Kamran Shalchian-Tabrizi

Summary

Affiliation: University of Oslo
Country: Norway

Publications

  1. doi request reprint Diversification of unicellular eukaryotes: cryptomonad colonizations of marine and fresh waters inferred from revised 18S rRNA phylogeny
    Kamran Shalchian-Tabrizi
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Norway
    Environ Microbiol 10:2635-44. 2008
  2. ncbi request reprint Extensive dinoflagellate phylogenies indicate infrequent marine-freshwater transitions
    Ramiro Logares
    Limnology Section, Department of Ecology, Lund University, Ecology Building, SE 223 62 Lund, Sweden
    Mol Phylogenet Evol 45:887-903. 2007
  3. pmc Collodictyon--an ancient lineage in the tree of eukaryotes
    Sen Zhao
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    Mol Biol Evol 29:1557-68. 2012
  4. pmc Radiolaria divided into Polycystina and Spasmaria in combined 18S and 28S rDNA phylogeny
    Anders K Krabberød
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    PLoS ONE 6:e23526. 2011
  5. pmc Large-scale phylogenomic analyses reveal that two enigmatic protist lineages, telonemia and centroheliozoa, are related to photosynthetic chromalveolates
    Fabien Burki
    Department of Zoology and Animal Biology, University of Geneva, Geneva, Switzerland
    Genome Biol Evol 2009:231-8. 2009
  6. pmc Telonemia-specific environmental 18S rDNA PCR reveals unknown diversity and multiple marine-freshwater colonizations
    Jon Bråte
    University of Oslo, Department of Biology, Microbial Evolution Research Group MERG, N 0316 Oslo, Norway
    BMC Microbiol 10:168. 2010
  7. pmc Multigene phylogeny of choanozoa and the origin of animals
    Kamran Shalchian-Tabrizi
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    PLoS ONE 3:e2098. 2008
  8. ncbi request reprint Analysis of environmental 18S ribosomal RNA sequences reveals unknown diversity of the cosmopolitan phylum Telonemia
    Kamran Shalchian-Tabrizi
    Department of Biology, Centre for Ecological and Evolutionary Synthesis, University of Oslo, N 0316 Oslo, Norway
    Protist 158:173-80. 2007
  9. pmc A phylogenetic mosaic plastid proteome and unusual plastid-targeting signals in the green-colored dinoflagellate Lepidodinium chlorophorum
    Marianne A Minge
    Centre for Ecological and Evolutionary Synthesis CEES, Department of Biology, University of Oslo, N 0316 Oslo, Norway
    BMC Evol Biol 10:191. 2010
  10. pmc Genome fragmentation is not confined to the peridinin plastid in dinoflagellates
    Mari Espelund
    Department of Biology, Centre of Ecological and Evolutionary Synthesis CEES, University of Oslo, Oslo, Norway
    PLoS ONE 7:e38809. 2012

