno, Czech Republic Edited by Steven L. McKnight, The University of Texas Southwestern Medical Center, Dallas, TX, and approved June 26, 2013 (received for review January 31, 2013) The unicellular cyanobacterium Cyanothece sp. American Type Cul- particularly in organisms that do not sustain a stable temperature ture Collection (ATCC) 51142 is capable of performing oxygenic for their metabolism (11). photosynthesis during the day and microoxic nitrogen fixation In Cyanothece the kai genes exist in multiple copies (12), and at night. These mutually exclusive processes are possible only by the Kai proteins have not been studied in the detail achieved for temporal separation by circadian clock or another cellular pro- S. elongatus. The daily modulation of the metabolic activity and fi gram. We report identi cation of a temperature-dependent ultra- gene transcription, namely alternation of photosynthetic and N - dian metabolic rhythm that controls the alternating oxygenic and 2 fixation phases, has been attributed to the control by the circa- microoxic processes of Cyanothece sp.