J. Soppa

发表

Experimental Characterization of Cis-Acting Elements Important for Translation and Transcription in Halophilic Archaea

C. Lange, M. Brenneis, O. Hering, 2007, PLoS genetics.

d-Xylose Degradation Pathway in the Halophilic Archaeon Haloferax volcanii

U. Sauer, Tobias Fuhrer, J. Soppa, 2009, The Journal of Biological Chemistry.

DNA Microarray Analysis of the Central Carbohydrate Metabolism : 1 Glycolytic / Gluconeogenic Carbon Switch in the Hyperthermophilic Crenarchaeum 2 Thermoproteus tenax

R. Hensel, B. Siebers, J. Soppa, 2008 .

DNA Microarray Analysis of Central Carbohydrate Metabolism: Glycolytic/Gluconeogenic Carbon Switch in the Hyperthermophilic Crenarchaeum Thermoproteus tenax

R. Hensel, B. Siebers, J. Soppa, 2008, Journal of bacteriology.

Construction and usage of a onefold‐coverage shotgun DNA microarray to characterize the metabolism of the archaeon Haloferax volcanii

S. Schuster, J. Soppa, A. Zaigler, 2003, Molecular microbiology.

Halophilic Archaea Cultivated from Surface Sterilized Middle-Late Eocene Rock Salt Are Polyploid

Y. Liu, Hongling Ma, D. Bamford, 2014, PloS one.

Normalized nucleotide frequencies allow the definition of archaeal promoter elements for different archaeal groups and reveal base‐specific TFB contacts upstream of the TATA box

J. Soppa, 1999, Molecular microbiology.

Protein Acetylation in Archaea, Bacteria, and Eukaryotes

J. Soppa, 2010, Archaea.

Prokaryotic structural maintenance of chromosomes (SMC) proteins: distribution, phylogeny, and comparison with MukBs and additional prokaryotic and eukaryotic coiled-coil proteins.

J. Soppa, J Soppa, 2001, Gene.

From genomes to function: haloarchaea as model organisms.

J. Soppa, 2006, Microbiology.

Translational coupling via termination-reinitiation in archaea and bacteria

E. Koonin, Y. Wolf, Guilhem Faure, 2019, Nature Communications.

Diverse Functions of Small RNAs (sRNAs) in Halophilic Archaea: From Non-coding Regulatory sRNAs to Microprotein-Encoding sRNAs

J. Soppa, Jana Kliemt, 2017 .

Genome-wide analysis of growth phase-dependent translational and transcriptional regulation in halophilic archaea

S. Schuster, D. Oesterhelt, C. Lange, 2007, BMC Genomics.

Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and Archaea

K. Saxena, H. Schwalbe, A. Marchfelder, 2019, Chembiochem : a European journal of chemical biology.

Polyploidy in haloarchaea: advantages for growth and survival

J. Soppa, Karolin Zerulla, 2014, Front. Microbiol..

A Comprehensive Analysis of the Importance of Translation Initiation Factors for Haloferax volcanii Applying Deletion and Conditional Depletion Mutants

J. Soppa, S. Schulz, Katrin Gäbel, 2013, PloS one.

Ploidy and gene conversion in Archaea.

J. Soppa, 2011, Biochemical Society transactions.

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq)

Konrad U. Förstner, A. Marchfelder, A. Becker, 2016, BMC Genomics.

Archaea Employ Small RNAs as Regulators

A. Marchfelder, Dominik Jäger, J. Soppa, 2012 .

Bioinformatic prediction and experimental verification of sRNAs in the haloarchaeon Haloferax volcanii

A. Marchfelder, B. Tjaden, B. Voß, 2011, RNA biology.

Small RNAs in Haloarchaea: Identification, differential expression and biological function

A. Marchfelder, M. Brenneis, J. Soppa, 2009, RNA biology.

Genomics and functional genomics with haloarchaea

C. Lange, M. Brenneis, O. Hering, 2008, Archives of Microbiology.

A 2-oxoacid dehydrogenase complex of Haloferax volcanii is essential for growth on isoleucine but not on other branched-chain amino acids.