Collaborators

Detail Information

Publications34

  1. doi request reprint Diversification of unicellular eukaryotes: cryptomonad colonizations of marine and fresh waters inferred from revised 18S rRNA phylogeny
    Kamran Shalchian-Tabrizi
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Norway
    Environ Microbiol 10:2635-44. 2008
    ..This implies that the differences in the biogeophysical conditions between marine and fresh waters constitute a substantial barrier for the cross-colonization of these environments by cryptomonads...
  2. ncbi request reprint Extensive dinoflagellate phylogenies indicate infrequent marine-freshwater transitions
    Ramiro Logares
    Limnology Section, Department of Ecology, Lund University, Ecology Building, SE 223 62 Lund, Sweden
    Mol Phylogenet Evol 45:887-903. 2007
    ..Our results also shed light on the phylogenetic positions of several freshwater dinoflagellates which, to date, were uncertain...
  3. pmc Collodictyon--an ancient lineage in the tree of eukaryotes
    Sen Zhao
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    Mol Biol Evol 29:1557-68. 2012
    ..These may therefore be ancient morphological features among eukaryotes. Overall, this shows that Collodictyon is a key lineage to understand early eukaryote evolution...
  4. pmc Radiolaria divided into Polycystina and Spasmaria in combined 18S and 28S rDNA phylogeny
    Anders K Krabberød
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    PLoS ONE 6:e23526. 2011
    ..Further we show with high support that Foraminifera groups within Radiolaria supporting the Retaria hypothesis...
  5. pmc Large-scale phylogenomic analyses reveal that two enigmatic protist lineages, telonemia and centroheliozoa, are related to photosynthetic chromalveolates
    Fabien Burki
    Department of Zoology and Animal Biology, University of Geneva, Geneva, Switzerland
    Genome Biol Evol 2009:231-8. 2009
    ....
  6. pmc Telonemia-specific environmental 18S rDNA PCR reveals unknown diversity and multiple marine-freshwater colonizations
    Jon Bråte
    University of Oslo, Department of Biology, Microbial Evolution Research Group MERG, N 0316 Oslo, Norway
    BMC Microbiol 10:168. 2010
    ..Here we investigate the diversity and geographic distribution of Telonemia sequences by in-depth sequencing of several new 18S rDNA clone libraries from both marine and freshwater sites by using a Telonemia-specific PCR strategy...
  7. pmc Multigene phylogeny of choanozoa and the origin of animals
    Kamran Shalchian-Tabrizi
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Oslo, Norway
    PLoS ONE 3:e2098. 2008
    ..Thus, several successive evolutionary innovations occurred among their unicellular closest relatives prior to the origin of the multicellular body-plan of animals...
  8. ncbi request reprint Analysis of environmental 18S ribosomal RNA sequences reveals unknown diversity of the cosmopolitan phylum Telonemia
    Kamran Shalchian-Tabrizi
    Department of Biology, Centre for Ecological and Evolutionary Synthesis, University of Oslo, N 0316 Oslo, Norway
    Protist 158:173-80. 2007
    ..Further investigations of the evolutionary relationships within Telonemia should be conducted on isolated cultures of Telonema-like strains using multi-locus sequencing and morphological data...
  9. pmc A phylogenetic mosaic plastid proteome and unusual plastid-targeting signals in the green-colored dinoflagellate Lepidodinium chlorophorum
    Marianne A Minge
    Centre for Ecological and Evolutionary Synthesis CEES, Department of Biology, University of Oslo, N 0316 Oslo, Norway
    BMC Evol Biol 10:191. 2010
    ....
  10. pmc Genome fragmentation is not confined to the peridinin plastid in dinoflagellates
    Mari Espelund
    Department of Biology, Centre of Ecological and Evolutionary Synthesis CEES, University of Oslo, Oslo, Norway
    PLoS ONE 7:e38809. 2012
    ..The fragmentation of the haptophyte-derived plastid genome K. veneficum suggests that it is likely a sign of a host-driven process shaping the plastid genomes of dinoflagellates...
  11. doi request reprint Freshwater Perkinsea and marine-freshwater colonizations revealed by pyrosequencing and phylogeny of environmental rDNA
    Jon Bråte
    Department of Biology, Microbial Evolution Research Group, University of Oslo, Blindernveien 31, Oslo, Norway
    ISME J 4:1144-53. 2010
    ....
  12. pmc Evolutionary position of breviate amoebae and the primary eukaryote divergence
    Marianne A Minge
    Department of Biology, Centre for Ecological and Evolutionary Synthesis, University of Oslo, 0316 Oslo, Norway
    Proc Biol Sci 276:597-604. 2009
    ..With these findings, remnants of mitochondria have been detected in all putatively deep-branching amitochondriate organisms...
