Kamran Shalchian-Tabrizi

Image of Kamran Shalchian-Tabrizi
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Phone +47-22857302
Mobile phone +47-41045328
Fax +47-22854726
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Visiting address Blindernveien 31 0371 OSLO
Postal address Postboks 1066 Blindern 0316 OSLO
Other affiliations Department of Biosciences

PRotIst Development and Evolution Lab (PRIDE)

- understanding the genetic basis of phenotypic evolution in protists

 

Our research interests cover:

Developmental evolution in unicellular eukaryotes: The main scientific interest of the research group is to understand the morphology of unicellular eukarytoes (protists). We have recently taken the initiative to strengthen evodevo research at University of Oslo by establishing Centre for Epigenetics, Development and Evolution (CEDE)The PRIDE lab focuses on understanding the molecular basis of morphological evolution among protists. 

Major transition in history of eukaryotes: We are interested to resolve the evolutionary relationship between major lineages of eukaryotes in order to infer the evolution of cell structures, organelles and genomes. Currently we are exploring the possibilities of using techniques for studying uncultivated eukaryote genomes and transcriptomes and relate the diversity of genes and genomes to the evolutionary history of these enigmatic eukaryote lineages and their ecological adaptations.

Regulatory RNA in unicellular eukaryotes: Of particular interest have been to understand the diversity of such regulatory elements among the large diversity of eukaryotes that traditionally have been regarded as non-model organisms, and to reveal the importance of such molecules in the evolution of cell differentiation and multicellularity among animals and fungi.

Eukaryote diversity: We explore the unknown diversity of free-living enigmatic eukaryotes and unknown diversity of symbionts, resolve the evolutionary relationship between these organisms on various taxonomic level and to understand the processes that shaped this huge and ecologically important diversity. 

Development of Bioinformatics and computing resources: We have developed a web-based bioinformatics service named Bioportal, which now are transformed to Lifeportal. In addition, we have developed a number of different computer programs and pipelines for phylogenomics (the AIR and BIR pipelines), BLAST visualization (BLASTGrabber) and analyses of amplicon sequences (CLOTU).

 

Scientific achievements

Scientific profile, according to Google Scholar:

H index: 28

i10 index: 38

 

Appointments

2014 - Head of Centre for Epigenetics, Development and Evolution (CEDE)

2014 - Leader group member of Center of Integrated Microbial Evolution (CIME)

2007 – 2013:  Head of Microbial Evolution Research Group (MERG)MERG was a prioritized research group at Faculty of Mathematics and Natural Sciences at University of Oslo. The group consisted of about 40 participants (including Master students, PhD students, postdocs, engineers and faculty scientific staff).  For more information, see: http://www.mn.uio.no/bio/english/research/groups/merg/. 

2004  – 2013: Head of BIOPORTAL bioinformatics facility at University of Oslo. Bioportal was the most used web-based bioinformatics service in Norway with users from most life science research environments in Norway and hundreds of users from other countries. More than 5000 users were registered from Norway and other countries. Core members of the project team was composed of persons employed at USIT and Department of Biology (both UiO). The Bioportal was supported as a technology platform by the Molecular Life Science Board at University of Oslo

 

International Collaborators

John M Archibald (Dalhousie University), David Bass (Natural History Museum, London, UK). Fabien Burki (University of Geneva), Thomas Cavalier-Smith (University of Oxford), Charles F. Delwiche (University of Maryland), Kjetill S. Jakobsen (University of Oslo), Patrick Keeling (University of British Columbia, Canada), Ramiro Logares (Barcelona), Franz B. Lang (University of Montreal), Ramon Massana, Jan Pawlowski (University of Geneva), Karin Rengefors (Lund University), Iñaki Ruiz-Trillo (University of Barcelona) and Monique Turmel (University of Laval).

 

Teaching

BIO 1000 - Elementary biology

BIO 2140 - Molecular biology and Biological Methods

BIO 4210 - Classification and phylogeny

BIO4280 - Evolutionary Developmental Biology and Macroevolution

 