M. Oldiges, Jochem Gätgens, J. Soppa, 2010, Microbiology.

Polyploidy in Archaea and Bacteria: About Desiccation Resistance, Giant Cell Size, Long-Term Survival, Enforcement by a Eukaryotic Host and Additional Aspects

J. Soppa, 2015, Journal of Molecular Microbiology and Biotechnology.

Deletion of the Sm1 encoding motif in the lsm gene results in distinct changes in the transcriptome and enhanced swarming activity of Haloferax cells.

A. Marchfelder, A. Becker, R. Hilker, 2015, Biochimie.

Characterization of the transcriptome of Haloferax volcanii, grown under four different conditions, with mixed RNA-Seq

F. Pfeiffer, M. Hammelmann, K. Förstner, 2019, PloS one.

Functional Genomic and Advanced Genetic Studies Reveal Novel Insights into the Metabolism, Regulation, and Biology of Haloferax volcanii

J. Soppa, 2011, Archaea.

A 71-kDa protein from Halobacterium salinarium belongs to a ubiquitous P-loop ATPase superfamily with head-rod-tail structure

A. Ruepp, G. Wanner, J. Soppa, 1997, Archives of Microbiology.

The ploidy level of Synechocystis sp. PCC 6803 is highly variable and is influenced by growth phase and by chemical and physical external parameters.

J. Soppa, Karolin Zerulla, Katharina Ludt, 2016, Microbiology.

Ploidy in cyanobacteria.

C. Lange, J. Soppa, M. Griese, 2011, FEMS microbiology letters.

A Haloarchaeal Small Regulatory RNA (sRNA) Is Essential for Rapid Adaptation to Phosphate Starvation Conditions

J. Soppa, Jana Kliemt, Katharina Jaschinski, 2019, Front. Microbiol..

Genome Copy Numbers and Gene Conversion in Methanogenic Archaea

C. Lange, M. Rother, J. Soppa, 2010, Journal of bacteriology.

Properties of a mutant lactose carrier of Escherichia coli with a Cys148 → Ser148 substitution

H. Blöcker, J. Neuhaus, P. Overath, 1985, FEBS letters.

Microarray Analysis in the Archaeon Halobacterium salinarum Strain R1

D. Oesterhelt, F. Pfeiffer, A. Wende, 2007, PloS one.

Identification of NAD-RNAs and ADPR-RNA decapping in the archaeal model organisms Sulfolobus acidocaldarius and Haloferax volcanii

L. Randau, Katharina Höfer, A. Jäschke, 2022, bioRxiv.

Discovery of two novel families of proteins that are proposed to interact with prokaryotic SMC proteins, and characterization of the Bacillus subtilis family members ScpA and ScpB

D. Oesterhelt, E. Dervyn, S. Moriya, 2002, Molecular microbiology.

Functional Role for a 2-Oxo Acid Dehydrogenase in the Halophilic Archaeon Haloferax volcanii

J. Soppa, C. Wanner, 2002, Journal of bacteriology.

Haloferax volcanii Dehydrogenase in the Halophilic Archaeon Functional Role for a 2-Oxo Acid

J. Soppa, C. Wanner, 2002 .

Genetic identification of three ABC transporters as essential elements for nitrate respiration in Haloferax volcanii.

J. Soppa, C. Wanner, Christian Wanner, 1999, Genetics.

Differential stability of TATA box binding proteins from archaea with different optimal growth temperatures.

K. Hauser, J. Soppa, Carsten Krejtschi, 2009, Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy.

Basal and regulated transcription in archaea.

J. Soppa, 2001, Advances in applied microbiology.

Genome Copy Number Quantification Revealed That the Ethanologenic Alpha-Proteobacterium Zymomonas mobilis Is Polyploid

J. Soppa, Katsuya Fuchino, Daniel Wasser, 2021, Frontiers in Microbiology.

Role of aspartate-96 in proton translocation by bacteriorhodopsin.

B. Hess, D. Oesterhelt, K. Gerwert, 1989, Proceedings of the National Academy of Sciences of the United States of America.

High resolution 13C-solid state NMR of bacteriorhodopsin: assignment of specific aspartic acids and structural implications of single site mutations

B. Hess, M. Engelhard, D. Oesterhelt, 2004, European Biophysics Journal.

Bacteriorhodopsin mutants of Halobacterium sp. GRB. II. Characterization of mutants.

