Fredrik Söderbom

Multi-omics analysis of aggregative multicellularity

Edelbroek, Bart; Orzechowski Westholm, Jakub; Bergquist, Jonas; Söderbom, Fredrik

Part of iScience, 2024

• DOI for Multi-omics analysis of aggregative multicellularity
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Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis  

Edelbroek, Bart; Kjellin, Jonas; Jerlström-Hultqvist, Jon; Koskiniemi, Sanna et al.

Part of Scientific Data, 2024

• DOI for Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis  
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ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis

Bergman, Sofia; Andresen, Liis; Kjellin, Jonas; Burgo, Yolanda Martinez et al.

Part of mSphere, 2024

• DOI for ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis
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Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity

Edelbroek, Bart; Kjellin, Jonas; Biryukova, Inna; Liao, Zhen et al.

Part of Nucleic Acids Research, p. 3121-3136, 2024

• DOI for Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity
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Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa

Diesend, Jan; Birkedal, Ulf; Kjellin, Jonas; Zhang, Jingwen et al.

Part of Scientific Reports, 2022

• DOI for Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa
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Multi-omics analysis of aggregative multicellularity

Edelbroek, Bart; Orzechowski Westholm, Jakub; Bergquist, Jonas; Söderbom, Fredrik

Part of iScience, 2024

• DOI for Multi-omics analysis of aggregative multicellularity
• Download full text (pdf) of Multi-omics analysis of aggregative multicellularity

Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis  

Edelbroek, Bart; Kjellin, Jonas; Jerlström-Hultqvist, Jon; Koskiniemi, Sanna et al.

Part of Scientific Data, 2024

• DOI for Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis  
• Download full text (pdf) of Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis  

ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis

Bergman, Sofia; Andresen, Liis; Kjellin, Jonas; Burgo, Yolanda Martinez et al.

Part of mSphere, 2024

• DOI for ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis
• Download full text (pdf) of ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis

Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity

Edelbroek, Bart; Kjellin, Jonas; Biryukova, Inna; Liao, Zhen et al.

Part of Nucleic Acids Research, p. 3121-3136, 2024

• DOI for Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity
• Download full text (pdf) of Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity

Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa

Diesend, Jan; Birkedal, Ulf; Kjellin, Jonas; Zhang, Jingwen et al.

Part of Scientific Reports, 2022

• DOI for Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa
• Download full text (pdf) of Fractional 2 '-O-methylation in the ribosomal RNA of Dictyostelium discoideum supports ribosome heterogeneity in Amoebozoa

Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas

Kjellin, Jonas; Avesson, Lotta; Reimegård, Johan; Liao, Zhen et al.

Part of Genome Research, p. 436-447, 2021

• DOI for Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas
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Saturation mutagenesis charts the functional landscape of Salmonella ProQ and reveals a gene regulatory function of its C-terminal domain

Rizvanovic, Alisa; Kjellin, Jonas; Söderbom, Fredrik; Holmqvist, Erik

Part of Nucleic Acids Research, p. 9992-10006, 2021

• DOI for Saturation mutagenesis charts the functional landscape of Salmonella ProQ and reveals a gene regulatory function of its C-terminal domain
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Investigation of the host transcriptional response to intracellular bacterial infection using Dictyostelium discoideum as a host model

Kjellin, Jonas; Pränting, Maria; Bach, Frauke; Vaid, Roshan et al.

Part of BMC Genomics, 2019

• DOI for Investigation of the host transcriptional response to intracellular bacterial infection using Dictyostelium discoideum as a host model
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Global characterization of the Dicer-like protein DrnB roles in miRNA biogenesis in the social amoeba Dictyostelium discoideum

Liao, Zhen; Kjellin, Jonas; Höppner, Marc P.; Grabherr, Manfred et al.

Part of RNA Biology, p. 937-954, 2018

• DOI for Global characterization of the Dicer-like protein DrnB roles in miRNA biogenesis in the social amoeba Dictyostelium discoideum
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A host factor supports retrotransposition of the TRE5-A population in Dictyostelium cells by suppressing an Argonaute protein

Schmith, Anika; Spaller, Thomas; Gaube, Friedemann; Fransson, Asa et al.

Part of Mobile DNA, 2015

• DOI for A host factor supports retrotransposition of the TRE5-A population in Dictyostelium cells by suppressing an Argonaute protein
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The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals

Wiegand, Stephan; Meier, Doreen; Seehafer, Carsten; Malicki, Marek et al.

Part of Nucleic Acids Research, p. 3330-3345, 2014

• DOI for The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals

A Rare Combination of Ribonucleotide Reductases in the Social Amoeba Dictyostelium discoideum

Crona, Mikael; Avesson, Lotta; Sahlin, Margareta; Lundin, Daniel et al.

Part of Journal of Biological Chemistry, p. 8198-208, 2013

• DOI for A Rare Combination of Ribonucleotide Reductases in the Social Amoeba Dictyostelium discoideum

Evidence for Small RNAs Homologous to Effector-Encoding Genes and Transposable Elements in the Oomycete Phytophthora infestans

Vetukuri, Ramesh R.; Asman, Anna K. M.; Tellgren-Roth, Christian; Jahan, Sultana N. et al.