Publications

  • Krabberød, Anders Kristian; Bjorbækmo, Marit Markussen; Shalchian-Tabrizi, Kamran & Logares, Ramiro (2017). Exploring the oceanic microeukaryotic interactome with metaomics approaches. Aquatic Microbial Ecology.  ISSN 0948-3055.  79(1), s 1- 12 . doi: 10.3354/ame01811
  • Krabberød, Anders Kristian; Orr, Russell; Bråte, Jon; Kristensen, Tom; Bjørklund, Kjell Rasmus & Shalchian-Tabrizi, Kamran (2017). Single cell transcriptomics, mega-phylogeny and the genetic basis of morphological innovations in Rhizaria. Molecular biology and evolution.  ISSN 0737-4038. . doi: https://doi.org/10.1093/molbev/msx075 Show summary
  • Orr, Russell; Shalchian-Tabrizi, Kamran; Klaveness, Dag; Zhao, Sen; Yabuki, Akinori; Ikeda, Keiji & Watanabe, Makoto (2017). Enigmatic Diphyllatea eukaryotes: Culturing and targeted PacBio RS amplicon sequencing reveals a higher order taxonomic diversity and global distribution.. Environmental Microbiology.  ISSN 1462-2912.
  • Orr, Russell; Shalchian-Tabrizi, Kamran; Van de Peer, Yves & Rombauts, S (2017). Draft Genome Sequences of Two Unclassified Bacteria, Hydrogenophaga sp. Strains IBVHS1 and IBVHS2, Isolated from Environmental Samples. Genome Announcements.  ISSN 2169-8287.
  • Orr, Russell; Shalchian-Tabrizi, Kamran; Van de Peer, Yves & Rombauts, S (2017). Draft Genome Sequences of Two Unclassified Bacteria, Sphingomonas sp. Strains IBVSS1 and IBVSS2, Isolated from Environmental Samples. Genome Announcements.  ISSN 2169-8287.
  • Orr, Russell; Shalchian-Tabrizi, Kamran; Van de Peer, Yves & Rombauts, S (2017). Draft genome Sequences of two Unclassified Chitinophagaceae bacterium. IBVUCB1 and IBVUCB2, Isolated from Environmental Samples.. Genome Announcements.  ISSN 2169-8287.
  • Forster, Dominik; Dunthorn, Micah; Mahé, Frédéric; Dolan, John R.; Audic, Stéphane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-Michel; Decelle, Johan; Edvardsen, Bente; Egge, Elianne Dunthorn; Eikrem, Wenche; Gobet, Angélique; Kooistra, Wiebe H.C.F.; Logares, Ramiro; Massana, Ramon; Montresor, Marina; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Romac, Sarah; Shalchian-Tabrizi, Kamran; Simon, Nathalie; Richards, Thomas A.; Santini, Sébastien; Sarno, Diana; Siano, Raffaele; Vaulot, Daniel; Wincker, Patrick; Zingone, Adriana; De Vargas, Colomban & Stoeck, Thorsten (2016). Benthic protists: The under-charted majority. FEMS Microbiology Ecology.  ISSN 0168-6496.  92(8), s 1- 11 . doi: 10.1093/femsec/fiw120
  • Bråte, Jon; Adamski, Marcin; Neumann, Ralf Stefan; Shalchian-Tabrizi, Kamran & Adamska, Maja (2015). Regulatory RNA at the root of animals: dynamic expression of developmental lincRNAs in the calcisponge Sycon ciliatum. Proceedings of the Royal Society of London. Biological Sciences.  ISSN 0962-8452.  282(1821), s 1- 9 . doi: 10.1098/rspb.2015.1746 Full text in Research Archive. Show summary
  • Kumar, Surendra; Krabberød, Anders Kristian; Neumann, Ralf Stefan; Michalickova, Katerina; Zhao, Sen; Zhang, Xiaoli & Shalchian-Tabrizi, Kamran (2015). BIR pipeline for preparation of phylogenomic data. Evolutionary Bioinformatics.  ISSN 1176-9343.  11, s 79- 83 . doi: 10.4137/EBO.S10189
  • Massana, Ramon; Gobet, Angelique; Audic, Stéphane; Bass, David; Bittner, Lucie; Boutte, Christophe; Chambouvet, Aurélie; Christen, Richard; Claverie, Jean-Michel; Decelle, Johan; Dolan, John R.; Dunthorn, Micah; Edvardsen, Bente; Forn, Irene; Forster, Dominik; Guillou, Laure; Jaillon, Olivier; Kooistra, Wiebe H. C. F.; Logares, Ramiro; Mahé, Frédéric; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Probert, Ian; Romac, Sarah; Richards, Thomas; Santini, Sebastien; Shalchian-Tabrizi, Kamran; Siano, Raffaele; Simon, Nathalie; Stoeck, Thorsten; Vaulot, Daniel; Zingone, Adriana & de Vargas, Colomban (2015). Marine protist diversity in European coastal watersand sediments as revealed by high-throughputsequencing. Environmental Microbiology.  ISSN 1462-2912.  17(10), s 4035- 4049 . doi: 10.1111/1462-2920.12955