J. Otomo, D. Oesterhelt, J. Soppa, 1989, The Journal of biological chemistry.

Bacterioopsin, haloopsin, and sensory opsin I of the halobacterial isolate Halobacterium sp. strain SG1: three new members of a growing family

D. Oesterhelt, J. Soppa, J. Duschl, 1993, Journal of bacteriology.

Phenotyping in the archaea: optimization of growth parameters and analysis of mutants of Haloferax volcanii.

J. Soppa, Karolin Zerulla, Katharina Jantzer, 2011, FEMS microbiology letters.

Bacteriorhodopsin mutants of Halobacterium sp. GRB. I. The 5-bromo-2'-deoxyuridine selection as a method to isolate point mutants in halobacteria.

D. Oesterhelt, J. Soppa, 1989, The Journal of biological chemistry.

Identification of the enzyme responsible for N1-methylation of pseudouridine 54 in archaeal tRNAs.

J. Wöhnert, M. Karas, U. Bahr, 2012, RNA.

Small regulatory RNAs in Archaea

A. Marchfelder, R. Schmitz, L. Randau, 2014, RNA biology.

Exploring prokaryotic transcription, operon structures, rRNA maturation and modifications using Nanopore-based native RNA sequencing

Dina Grohmann, J. Soppa, R. Reichelt, 2019, bioRxiv.

Nanopore-based native RNA sequencing provides insights into prokaryotic transcription, operon structures, rRNA maturation and modifications

Dina Grohmann, J. Soppa, R. Reichelt, 2019 .

Transcription initiation in Archaea: facts, factors and future aspects

J. Soppa, J Soppa, 1999, Molecular microbiology.

Polyploidy in halophilic archaea: regulation, evolutionary advantages, and gene conversion.

J. Soppa, Katharina Ludt, 2019, Biochemical Society transactions.

Global Analysis of mRNA Decay in Halobacterium salinarum NRC-1 at Single-Gene Resolution Using DNA Microarrays

C. Lange, G. Klug, J. Soppa, 2007, Journal of bacteriology.

Regulated Polyploidy in Halophilic Archaea

T. Allers, J. Soppa, Gabi Spohn, 2006, PloS one.

Cell cycle‐dependent expression of an essential SMC‐like protein and dynamic chromosome localization in the archaeon Halobacterium salinarum

J. Soppa, U. Herrmann, 2002, Molecular microbiology.

Characterization of Non-selected Intermolecular Gene Conversion in the Polyploid Haloarchaeon Haloferax volcanii

J. Soppa, Mathias Hammelmann, Katharina Ludt, 2021, Frontiers in Microbiology.

Gene conversion results in the equalization of genome copies in the polyploid haloarchaeon Haloferax volcanii

C. Lange, J. Soppa, Karolin Zerulla, 2011, Molecular microbiology.

High throughput sequencing reveals a plethora of small RNAs including tRNA derived fragments in Haloferax volcanii

Anita Marchfelder, A. Marchfelder, J. Soppa, 2012, RNA biology.

Small RNAs of the halophilic archaeon Haloferax volcanii.

Anita Marchfelder, Brian Tjaden, Wolfgang R Hess, 2009, Biochemical Society transactions.

Generation and Phenotyping of a Collection of sRNA Gene Deletion Mutants of the Haloarchaeon Haloferax volcanii

A. Marchfelder, J. Soppa, J. Benz, 2014, PloS one.

Biological functions, genetic and biochemical characterization, and NMR structure determination of the small zinc finger protein HVO_2753 from Haloferax volcanii

K. Saxena, H. Schwalbe, A. Tholey, 2020, The FEBS journal.

Several One-Domain Zinc Finger µ-Proteins of Haloferax Volcanii Are Important for Stress Adaptation, Biofilm Formation, and Swarming

J. Soppa, Sebastian Zahn, Chantal Nagel, 2019, Genes.

Bioinformatic and genetic characterization of three genes localized adjacent to the major replication origin of Haloferax volcanii.

