Genome assembly and annotation of Photorhabdus heterorhabditis strain ETL reveals genetic features involved in pathogenicity with its associated entomopathogenic nematode and anti-host effectors with biocontrol potential applications.

[1]  Sanjay Kumar.  Mass Production , 2021, Additive Manufacturing Solutions.

[2]  M. H. Serepa-Dlamini,et al.  Molecular identification of a Heterorhabditis entomopathogenic nematode isolated from the northernmost region of South Africa , 2020, Egyptian Journal of Biological Pest Control.

[3]  Javad Karimi,et al.  Molecular characterizations of the entomopathogenic nematodes, Heterorhabditis bacteriophora and Oscheius myriophilus from Iraq , 2019, Egyptian Journal of Biological Pest Control.

[4]  J. Setubal,et al.  Serratia liquefaciens FG3 isolated from a metallophyte plant sheds light on the evolution and mechanisms of adaptive traits in extreme environments , 2019, Scientific Reports.

[5]  Zhiqiang Yan,et al.  Nematophin, an Antimicrobial Dipeptide Compound From Xenorhabdus nematophila YL001 as a Potent Biopesticide for Rhizoctonia solani Control , 2019, Front. Microbiol..

[6]  Jan P. Meier-Kolthoff,et al.  TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy , 2019, Nature Communications.

[7]  R. Heermann,et al.  Regulation of Phenotypic Switching and Heterogeneity in Photorhabdus luminescens Cell Populations. , 2019, Journal of molecular biology.

[8]  L. Wackett,et al.  Biosynthesis and chemical diversity of β-lactone natural products. , 2019, Natural product reports.

[9]  H. Bode,et al.  Dual phenazine gene clusters enable diversification during biosynthesis , 2019, Nature Chemical Biology.

[10]  Daniel Gautheret,et al.  CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins , 2018, Nucleic Acids Res..

[11]  Marius van den Beek,et al.  The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update , 2018, Nucleic Acids Res..

[12]  S. Moore,et al.  Microbial control of phytophagous invertebrate pests in South Africa: Current status and future prospects. , 2018, Journal of invertebrate pathology.

[13]  Wen J. Li,et al.  RefSeq: an update on prokaryotic genome annotation and curation , 2017, Nucleic Acids Res..

[14]  M. Rodríguez-Bocanegra,et al.  Photorhabdus luminescens subsp. akhurstii SL0708 pathogenicity in Spodoptera frugiperda (Lepidoptera: Noctuidae) and Galleria mellonella (Lepidoptera: Pyralidae) , 2017 .

[15]  Sarah E Ongley,et al.  Directing the Heterologous Production of Specific Cyanobacterial Toxin Variants. , 2017, ACS chemical biology.

[16]  Matthew R. Laird,et al.  IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets , 2017, Nucleic Acids Res..

[17]  H. Adihou,et al.  Biosynthesis of the Antibiotic Nematophin and Its Elongated Derivatives in Entomopathogenic Bacteria. , 2017, Organic letters.

[18]  W. Thomas,et al.  Introduction to Nematode Genome and Transcriptome Announcements in the Journal of Nematology , 2017, Journal of nematology.

[19]  A. Dillman,et al.  Genomics of Entomopathogenic Nematodes and Implications for Pest Control. , 2016, Trends in parasitology.

[20]  Eric P. Nawrocki,et al.  NCBI prokaryotic genome annotation pipeline , 2016, Nucleic acids research.

[21]  V. Ramakrishnan,et al.  Ribosome-dependent activation of stringent control , 2016, Nature.

[22]  B. Adams,et al.  Evolution of virulence in Photorhabdus spp., entomopathogenic nematode symbionts. , 2016, Systematic and applied microbiology.

[23]  K. Gerdes,et al.  Alarmone (p)ppGpp regulates the transition from pathogenicity to mutualism in Photorhabdus luminescens , 2016, Molecular microbiology.

[24]  Alexander Goesmann,et al.  EDGAR 2.0: an enhanced software platform for comparative gene content analyses , 2016, Nucleic Acids Res..

[25]  J. Chun,et al.  OrthoANI: An improved algorithm and software for calculating average nucleotide identity. , 2016, International journal of systematic and evolutionary microbiology.

[26]  A. Fenton,et al.  “Parasite-induced aposematism” protects entomopathogenic nematode parasites against invertebrate enemies , 2015, Behavioral ecology : official journal of the International Society for Behavioral Ecology.

[27]  Paul W. Sternberg,et al.  Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks , 2015, Genome Biology.