  • Logares, Ramiro; Audic, Stéphane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-Michel; Decelle, Johan; Dolan, John R.; Dunthorn, Micah; Edvardsen, Bente; Gobet, Angelique; Kooistra, Wiebe H.C.F.; Mahé, Frédéric; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Romac, Sarah; Shalchian-Tabrizi, Kamran; Simon, Nathalie; Stoeck, Thorsten; Santini, Sebastien; Siano, Raffaele; Wincker, Patrick; Zingone, Adriana; Richards, Thomas A.; de Vargas, Colomban & Massana, Ramon (2014). Patterns of Rare and Abundant Marine Microbial Eukaryotes. Current Biology.  ISSN 0960-9822.  24(8), s 813- 821 . doi: 10.1016/j.cub.2014.02.050
  • Neumann, Ralf Stefan; Kumar, Surendra; Haverkamp, Thomas Hendricus Augustus & Shalchian-Tabrizi, Kamran (2014). BLASTGrabber: A bioinformatic tool for visualization, analysis and sequence selection of massive BLAST data. BMC Bioinformatics.  ISSN 1471-2105.  15(128) . doi: 10.1186/1471-2105-15-128 Full text in Research Archive.
  • Neumann, Ralf Stefan; Kumar, Surendra & Shalchian-Tabrizi, Kamran (2014). BLAST output visualization in the new sequencing era. Briefings in Bioinformatics.  ISSN 1467-5463.  15(4), s 484- 503 . doi: 10.1093/bib/bbt009
  • Liang, Zhe; Demko, Viktor; Wilson, Robert Charles; Johnson, Kenneth; Ahmad, Rafi; Perroud, Pierre-Francois; Quatrano, Ralph; Zhao, Sen; Shalchian-Tabrizi, Kamran; Otegui, Marisa; Olsen, Odd-Arne & Johansen, Wenche (2013). The catalytic domain CysPc of the DEK1 calpain is functionally conserved in land plants. The Plant Journal.  ISSN 0960-7412.  75(5), s 742- 754 . doi: 10.1111/tpj.12235
  • Zhao, Sen; Shalchian-Tabrizi, Kamran & Klaveness, Dag (2013). Sulcozoa revealed as a paraphyletic group in mitochondrial phylogenomics. Molecular Phylogenetics and Evolution.  ISSN 1055-7903.  69(3), s 462- 468 . doi: 10.1016/j.ympev.2013.08.005 Show summary
  • Bråte, Jon; Krabberød, Anders Kristian; Dolven, Jane Karine Lønne; Ose, Randi Frida; Kristensen, Tom; Bjørklund, Kjell Rasmus & Shalchian-Tabrizi, Kamran (2012). Radiolaria Associated with Large Diversity of Marine Alveolates. Protist.  ISSN 1434-4610.  163(5), s 767- 777 . doi: 10.1016/j.protis.2012.04.004 Show summary
  • Espelund, Mari; Minge, Marianne Aastebøl; Gabrielsen, Tove M; Nederbragt, Alexander Johan; Shalchian-Tabrizi, Kamran; Otis, Christian; Turmel, Monique; Lemieux, Claude & Jakobsen, Kjetill Sigurd (2012). Genome Fragmentation Is Not Confined to the Peridinin Plastid in Dinoflagellates. PLoS ONE.  ISSN 1932-6203.  7(6) . doi: 10.1371/journal.pone.0038809 Full text in Research Archive.
  • Suga, Hiroshi; Dacre, Michael; de Mendoza, Alex; Shalchian-Tabrizi, Kamran; Manning, G & Ruiz-Trillo, Iñaki (2012). Genomic Survey of Premetazoans Shows Deep Conservation of Cytoplasmic Tyrosine Kinases and Multiple Radiations of Receptor Tyrosine Kinases. Science Signaling.  ISSN 1937-9145.  5(222) . doi: 10.1126/scisignal.2002733
  • Torruella, Guifré; Derelle, Romain; Paps, Jordi; Lang, B. Franz; Roger, Andrew J.; Shalchian-Tabrizi, Kamran & Ruiz-Trillo, Iñaki (2012). Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single-copy protein domains. Molecular biology and evolution.  ISSN 0737-4038.  29(2), s 531- 544 . doi: 10.1093/molbev/msr185
  • Zhao, Sen; Burki, Fabien; Bråte, Jon; Keeling, Patrick J; Klaveness, Dag & Shalchian-Tabrizi, Kamran (2012). Collodictyon - An Ancient Lineage in the Tree of Eukaryotes. Molecular biology and evolution.  ISSN 0737-4038.  29(6), s 1557- 1568 . doi: 10.1093/molbev/mss001
  • Zhao, Sen; Liang, Zhe; Demko, Viktor; Wilson, Robert; Johansen, Wenche; Olsen, Odd-Arne & Shalchian-Tabrizi, Kamran (2012). Massive expansion of the calpain gene family in unicellular eukaryotes. BMC Evolutionary Biology.  ISSN 1471-2148.  12(193) . doi: 10.1186/1471-2148-12-193