F. Pfeiffer, J. Soppa, Maike Wolters, 2019, FEMS microbiology letters.

Characterization of a tightly controlled promoter of the halophilic archaeon Haloferax volcanii and its use in the analysis of the essential cct1 gene

C. Lange, P. Lund, T. Allers, 2007, Molecular microbiology.

Transcriptome changes and cAMP oscillations in an archaeal cell cycle

C. Lange, J. Soppa, A. Baumann, 2007, BMC Cell Biology.

Quantification of Ploidy in Proteobacteria Revealed the Existence of Monoploid, (Mero-)Oligoploid and Polyploid Species

C. Lange, J. Soppa, Karolin Zerulla, 2011, PloS one.

The TATA-box-binding protein (TBP) of Halobacterium salinarum. Cloning of the tbp gene, heterologous production of TBP and folding of TBP into a native conformation.

J. Soppa, T. Link, 1997, European journal of biochemistry.

Elucidation of the Translation Initiation Factor Interaction Network of Haloferax volcanii Reveals Coupling of Transcription and Translation in Haloarchaea

U. Linne, J. Soppa, Andreas Borst, 2021, Frontiers in Microbiology.

Extensive proteolysis inhibits high-level production of eukaryal G protein-coupled receptors in the archaeon Haloferax volcanii.

N. Patenge, J. Soppa, 1999, FEMS microbiology letters.

Haloferax volcanii, a Prokaryotic Species that Does Not Use the Shine Dalgarno Mechanism for Translation Initiation at 5′-UTRs

F. Pfeiffer, J. Soppa, Piet Kramer, 2014, PloS one.

Regulated ploidy of Bacillus subtilis and three new isolates of Bacillus and Paenibacillus

J. Soppa, Karolin Zerulla, Katharina Ludt, 2018, FEMS microbiology letters.

Effects of Kasugamycin on the Translatome of Escherichia coli

V. Wendisch, C. Lange, J. Schweitzer, 2017, PloS one.

Cell cycle‐dependent localization of two novel prokaryotic chromosome segregation and condensation proteins in Bacillus subtilis that interact with SMC protein

A. Strunnikov, P. Graumann, J. Soppa, 2002, The EMBO journal.

Regulated Iron Siderophore Production of the Halophilic Archaeon Haloferax volcanii

J. Soppa, N. Niessen, Natalie M. Niessen, 2020, Biomolecules.

Glycerol-3-phosphate dehydrogenase (GlpD) reporter enzyme assay for Escherichia coli

J. Soppa, M. Huber, 2019 .

Beta-Glucuronidase (GusA) reporter enzyme assay for Escherichia coli

J. Soppa, M. Huber, 2019 .

Quantification of Translation efficiencies

J. Soppa, M. Huber, 2019 .

The glpD gene is a novel reporter gene for E. coli that is superior to established reporter genes like lacZ and gusA.

J. Soppa, K. Vogtmann, M. Huber, 2016, Journal of microbiological methods.

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq)

A. Marchfelder, A. Becker, F. Pfeiffer, 2016, BMC Genomics.

Regulation of Translation in Haloarchaea: 5′- and 3′-UTRs Are Essential and Have to Functionally Interact In Vivo

M. Brenneis, J. Soppa, Mariam Brenneis, 2009, PloS one.

Non-equivalent genomes in polyploid prokaryotes

J. Soppa, 2021, Nature Microbiology.

A novel mechanism for translation initiation operates in haloarchaea

B. Suess, M. Brenneis, O. Hering, 2009, Molecular microbiology.

The Archaeal Lsm Protein Binds to Small RNAs*

A. Marchfelder, H. Urlaub, T. Allers, 2010, The Journal of Biological Chemistry.

Initiation and Regulation of Translation in Halophilic Archaea

J. Soppa, 2011 .

Compilation of Halobacterial Protein Coding Genes, the Halobacterial Codon Usage Table and its Use

J. Soppa, 1993 .

Nitrogen regulation of protein–protein interactions and transcript levels of GlnK PII regulator and AmtB ammonium transporter homologs in Archaea

C. Lange, M. Bonete, J. Maupin-Furlow, 2013, MicrobiologyOpen.

Influence of Origin Recognition Complex Proteins on the Copy Numbers of Three Chromosomes in Haloferax volcanii

J. Soppa, Katharina Ludt, 2018, Journal of bacteriology.

Characterization of Copy Number Control of Two Haloferax volcanii Replication Origins Using Deletion Mutants and Haloarchaeal Artificial Chromosomes

J. Soppa, Katharina Ludt, S. Maurer, 2017, Journal of bacteriology.

DNA as a Phosphate Storage Polymer and the Alternative Advantages of Polyploidy for Growth or Survival

U. Gophna, R. Papke, J. Soppa, 2014, PloS one.

Three 2-oxoacid dehydrogenase operons in Haloferax volcanii: expression, deletion mutants and evolution.