[28]  D. Shapiro-Ilan,et al.  Viability and Virulence of Entomopathogenic Nematodes Exposed to Ultraviolet Radiation. , 2015, Journal of nematology.

[29]  Michael L. Menefee,et al.  Photorhabdus Luminescens: Virulent Properties and Agricultural Applications , 2015 .

[30]  J. Terblanche,et al.  Divergent thermal specialisation of two South African entomopathogenic nematodes , 2015, PeerJ.

[31]  V. Hauryliuk,et al.  From (p)ppGpp to (pp)pGpp: Characterization of Regulatory Effects of pGpp Synthesized by the Small Alarmone Synthetase of Enterococcus faecalis , 2015, Journal of bacteriology.

[32]  Kai Blin,et al.  antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters , 2015, Nucleic Acids Res..

[33]  Tanel Tenson,et al.  Recent functional insights into the role of (p)ppGpp in bacterial physiology , 2015, Nature Reviews Microbiology.

[34]  Fangfang Xia,et al.  RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes , 2015, Scientific Reports.

[35]  A. Gaca,et al.  Many Means to a Common End: the Intricacies of (p)ppGpp Metabolism and Its Control of Bacterial Homeostasis , 2015, Journal of bacteriology.

[36]  S. Stock,et al.  Diversity, Biology and Evolutionary Relationships , 2015 .

[37]  Hervé Ménager,et al.  MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems , 2014, PloS one.

[38]  H. Bode,et al.  Yeast Homologous Recombination Cloning Leading to the Novel Peptides Ambactin and Xenolindicin , 2014, Chembiochem : a European journal of chemical biology.

[39]  Trevor C. Charles,et al.  A bioinformatics approach to the determination of genes involved in endophytic behavior in Burkholderia spp. , 2014, Journal of theoretical biology.

[40]  F. Albericio,et al.  Thiopeptide Antibiotics: Retrospective and Recent Advances , 2014, Marine drugs.

[41]  J. Crawford,et al.  Merging chemical ecology with bacterial genome mining for secondary metabolite discovery , 2014, Journal of Industrial Microbiology & Biotechnology.

[42]  Marcel Kaiser,et al.  Structure and biosynthesis of xenoamicins from entomopathogenic Xenorhabdus. , 2013, Chemistry.

[43]  A. Butler,et al.  Turnerbactin, a Novel Triscatecholate Siderophore from the Shipworm Endosymbiont Teredinibacter turnerae T7901 , 2013, PloS one.

[44]  Paul W. Sternberg,et al.  ScholarWorks @ UTRGV ScholarWorks @ UTRGV A Lover and a Fighter: The Genome Sequence of an A Lover and a Fighter: The Genome Sequence of an Entomopathogenic Nematode Heterorhabditis bacteriophora Entomopathogenic Nematode Heterorhabditis bacteriophora , 2022 .

[45]  T. Steitz,et al.  The mechanism of E. coli RNA polymerase regulation by ppGpp is suggested by the structure of their complex. , 2013, Molecular cell.

[46]  R. Gourse,et al.  The magic spot: a ppGpp binding site on E. coli RNA polymerase responsible for regulation of transcription initiation. , 2013, Molecular cell.

[47]  Alexey A. Gurevich,et al.  QUAST: quality assessment tool for genome assemblies , 2013, Bioinform..

[48]  Floyd L. Inman,et al.  MASS PRODUCTION OF THE BENEFICIAL NEMATODE STEINERNEMA CARPOCAPSAE UTILIZING A FED-BATCH CULTURING PROCESS , 2013 .

[49]  Stefan Raunser,et al.  A syringe-like injection mechanism in Photorhabdus luminescens toxins , 2013, Nature.

[50]  S. Døskeland,et al.  Anti-microbial and cytotoxic 1,6-dihydroxyphenazine-5,10-dioxide (iodinin) produced by Streptosporangium sp. DSM 45942 isolated from the fjord sediment , 2013, Applied Microbiology and Biotechnology.

[51]  D. Haas,et al.  ppGpp controlled by the Gac/Rsm regulatory pathway sustains biocontrol activity in Pseudomonas fluorescens CHA0. , 2012, Molecular plant-microbe interactions : MPMI.

[52]  M. Karas,et al.  Neutral loss fragmentation pattern based screening for arginine-rich natural products in Xenorhabdus and Photorhabdus. , 2012, Analytical chemistry.

[53]  Alexander R. Martin,et al.  A Single Promoter Inversion Switches Photorhabdus Between Pathogenic and Mutualistic States , 2012, Science.