  • Gabrielsen, Tove M; Minge, Marianne Aastebøl; Espelund, Mari; Tooming-Klunderud, Ave; Patil, Viswanath; Nederbragt, Alexander Johan; Otis, Christian; Turmel, Monique; Shalchian-Tabrizi, Kamran; Lemieux, Claude & Jakobsen, Kjetill Sigurd (2011). Genome Evolution of a Tertiary Dinoflagellate Plastid. PLoS ONE.  ISSN 1932-6203.  6(4), s e19132 . doi: 10.1371/journal.pone.0019132
  • Klaveness, Dag; Bråte, Jon; Patil, Viswanath; Shalchian-Tabrizi, Kamran; Kluge, Ragnhild; Gislerød, Hans Ragnar & Jakobsen, Kjetill Sigurd (2011). The 18S and 28S rDNA indentity and phylogeny of the common lotic chrysophyte Hydrurus foetidus. European journal of phycology.  ISSN 0967-0262.  46(3), s 282- 291 . doi: 10.1080/09670262.2011.598950
  • Krabberød, Anders Kristian; Bråte, Jon; Dolven, Jane Karine Lønne; Ose, Randi Frida; Klaveness, Dag; Kristensen, Tom; Bjørklund, Kjell Rasmus & Shalchian-Tabrizi, Kamran (2011). Radiolaria Divided into Polycystina and Spasmaria in Combined 18S and 28S rDNA Phylogeny. PLoS ONE.  ISSN 1932-6203.  6(8) . doi: 10.1371/journal.pone.0023526 Show summary
  • Kumar, Surendra; Carlsen, Tor; Mevik, Bjørn-Helge; Enger, Pål; Blaalid, Rakel; Shalchian-Tabrizi, Kamran & Kauserud, Håvard (2011). CLOTU: An online pipeline for processing and clustering of 454 amplicon reads into OTUs followed by taxonomic annotation. BMC Bioinformatics.  ISSN 1471-2105.  12 . doi: 10.1186/1471-2105-12-182 Full text in Research Archive. Show summary
  • Shalchian-Tabrizi, Kamran; Røberg, Kjetil; Ree, Dan Kristofer; Klaveness, Dag & Bråte, Jon (2011). Marine-Freshwater Colonizations of Haptophytes Inferred from Phylogeny of Environmental 18S rDNA Sequences. Journal of Eukaryotic Microbiology.  ISSN 1066-5234.  58(4), s 315- 318 . doi: 10.1111/j.1550-7408.2011.00547.x
  • Bråte, Jon; Klaveness, Dag; Rygh, T; Jakobsen, Kjetill Sigurd & Shalchian-Tabrizi, Kamran (2010). Telonemia-specific environmental 18S rDNA PCR reveals unknown diversity and multiple marine-freshwater colonizations. BMC Microbiology.  ISSN 1471-2180.  10(168) . doi: 10.1186/1471-2180-10-168
  • Bråte, Jon; Logares, Ramiro; Berney, Cedric; Ree, Dan Kristofer; Klaveness, Dag; Jakobsen, Kjetill Sigurd & Shalchian-Tabrizi, Kamran (2010). Freshwater Perkinsea and marine-freshwater colonizations revealed by pyrosequencing and phylogeny of environmental rDNA. The ISME Journal.  ISSN 1751-7362.  4(9), s 1144- 1153 . doi: 10.1038/ismej.2010.39
  • Logares, Ramiro; Bråte, Jon; Heinrich, F; Shalchian-Tabrizi, Kamran & Bertilsson, Stefan (2010). Infrequent Transitions between Saline and Fresh Waters in One of the Most Abundant Microbial Lineages (SAR11). Molecular biology and evolution.  ISSN 0737-4038.  27(2), s 347- 357 . doi: 10.1093/molbev/msp239
  • Minge, Marianne Aastebøl; Shalchian-Tabrizi, Kamran; Tørresen, Ole Kristian; Takishita, Kiyotaka; Probert, Ian; Inagaki, Yuji; Klaveness, Dag & Jakobsen, Kjetill Sigurd (2010). A phylogenetic mosaic plastid proteome and unusual plastid-targeting signals in the green-colored dinoflagellate Lepidodinium chlorophorum. BMC Evolutionary Biology.  ISSN 1471-2148.  10 . doi: 10.1186/1471-2148-10-191
  • Riisberg, Ingvild; Orr, Russell; Kluge, Ragnhild; Shalchian-Tabrizi, Kamran; Bowers, HA; Vishwanath, Patil; Edvardsen, Bente & Jakobsen, Kjetill Sigurd (2009). Seven Gene Phylogeny of Heterokonts. Protist.  ISSN 1434-4610.  160(2), s 191- 204 . doi: 10.1016/j.protis.2008.11.004
  • Vishwanath, Patil; Bråte, Jon; Shalchian-Tabrizi, Kamran & Jakobsen, Kjetill Sigurd (2009). Revisiting the Phylogenetic Position of Synchroma grande. Journal of Eukaryotic Microbiology.  ISSN 1066-5234.  56(4), s 394- 396
  • Burki, Fabien; Inagaki, Yuji; Bråte, Jon; Archibald, John M; Keeling, Patrick J; Cavalier-Smith, Thomas; Sakaguchi, Miako; Hashimoto, Tetsuo; Horak, Ales; Kumar, Surendra; Klaveness, Dag; Jakobsen, Kjetill Sigurd; Pawlowski, Jan & Shalchian-Tabrizi, Kamran (2009). Large-Scale Phylogenomic Analyses Reveal That Two Enigmatic Protist Lineages, Telonemia and Centroheliozoa, Are Related to Photosynthetic Chromalveolates. Genome Biology and Evolution.  ISSN 1759-6653.  1(1), s 231- 238 . doi: 10.1093/gbe/evp022