J. Soppa, Jan van Ooyen, 2007, Microbiology.

Evolutionary advantages of polyploidy in halophilic archaea.

J. Soppa, 2013, Biochemical Society transactions.

Expression of β2-adrenoceptors in halobacteria

D. Oesterhelt, M. Lohse, J. Soppa, 1997, Naunyn-Schmiedeberg's Archives of Pharmacology.

Characterization of a Haloferax volcanii member of the enolase superfamily: deletion mutant construction, expression analysis, and transcriptome comparison

J. Soppa, M. Dambeck, Michael Dambeck, 2008, Archives of Microbiology.

Regulatory RNAs in Haloferax volcanii.

A. Marchfelder, S. Fischer, Lisa-Katharina Maier, 2011, Biochemical Society transactions.

Key Enzymes of the Semiphosphorylative Entner-Doudoroff Pathway in the Haloarchaeon Haloferax volcanii: Characterization of Glucose Dehydrogenase, Gluconate Dehydratase, and 2-Keto-3-Deoxy-6-Phosphogluconate Aldolase

J. Soppa, P. Schönheit, Julia-Beate Tästensen, 2016, Journal of bacteriology.

Optimized generation of vectors for the construction of Haloferax volcanii deletion mutants.

M. Hammelmann, J. Soppa, 2008, Journal of microbiological methods.

Two hypotheses ‐ one answer

J. Soppa, Jörg Soppa, 1994, FEBS letters.

Optimization of the 5-bromo-2'-deoxyuridine selection and its application for the isolation of nitrate respiration-deficient mutants of Haloferax volcanii

J. Soppa, 1998 .

Lactose permease of Escherichia coli: properties of mutants defective in substrate translocation.

R. Seckler, B. Müller-Hill, J. Neuhaus, 1987, Proceedings of the National Academy of Sciences of the United States of America.

Halobacterium sp. GRB: a species to work with!?

D. Oesterhelt, J. Soppa, 1989, Canadian journal of microbiology.

Characterization of the distal promoter element of halobacteria in vivo using saturation mutagenesis and selection

J. Soppa, S. Danner, Jörg Soppa, 1996, Molecular microbiology.

From replication to cultivation: hot news from Haloarchaea.

J. Soppa, 2005, Current opinion in microbiology.

Evolution in the laboratory: the genome of Halobacterium salinarum strain R1 compared to that of strain NRC-1.

F Pfeiffer, S. Schuster, D. Oesterhelt, 2008, Genomics.

Fermentative arginine degradation in Halobacterium salinarium (formerly Halobacterium halobium): genes, gene products, and transcripts of the arcRACB gene cluster

A. Ruepp, J. Soppa, J. Soppa, 1996, Journal of bacteriology.

Analysis of a hybrid TATA box binding protein originating from mesophilic and thermophilic donor organisms

K. Hauser, J. Soppa, Annette Kopitz, 2010 .

The ploidy level of Synechocystis sp. PCC 6803 is highly variable and is influenced by growth phase and by chemical and physical external parameters.

J. Soppa, Karolin Zerulla, Katharina Ludt, 2016, Microbiology.

Ploidy in Vibrio natriegens: Very Dynamic and Rapidly Changing Copy Numbers of Both Chromosomes

J. Soppa, Daniel Wasser, Patrik Brück, 2023, Genes.

Unidirectional gene pairs in archaea and bacteria require overlaps or very short intergenic distances for translational coupling via termination-reinitiation and often encode subunits of heteromeric complexes

Y. Wolf, F. Pfeiffer, S. Karamycheva, 2023, Frontiers in microbiology.

Identification of NAD-RNA species and ADPR-RNA decapping in Archaea

Katharina Höfer, A. Jäschke, J. Gomes-Filho, 2023, Nature communications.

The Archaeal Lsm Protein Binds to Small RNAs*

A. Marchfelder, H. Urlaub, T. Allers, 2010, The Journal of Biological Chemistry.