[54]  M. Roeffaers,et al.  Small molecule perimeter defense in entomopathogenic bacteria , 2012, Proceedings of the National Academy of Sciences.

[55]  P. Sternberg,et al.  Entomopathogenic nematodes , 2012, Current Biology.

[56]  Rolf Müller,et al.  Full-length RecE enhances linear-linear homologous recombination and facilitates direct cloning for bioprospecting , 2012, Nature Biotechnology.

[57]  I. Schmitt,et al.  Triggering the production of the cryptic blue pigment indigoidine from Photorhabdus luminescens. , 2012, Journal of biotechnology.

[58]  S. Reynolds,et al.  Insect immune responses to nematode parasites. , 2011, Trends in parasitology.

[59]  Natalia N. Ivanova,et al.  Complete genome sequence of Arthrobacter phenanthrenivorans type strain (Sphe3) , 2011, Standards in genomic sciences.

[60]  A. Fenton,et al.  Parasite-induced warning coloration: a novel form of host manipulation , 2011, Animal Behaviour.

[61]  R. ffrench-Constant,et al.  Dissecting the immune response to the entomopathogen Photorhabdus. , 2010, Trends in microbiology.

[62]  V. Marmaras,et al.  Insect immunity and its signalling: an overview , 2010 .

[63]  Todd A. Ciche,et al.  Photorhabdus phase variants express a novel fimbrial locus, mad, essential for symbiosis , 2010, Molecular microbiology.

[64]  J. Crawford,et al.  Exploiting a global regulator for small molecule discovery in Photorhabdus luminescens. , 2010, ACS chemical biology.

[65]  C. Constantinidou,et al.  YieJ (CbrC) Mediates CreBC-Dependent Colicin E2 Tolerance in Escherichia coli , 2010, Journal of bacteriology.

[66]  L. Pierson,et al.  Metabolism and function of phenazines in bacteria: impacts on the behavior of bacteria in the environment and biotechnological processes , 2010, Applied Microbiology and Biotechnology.

[67]  Hans-Peter Klenk,et al.  Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs , 2010, Standards in genomic sciences.

[68]  J. Crawford,et al.  Regulating Alternative Lifestyles in Entomopathogenic Bacteria , 2010, Current Biology.

[69]  B. Bassler,et al.  Bacterial quorum-sensing network architectures. , 2009, Annual review of genetics.

[70]  D. Clarke,et al.  Photorhabdus and a host of hosts. , 2009, Annual review of microbiology.

[71]  W. Piepersberg,et al.  Enzymology of aminoglycoside biosynthesis-deduction from gene clusters. , 2009, Methods in enzymology.

[72]  L. Cerenius,et al.  The proPO-system: pros and cons for its role in invertebrate immunity. , 2008, Trends in immunology.

[73]  A. Danchin,et al.  Regulatory role of UvrY in adaptation of Photorhabdus luminescens growth inside the insect. , 2008, Environmental microbiology.

[74]  H. Bode,et al.  Bacterial biosynthesis of a multipotent stilbene. , 2008, Angewandte Chemie.

[75]  Rick L. Stevens,et al.  The RAST Server: Rapid Annotations using Subsystems Technology , 2008, BMC Genomics.

[76]  M. Bibb,et al.  The global role of ppGpp synthesis in morphological differentiation and antibiotic production in Streptomyces coelicolor A3(2) , 2007, Genome Biology.

[77]  Ibtissem Grissa,et al.  CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats , 2007, Nucleic Acids Res..

[78]  J. Pincemail,et al.  [Oxidative stress]. , 2007, Revue medicale de Liege.

[79]  C. Buchrieser,et al.  Specific regions of genome plasticity and genetic diversity of the commensal Escherichia coli A0 34/86. , 2006, International journal of medical microbiology : IJMM.

[80]  Shi-zhong Liang,et al.  Nutritive significance of crystalline inclusion proteins of Photorhabdus luminescens in Steinernema nematodes. , 2006, FEMS microbiology ecology.

[81]  K. Nguyen,et al.  Entomopathogenic nematodes (Steinernematidae and Heterorhabditidae) from the southwestern parts of South Africa , 2006 .

[82]  R. Ehlers,et al.  Genetic Selection for Heat Tolerance and Low Temperature Activity of the Entomopathogenic Nematode–bacterium Complex Heterorhabditis Bacteriophora–Photorhabdus Luminescens , 2005, BioControl.

[83]  W. Goebel,et al.  A Multidomain Fusion Protein in Listeria monocytogenes Catalyzes the Two Primary Activities for Glutathione Biosynthesis , 2005, Journal of bacteriology.