  • Kumar, Surendra; Skjæveland, Åsmund; Orr, Russell; Enger, Pål; Ruden, Torgeir Andersen; Mevik, Bjørn-Helge; Burki, Fabien; Botnen, Andreas Valeur & Shalchian-Tabrizi, Kamran (2009). AIR: A batch-oriented web program package for construction of supermatrices ready for phylogenomic analyses. BMC Bioinformatics.  ISSN 1471-2105.  10 . doi: 10.1186/1471-2105-10-357 Full text in Research Archive. Show summary
  • Logares, Ramiro; Bråte, Jon; Bertilsson, Stefan; Clasen, Jessica L; Shalchian-Tabrizi, Kamran & Rengefors, Karin (2009). Infrequent marine-freshwater transitions in the microbial world. Trends in Microbiology.  ISSN 0966-842X.  17(9), s 414- 422 . doi: 10.1016/j.tim.2009.05.010
  • Logares, Ramiro; Bråte, Jon; Friederike, Heinrich; Shalchian-Tabrizi, Kamran & Bertilsson, Stefan (2009). Infrequent transitions between saline and fresh waters in one of the most abundant microbial lineages (SAR11). Molecular biology and evolution.  ISSN 0737-4038. . doi: 10.1093/molbev/msp239
  • Minge, Marianne Aastebøl; Silberman, Jeffrey; Orr, Russell; Cavalier-Smith, Thomas; Shalchian-Tabrizi, Kamran; Burki, Fabien; Skjæveland, Åsmund & Jakobsen, Kjetill Sigurd (2009). Evolutionary position of breviate amoebae and the primary eukaryote divergence. Proceedings of the Royal Society of London. Biological Sciences.  ISSN 0962-8452.  276(1657), s 597- 604 . doi: 10.1098/rspb.2008.1358
  • Burki, F; Shalchian-Tabrizi, Kamran & Pawlowski, J (2008). Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes. Biology Letters.  ISSN 1744-9561.  4, s 366- 369 . doi: 10.1098/rsbl.2008.0224
  • Shalchian-Tabrizi, Kamran; Bråte, Jon; Logares, R; Klaveness, Dag; Berney, Cedrik & Jakobsen, Kjetill Sigurd (2008). Diversification of unicellular eukaryotes: cryptomonad colonizations of marine and fresh waters inferred from revised 18S rRNA phylogeny. Environmental Microbiology.  ISSN 1462-2912.  10(10), s 2635- 2644 . doi: doi:10.1111/j.1462-2920.2008.01685.x
  • Shalchian-Tabrizi, Kamran; Minge, Marianne Aastebøl; Espelund, Mari; Orr, Russell; Ruden, Torgeir Andersen; Jakobsen, Kjetill Sigurd & Cavalier-Smith, Thomas (2008). Multigene Phylogeny of Choanozoa and the Origin of Animals. PLoS ONE.  ISSN 1932-6203.  3(5)
  • Edvardsen, B; Eikrem, W; Shalchian-Tabrizi, K; Riisberg, I; Johnsen, Geir; Naustvoll, L & Throndsen, J (2007). Verrucophora farcimen gen. et sp nov (Dictyochophyceae, Heterokonta) - A bloom-forming ichthyotoxic flagellate from the Skagerrak, Norway. Journal of Phycology.  ISSN 0022-3646.  43, s 1054- 1070 . doi: 10.1111/j.1529-8817.2007.00390.x
  • Burki, Fabien; Shalchian-Tabrizi, Kamran; Minge, Marianne Aastebøl; Skjæveland, Åsmund; Nikolajev, Sergey I; Jakobsen, Kjetill Sigurd & Jan, Pawlowski (2007). Phylogenomics Reshuffles the Eukaryotic Supergroups. PLoS ONE.  ISSN 1932-6203.  2(8) . doi: 10.1371/journal.pone.0000790
  • Kauserud, Håvard; Shalchian-Tabrizi, Kamran & DeCock, Cony (2007). Multi-locus sequencing reveals multiple geographically structured lineages of Coniophora arida and C. olivacea (Boletales) in North America. Mycologia.  ISSN 0027-5514.  99, s 705- 713
  • Logares, Ramiro; Rengefors, Karin; Kremp, Anke; Shalchian-Tabrizi, Kamran; Boltovskoy, Andrés; Tengs, Torstein; Shurtleff, Aaron & Klaveness, Dag (2007). Phenotypically different microalgal morphospecies with identical ribosomal DNA: A case of rapid adaptive evolution?. Microbial Ecology.  ISSN 0095-3628.  53, s 549- 561 . doi: 10.1007/s00248-006-9088-y
  • Logares, Ramiro; Shalchian-Tabrizi, Kamran; Boltovskoy, Andrés & Rengefors, Karin (2007). Extensive dinoflagellate phylogenies indicate infrequent and usually not recent marine-freshwater transitions. Molecular Phylogenetics and Evolution.  ISSN 1055-7903.  45, s 887- 903 . doi: 10.1016/j.ympev.2007.08.005