Part of PLOS ONE, 2012

• DOI for Evidence for Small RNAs Homologous to Effector-Encoding Genes and Transposable Elements in the Oomycete Phytophthora infestans
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MicroRNAs in Amoebozoa: Deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs

Avesson, Lotta; Reimegård, Johan; Wagner, Gerhart Eduard Heinrich; Söderbom, Fredrik

Part of RNA, p. 1771-1782, 2012

• DOI for MicroRNAs in Amoebozoa: Deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs

Sequence and generation of mature ribosomal RNA transcripts in Dictyostelium discoideum

Boesler, Carsten; Kruse, Janis; Söderbom, Fredrik; Hammann, Christian

Part of Journal of Biological Chemistry, p. 17693-17703, 2011

• DOI for Sequence and generation of mature ribosomal RNA transcripts in Dictyostelium discoideum

Characterization of a REG/PA28 proteasome activator homolog in Dictyostelium discoideum indicates that the ubiquitin- and ATP-independent REGgamma proteasome is an ancient nuclear protease

Masson, Patrick; Lundin, Daniel; Söderbom, Fredrik; Young, Patrick

Part of Eukaryotic Cell, p. 844-851, 2009

• DOI for Characterization of a REG/PA28 proteasome activator homolog in Dictyostelium discoideum indicates that the ubiquitin- and ATP-independent REGgamma proteasome is an ancient nuclear protease

Treasure hunt in an amoeba: non-coding RNAs in Dictyostelium discoideum.

Hinas, Andrea; Söderbom, Fredrik

Part of Current Genetics, p. 141-159, 2007

• DOI for Treasure hunt in an amoeba: non-coding RNAs in Dictyostelium discoideum.

Dictyostelium discoideum salvages purine deoxyribonucleosides by highly specific bacterial-like deoxyribonucleoside kinases

Sandrini, Michael Paolo Bastner; Söderbom, Fredrik; Mikkelsen, Nils Egil; Piskur, Jure

Part of Journal of Molecular Biology, p. 653-664, 2007

• DOI for Dictyostelium discoideum salvages purine deoxyribonucleosides by highly specific bacterial-like deoxyribonucleoside kinases

HelF, a putative RNA helicase acts as a nuclear suppressor of RNAi but not antisense mediated gene silencing

Popova, Blagovesta; Kuhlmann, Markus; Hinas, Andrea; Söderbom, Fredrik et al.

Part of Nucleic Acids Research, p. 773-784, 2006

• DOI for HelF, a putative RNA helicase acts as a nuclear suppressor of RNAi but not antisense mediated gene silencing

RNase E cleavage in the 5' leader of a tRNA precursor.

Söderbom, Fredrik; Svärd, Staffan G; Kirsebom, Leif A

Part of J Mol Biol, p. 22-7, 2005

Requirements for the adenylyl cyclases in the development of Dictyostelium

Anjard, Christophe; Söderbom, Fredrik; Loomis, William F

Part of Development, p. 3649-3654, 2001

SDF-2 induction of terminal differentiation in Dictyostelium discoideum is mediated by the membrane-spanning sensor kinase DhkA.

Wang, Nancy; Söderbom, Fredrik; Anjard, Christophe; Shaulsky, Gad et al.

Part of Molecular and Cellular Biology, p. 4750-4756, 1999

An adenylyl cyclase that functions during late development of Dictyostelium

Söderbom, Fredrik; Anjard, C; Iranfar, N; Fuller, D et al.

Part of Development, p. 5463-5471, 1999

Cell-cell signaling during Dictyostelium development

Söderbom, Fredrik; Loomis, W F

Part of Trends in Microbiology, p. 402-406, 1998

• DOI for Cell-cell signaling during Dictyostelium development

PcnB is required for the rapid degradation of RNAI, the antisense RNA that controls the copy number of ColE1-related plasmids

He, Lin; Söderbom, Fredrik; Wagner, Gerhart; Binnie, Uta et al.

Part of Molecular Microbiology, p. 1131-1142, 1993

• DOI for PcnB is required for the rapid degradation of RNAI, the antisense RNA that controls the copy number of ColE1-related plasmids

Structural and functional analyses of the FinP antisense RNA regulatory system of the F conjugative plasmid

van Biesen, T; Söderbom, Fredrik; Wagner, E G; Frost, L S

Part of Molecular Microbiology, p. 35-43, 1993

• DOI for Structural and functional analyses of the FinP antisense RNA regulatory system of the F conjugative plasmid

Identification and verification of microRNAs by high-throughput sequencing

Hällman, Jimmie; Avesson, Lotta; Reimegård, Johan; Käller, Max et al.

Part of Dictyostelium discoideum Protocols, p. 125-138, Humana Press, 2013

• DOI for Identification and verification of microRNAs by high-throughput sequencing

Small Nucleolar RNAs: Identification, Structure,and Function

Söderbom, Fredrik

Part of Small RNAs, p. 31-56, Springer, 2006

• DOI for Small Nucleolar RNAs: Identification, Structure,and Function

The Dictyostelium discoideum Argonaute protein AgnE regulates cell growth

Liao, Zhen; Kjellin, Jonas; Dahlén, Helena; Söderbom, Fredrik

Functional analyses of RNA interference effectors in Dictyostelium discoideum during growth and development

Liao, Zhen; Kjellin, Jonas; Fransson, Åsa; Söderbom, Fredrik

Mycobacterial infection induces specific tRNA cleavage in the host cell – a response conserved from amoebae to macrophages

Kjellin, Jonas; Pränting, Maria; Edelbroek, Bart; Mattson Langseth, Christoffer et al.