[84]  G. Klug,et al.  The Glutathione-Glutaredoxin System in Rhodobacter capsulatus: Part of a Complex Regulatory Network Controlling Defense against Oxidative Stress , 2004, Journal of bacteriology.

[85]  A. Holmgren,et al.  Glutaredoxins: glutathione-dependent redox enzymes with functions far beyond a simple thioredoxin backup system. , 2004, Antioxidants & redox signaling.

[86]  A. Danchin,et al.  The PhoP-PhoQ Two-Component Regulatory System of Photorhabdus luminescens Is Essential for Virulence in Insects , 2004, Journal of bacteriology.

[87]  A. Danchin,et al.  The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens , 2003, Nature Biotechnology.

[88]  J. Carney,et al.  Photobactin: a Catechol Siderophore Produced by Photorhabdus luminescens, an Entomopathogen Mutually Associated with Heterorhabditis bacteriophora NC1 Nematodes , 2003, Applied and Environmental Microbiology.

[89]  D. Clarke,et al.  A hexA homologue from Photorhabdus regulates pathogenicity, symbiosis and phenotypic variation , 2003, Molecular microbiology.

[90]  M. Vaneechoutte,et al.  Exogenous Glutathione Completes the Defense against Oxidative Stress in Haemophilus influenzae , 2003, Journal of bacteriology.

[91]  R. ffrench-Constant,et al.  Photorhabdus: towards a functional genomic analysis of a symbiont and pathogen. , 2003, FEMS microbiology reviews.

[92]  V. Gladyshev,et al.  CxxS: Fold‐independent redox motif revealed by genome‐wide searches for thiol/disulfide oxidoreductase function , 2002, Protein science : a publication of the Protein Society.

[93]  R. ffrench-Constant,et al.  The lumicins: novel bacteriocins from Photorhabdus luminescens with similarity to the uropathogenic-specific protein (USP) from uropathogenic Escherichia coli. , 2002, FEMS Microbiology Letters.

[94]  A. Danchin,et al.  Identification, Characterization, and Regulation of a Cluster of Genes Involved in Carbapenem Biosynthesis in Photorhabdus luminescens , 2002, Applied and Environmental Microbiology.

[95]  M. Valens,et al.  A zinc metalloprotease inhibitor, Inh, from the insect pathogen Photorhabdus luminescens. , 2002, Microbiology.

[96]  F. Kunst,et al.  The PhlA Hemolysin from the Entomopathogenic Bacterium Photorhabdusluminescens Belongs to the Two-Partner Secretion Family of Hemolysins , 2002, Journal of bacteriology.

[97]  J. Vanderleyden,et al.  O-antigen structural variation: mechanisms and possible roles in animal/plant-microbe interactions. , 2001, FEMS microbiology reviews.

[98]  J. Ensign,et al.  Isolation and Characterization of Intracellular Protein Inclusions Produced by the Entomopathogenic BacteriumPhotorhabdus luminescens , 2001, Applied and Environmental Microbiology.

[99]  M. Brehélin,et al.  Two Distinct Hemolytic Activities inXenorhabdus nematophila Are Active against Immunocompetent Insect Cells , 2001, Applied and Environmental Microbiology.

[100]  A. Horswill,et al.  A Phosphopantetheinyl Transferase Homolog Is Essential for Photorhabdus luminescens To Support Growth and Reproduction of the Entomopathogenic NematodeHeterorhabditis bacteriophora , 2001, Journal of bacteriology.

[101]  L. Burrows,et al.  Functional analysis of genes responsible for the synthesis of the B-band O antigen of Pseudomonas aeruginosa serotype O6 lipopolysaccharide. , 1999, Microbiology.

[102]  L. Burrows,et al.  Genetics of O-Antigen Biosynthesis inPseudomonas aeruginosa , 1999, Microbiology and Molecular Biology Reviews.

[103]  R. Gaugler,et al.  Thermal response of Heterorhabditis bacteriophora transformed with the Caenorhabditis elegans hsp70 encoding gene. , 1998, The Journal of experimental zoology.

[104]  V. Spaull.  On the use of a methylcellulose polymer to increase the effectiveness of a Heterorhabditis species against the sugarcane stalk borer, Eldana saccharina , 1992 .

[105]  E. Meighen.  Molecular biology of bacterial bioluminescence , 1991 .

[106]  G. F. White.  A METHOD FOR OBTAINING INFECTIVE NEMATODE LARVAE FROM CULTURES. , 1927, Science.