  • Shalchian-Tabrizi, Kamran; Kauserud, Håvard; Massana, R; Klaveness, Dag & Jakobsen, Kjetill Sigurd (2007). Analysis of environmental 18S ribosomal RNA sequences reveals unknown diversity of the cosmopolitan phylum Telonemia. Protist.  ISSN 1434-4610.  158, s 173- 180 . doi: 10.1016/j.protis.2006.10.003
  • Stensrud, Øyvind; Schumacher, Trond; Shalchian-Tabrizi, Kamran; Svegården, Ingeborg Bjorvand & Kauserud, Håvard (2007). Accelerated nrDNA evolution and profound AT bias in the medicinal fungus Cordyceps sinensis. Mycological Research.  ISSN 0953-7562.  111(4), s 409- 415 . doi: 10.1016/j.mycres.2007.01.015 Show summary
  • Tooming-Klunderud, Ave; Rohrlack, Thomas; Shalchian-Tabrizi, Kamran; Kristensen, Tom & Jakobsen, Kjetill Sigurd (2007). Structural analysis of a non-ribosomal halogenated cyclic peptide and its putative operon from Microcystis: implications for evolution of cyanopeptolins. Microbiology.  ISSN 1350-0872.  153(5), s 1382- 1393 . doi: 10.1099/mic.0.2006/001123-0
  • Kauserud, Håvard; Stensrud, Øyvind; DeCock, Cony; Shalchian-Tabrizi, Kamran & Schumacher, Trond (2006). Multiple gene genealogies and AFLPs suggest cryptic speciation and long-distance dispersal in the basidiomycete Serpula himantioides (Boletales). Molecular Ecology.  ISSN 0962-1083.  15(2), s 421- 431 . doi: 10.1111/j.1365-294X.2005.02768 Show summary
  • Shalchian-Tabrizi, Kamran; Eikrem, Wenche; Klaveness, Dag; Vaulot, Daniel; Minge, Marianne Aastebøl; LeGall, F; Romari, K; Throndsen, Jahn; Botnen, Andreas; Massana, R; Thomsen, Helge A. & Jakobsen, Kjetill Sigurd (2006). Telonemia, a new protist phylum with affinity to chromist lineages. Proceedings of the Royal Society of London. Biological Sciences.  ISSN 0962-8452.  273, s 1833- 1842 . doi: 10.1098/rspb.2006.3515
  • Shalchian-Tabrizi, Kamran; Minge, Marianne Aastebøl; Cavalier-Smith, Thomas; Nedreklepp, Joachim; Klaveness, Dag & Jakobsen, Kjetill Sigurd (2006). Combined Heat Shock Protein 90 and Ribosomal RNA Sequence Phylogeny Supports Multiple Replacements of Dinoflagellate Plastids. Journal of Eukaryotic Microbiology.  ISSN 1066-5234.  53(3), s 217- 224
  • Shalchian-Tabrizi, Kamran; Skånseng, Marianne; Ronqvist, Fredrik; Klaveness, Dag; Bachvaroff, Tsvetan R; Delwiche, Charles F.; Botnen, Andreas Valeur; Tengs, T & Jakobsen, Kjetill Sigurd (2006). Heterotachy Processes in Rhodophyte-Derived Secondhand Plastid Genes: Implications for Addressing the Origin and Evolution of Dinoflagellate Plastids. Molecular biology and evolution.  ISSN 0737-4038.  23, s 1504- 1515 . doi: 10.1093/molbev/msl011
  • Gulden, Gro; Stensrud, Øyvind; Shalchian-Tabrizi, Kamran & Kauserud, Håvard (2005). Galerina Earle: A polyphyletic genus in the consortium of dark-spored agarics. Mycologia.  ISSN 0027-5514.  97(4), s 823- 837 Show summary
  • Klaveness, Dag; Shalchian-Tabrizi, Kamran; Thomsen, Helge Abildhauge; Eikrem, Wenche & Jakobsen, Kjetill Sigurd (2005). Telonema antarcticum sp.nov., a common marine phagotrophic flagellate. International Journal of Systematic and Evolutionary Microbiology.  ISSN 1466-5026.  55, s 2595- 2604 . doi: dx.doi.org/10.1099/ijs.0.63652
  • Enerly, E; Ahmadi, H; Shalchian-Tabrizi, Kamran & Lambertsson, Gøran Andrew (2004). Identification and comparative analysis of the RpL14 gene from Takifugu rubripes. Hereditas.  ISSN 0018-0661.  139, s 143- 150
  • Weltzien, FA; Andersson, E; Andersen, O; Shalchian-Tabrizi, Kamran & Norberg, B (2004). The brain-pituitary-gonad axis in male teleosts, with special emphasis on flatfish (pleuronectiformes). Comparative Biochemistry and Physiology A.  ISSN 1095-6433.  137, s 447- 477
  • Edvardsen, Bente; Shalchian-Tabrizi, Kamran; Jakobsen, Kjetill Sigurd; Medlin, Linda K.; Dahl, Einar; Brubak, Sissel Irene & Paasche, Eystein (2003). Genetic variability and molecular phylogeny of Dinophysis species (Dinophyceae) from Norwegian waters inferred from single cell analyses of rDNA. Journal of Phycology.  ISSN 0022-3646.  39(2), s 395- 408