  13. doi request reprint Radiolaria associated with large diversity of marine alveolates
    Jon Bråte
    Microbial Evolution Research Group MERG, Department of Biology, University of Oslo, PO Box 1084 Blindern, N 0316 Oslo
    Protist 163:767-77. 2012
    ..This study shows that applying SCWGA on unculturable cells is a promising approach to study the vast diversity and interactions of intracellular eukaryote organisms...
  14. pmc AIR: A batch-oriented web program package for construction of supermatrices ready for phylogenomic analyses
    Surendra Kumar
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Norway
    BMC Bioinformatics 10:357. 2009
    ..Therefore, a major goal in phylogenomic analyses is to maximize the ratio of information to noise; this can be achieved by the reduction of fast evolving sites...
  15. pmc Phylogenomics reshuffles the eukaryotic supergroups
    Fabien Burki
    Department of Zoology and Animal Biology, University of Geneva, Geneva, Switzerland
    PLoS ONE 2:e790. 2007
    ..Yet, the composition of these large assemblages and their relationships remain controversial...
  16. ncbi request reprint Multiple gene genealogies and AFLPs suggest cryptic speciation and long-distance dispersal in the basidiomycete Serpula himantioides (Boletales)
    Håvard Kauserud
    Department of Biology, University of Oslo, PO Box 1066 Blindern, N 0316 Oslo, Norway
    Mol Ecol 15:421-31. 2006
    ..Furthermore, this study shows that AFLP data are a valuable supplement to DNA sequence data in that they may detect a finer level of genetic variation...
  17. ncbi request reprint Heterotachy processes in rhodophyte-derived secondhand plastid genes: Implications for addressing the origin and evolution of dinoflagellate plastids
    Kamran Shalchian-Tabrizi
    Centre for Ecological and Evolutionary Synthesis, Department of Biology, University of Oslo, Oslo, Norway
    Mol Biol Evol 23:1504-15. 2006
    ..In addition, the refined topologies suggest the red algal order, Porphyridales, as the endosymbiont ancestor of the secondary plastids in cryptophytes, haptophytes, and heterokonts...
  18. ncbi request reprint Accelerated nrDNA evolution and profound AT bias in the medicinal fungus Cordyceps sinensis
    Øyvind Stensrud
    Program for Molecular Ecology and Biosystematics, Department of Biology, University of Oslo, P O Box 1066 Blindern, N 0316 Oslo, Norway
    Mycol Res 111:409-15. 2007
    ..We also suggest that the recorded differences in medicinal effects among C. sinensis populations may be attributed to the existence of genetically differentiated chemotypes in this morphotaxon...
  19. pmc Genome evolution of a tertiary dinoflagellate plastid
    Tove M Gabrielsen
    Centre of Ecological and Evolutionary Synthesis, Department of Biology, University of Oslo, Oslo, Norway
    PLoS ONE 6:e19132. 2011
    ....
  20. pmc CLOTU: an online pipeline for processing and clustering of 454 amplicon reads into OTUs followed by taxonomic annotation
    Surendra Kumar
    Microbial Evolution Research Group, Department of Biology, University of Oslo, Blindern, N 0316 Oslo, Norway
    BMC Bioinformatics 12:182. 2011
    ..Here we introduce CLOTU, an online and open access pipeline for processing 454 amplicon reads. CLOTU has been constructed to be highly user-friendly and flexible, since different types of analyses are needed for different datasets...
  21. doi request reprint Marine-freshwater colonizations of haptophytes inferred from phylogeny of environmental 18S rDNA sequences
    Kamran Shalchian-Tabrizi
    Microbial Evolution Research Group, Department of Biology, University of Oslo, 1066 Blindern, 0316 Oslo, Norway
    J Eukaryot Microbiol 58:315-8. 2011
    ..One of these colonizations, which gave rise to HAP-1, took place very early in the history of haptophytes, before the radiation of the Prymnesiophyceae...
  22. ncbi request reprint Galerina Earle: A polyphyletic genus in the consortium of dark-spored agarics
    Gro Gulden
    Natural History Museum, University of Oslo, PO Box 1172 Blindern, N 0318 Oslo, Norway
    Mycologia 97:823-37. 2005
    ..Our results affirm that morphological characters often are highly homoplastic in the agarics. At the present stage formal taxonomic consequences or nomenclatural changes are not proposed...
  23. ncbi request reprint Combined heat shock protein 90 and ribosomal RNA sequence phylogeny supports multiple replacements of dinoflagellate plastids
    Kamran Shalchian-Tabrizi
    Department of Biology, Centre for Ecological and Evolutionary Synthesis, University of Oslo, N 0316 Oslo, Norway
    J Eukaryot Microbiol 53:217-24. 2006
    ..Thus, the Hsp90 gene seems to be a promising phylogenetic marker for dinoflagellate phylogeny...