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  • Evenstad, Andreas; Lieblein Røsæg, Line; Andresen, Ina Jungersen; Shalchian-Tabrizi, Kamran & Bråte, Jon (2016). Evolution of non-coding RNAs in ctenophores.
  • Haraldsen, Arthur Alexander Blørstad; Bråte, Jon; Neumann, Ralf Stefan; Fromm, Bastian; Grini, Paul Eivind & Shalchian-Tabrizi, Kamran (2016). Pre-metazoan origin of animal microRNAs.
  • Lieblein Røsæg, Line; Evenstad, Andreas; Andresen, Ina Jungersen; Bråte, Jon & Shalchian-Tabrizi, Kamran (2016). Postembryonic development of Mnemiopsis leidyi inferred from gene expression data.
  • Orr, Russell; Zhao, Sen; Yabuki, Akinori & Shalchian-Tabrizi, Kamran (2016). PacBio sequencing reveals the diversity and ecology of a deeply diverging eukaryote lineage.
  • Bjorbækmo, Marit Markussen; Neumann, Ralf Stefan; Haraldsen, Arthur Alexander Blørstad & Shalchian-Tabrizi, Kamran (2015). Expanding our knowledge about parasites using PATHOS-DB (The PArasiTe–HOSt-DataBase).
  • Bjorbækmo, Marit Markussen; Neumann, Ralf Stefan; Haraldsen, Arthur Alexander Blørstad & Shalchian-Tabrizi, Kamran (2015). HIDDEN PROTIST PARASITES: HOW CAN THEY BE DETECTED?.
  • Fuss, Janina; Grønneberg, Estelle; Gylt, Torbjørn; Bjorbækmo, Marit Markussen; Mangot, Jean-Francois; Shalchian-Tabrizi, Kamran & Klaveness, Dag (2015). Pee, poo and parasitic protists - what is living inside the fish we eat?.
  • Fuss, Janina; Mangot, Jean-Francois; Bjorbækmo, Marit Markussen; Freeman, Mark A.; Bass, David; Shalchian-Tabrizi, Kamran & Klaveness, Dag (2015). THE ENIGMATIC BASAL ALVEOLATE PARASITE X-CELL: CAN MULTIPLE GENOMIC APPROACHES REVEAL MORE?.
  • Haraldsen, Arthur Alexander Blørstad; Bjorbækmo, Marit Markussen; Mangot, Jean-Francois; Fuss, Janina; Shalchian-Tabrizi, Kamran; Hansen, Haakon & Klaveness, Dag (2015). Protist diversity in a marine and lacustrine system: Patterns across a salinity gradient. Show summary
  • Enevoldsen, Emily; Liow, Lee Hsiang; Voje, Kjetil L.; Orr, Russell; Shalchian-Tabrizi, Kamran & Krabberød, Anders Kristian (2014). Macroevolution through molecular and morphological lenses: a history of microporellids.
  • Demko, Viktor; Johansen, Wenche; Perroud, Pierre-francois; Liang, Zhe; Shalchian-Tabrizi, Kamran; Zhao, Sen; Olsen, Odd-Arne; Quatrano, Ralph S. & Wilson, Robert Charles (2013). The evolutionary history of eukaryotic calpains displays multiple variants of regulatory mechanisms for CysPc activity.
  • Demko, Viktor; Ako, Ako Eugene; Perroud, Pierre-Francois; Liang, Zhe; Johansen, Wenche; Wilson, Robert; Shalchian-Tabrizi, Kamran; Thiede, Bernd; Quatrano, Ralph & Olsen, Odd-Arne (2012). Searching for cellular targets of the plant calpain DEK1.
  • Liang, Zhe; Demko, Viktor; Zhao, Sen; Wilson, Robert; Shalchian-Tabrizi, Kamran; Johansen, Wenche & Olsen, Odd-Arne (2012). The DEK1 protein evolved from an ancient form of membrane bound calpain and is highly conserved in land plants.