  24. doi request reprint Sulcozoa revealed as a paraphyletic group in mitochondrial phylogenomics
    Sen Zhao
    Microbial Evolution Research Group MERG, Department of Biology, University of Oslo, Norway
    Mol Phylogenet Evol 69:462-8. 2013
    ..Furthermore, the data support the hypothesis that the two supergroups Opisthokonta and Amoebozoa, which comprise a great diversity of eukaryotes, have originated from a sulcozoan ancestor. ..
  25. ncbi request reprint Structural analysis of a non-ribosomal halogenated cyclic peptide and its putative operon from Microcystis: implications for evolution of cyanopeptolins
    Ave Tooming-Klunderud
    Department of Molecular Biosciences, University of Oslo, 0316 Oslo, Norway
    Microbiology 153:1382-93. 2007
    ..Within the genus Microcystis, microcystin and cyanopeptolin synthetases have an evolutionary history of genomic coexistence. However, the data indicated that the two classes of peptide synthetase gene clusters have evolved independently...
  26. pmc Massive expansion of the calpain gene family in unicellular eukaryotes
    Sen Zhao
    Microbial Evolution Research Group MERG, Department of Biology, University of Oslo, Oslo, N 0136, Norway
    BMC Evol Biol 12:193. 2012
    ..e. protists). Here, we study the distribution and evolution of calpain genes in a wide range of eukaryote genomes from major branches in the tree of life...
  27. doi request reprint Seven gene phylogeny of heterokonts
    Ingvild Riisberg
    Marine Biology, Department of Biology, University of Oslo, P O Box 1066, Blindern, NO 0316 Oslo, Norway
    Protist 160:191-204. 2009
    ....
  28. ncbi request reprint Multilocus sequencing reveals multiple geographically structured lineages of Coniophora arida and C. olivacea (Boletales) in North America
    Håvard Kauserud
    Department of Biology, University of Oslo, P O Box 1066 Blindern, N 0316 Oslo, Norway
    Mycologia 99:705-13. 2007
    ..Together with other recent investigations of Coniophora species our data suggest that the genus comprises a significant number of cryptic species and is much more diverse than previously deduced from morphological characteristics...
  29. pmc Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes
    Fabien Burki
    Department of Zoology and Animal Biology, University of Geneva, Geneva 4, Switzerland
    Biol Lett 4:366-9. 2008
    ..At its deepest level, the tree of eukaryotes now receives strong support for two monophyletic megagroups comprising most of the eukaryotic diversity...
  30. ncbi request reprint Telonema antarcticum sp. nov., a common marine phagotrophic flagellate
    Dag Klaveness
    Department of Biology, University of Oslo, PO Box 1066 Blindern, N 0316 Oslo, Norway
    Int J Syst Evol Microbiol 55:2595-604. 2005
    ..The molecular phylogeny inferred from the SSU rRNA gene sequence suggested that Telonema represents an isolated and deep branch among the tubulocristate protists...
  31. pmc BLASTGrabber: a bioinformatic tool for visualization, analysis and sequence selection of massive BLAST data
    Ralf Stefan Neumann
    Section for Genetics and Evolutionary Biology EVOGENE and Centre for Epigenetics, Development and Evolution CEDE, University of Oslo, Oslo, Norway
    BMC Bioinformatics 15:128. 2014
    ..Few programs attempt to directly visualize and interpret BLAST output; those that do often provide a mere basic structuring of BLAST data...
  32. ncbi request reprint Identification and comparative analysis of the RpL14 gene from Takifugu rubripes
    Espen Enerly
    Institute of Biology, Division of Cell and Molecular Biology, University of Oslo, Blindern, Oslo, Norway
    Hereditas 139:143-50. 2003
    ..A comparison of the RpL14 gene structure from a broad range of organisms indicates that both loss and gain of introns have occurred during the evolution of the gene...
  33. ncbi request reprint Phenotypically different microalgal morphospecies with identical ribosomal DNA: a case of rapid adaptive evolution?
    Ramiro Logares
    Limnology Division, Ecology Department, Lund University, Lund, Sweden
    Microb Ecol 53:549-61. 2007
    ..Finally, our results indicate that identical ITS rDNA sequences do not necessarily imply the same microbial species, as commonly assumed...
  34. ncbi request reprint The brain-pituitary-gonad axis in male teleosts, with special emphasis on flatfish (Pleuronectiformes)
    Finn Arne Weltzien
    Institute of Marine Research, Austevoll Aquaculture Research Station, 5392 Storebø, Norway
    Comp Biochem Physiol A Mol Integr Physiol 137:447-77. 2004
    ..In addition to reviewing recent information on flatfish, we present some entirely new information on the phylogeny and molecular structure of teleost gonadotropins...