  • Liang, Zhe; Olsen, Odd-Arne; Shalchian-Tabrizi, Kamran; Wilson, Robert & Johansen, Wenche (2012). The DEK1 protein evolved from an ancient form of membrane bound calpain and is highly conserved in land plants.
  • Tidemann, Grethe; Shalchian-Tabrizi, Kamran; Vrålstad, Trude & Carlsen, Tor (2012, 20. mars). Hvordan skape et toppforskningsmiljø på under fem år.  Uniforum.
  • Demko, Viktor; Perroud, Pierre-Francois; Johansen, Wenche; Wilson, Robert Charles; Liang, Zhe; Shalchian-Tabrizi, Kamran & Olsen, Odd-Arne (2011). The DEK1 and CRINKLY4 proteins play a fundamental role in the development of land plants - from Arabidopsis back to the moss Physcomitrella patens.
  • Johansen, Wenche; Liang, Zhe; Demko, Viktor; Zhao, Sen; Wilson, Robert Charles; Shalchian-Tabrizi, Kamran & Olsen, Odd-Arne (2011). Dek1 calpain evolution.
  • Liang, Zhe; Demko, Viktor; Zhao, Sen; Wilson, Robert Charles; Shalchian-Tabrizi, Kamran; Olsen, Odd-Arne & Johansen, Wenche (2011). The calpain module of the DEK1 protein from the moss Physcomitrella functionally complements the Arabidopsis dek1-3 mutant.
  • Perroud, Pierre-Francois; Wilson, Robert Charles; Demko, Viktor; Liang, Zhe; Johansen, Wenche; Shalchian-Tabrizi, Kamran; Cove, D.J.; Olsen, Odd-Arne & Quatrano, R.S. (2011). Multiple roles for DEK1 in Physcomitrella patens.
  • Bråte, Jon; Krabberød, Anders Kristian; Dolven, Jane Karine Lønne; Ose, Randi Frida; Kristensen, Tom; Bjørklund, Kjell Rasmus & Shalchian-Tabrizi, Kamran (2010). Diversity of unculturable Radiolaria and their symbionts revealed by 18S rDNA phylogeny.
  • Dittami, Simon; Riisberg, Ingvild; John, Uwe; Orr, Russell; Shalchian-Tabrizi, Kamran; Jakobsen, Kjetill Sigurd & Edvardsen, Bente (2010). Analysis of expressed sequence tags from the ichtyotoxic dictyochophyte Pseudochattonella farcimen. Show summary
  • Olsen, Odd-Arne; Johansen, Wenche; Emilsen, Sidsel; Belova, Tatiana; Liang, Zhe; Smalås, Arne; Johnson, Ken; Helland, Ronny; Schrøder Leiros, Hanna-Kirsti; Jakobsen, Kjetill S.; Shalchian-Tabrizi, Kamran; Quatrano, Ralph; Cove, David; Perroud, Pierre-Francois; Dutcher, Susan; Wilson, Robert & Wilson, Robert (2010). Structural & functional significance of the DEK1 phytocalpain during land plant evolution from green algae.
  • Wilson, Robert; Perroud, Pierre-Francois; Johansen, Wenche; Liang, Zhe; Belova, Tatiana; Lorentzen, Marit; Jakobsen, Kjetill S.; Johnson, Ken; Brown, Roy; Lemmon, Betty; Cove, David; Shalchian-Tabrizi, Kamran; Quatrano, Ralph & Olsen, Odd-Arne (2010). Was the transmembrane-anchored DEK1 calpain key to the development of differentiated multicellular land plants?.
  • Dolven, Jane Karine Lønne; Bjørklund, Kjell Rasmus; Bråte, Jon; Krabberød, Anders Kristian; Klaveness, Dag & Shalchian-Tabrizi, Kamran (2009). Polycystina. Polycystine radiolarians. [www ].
  • Shalchian-Tabrizi, Kamran (2009). Bioportal Bioinformatics Service.
  • Patil, Vishwanath; Bråte, Jon; Klaveness, Dag; Kluge, Ragnhild; Shalchian-Tabrizi, Kamran; Gislerød, Hans Ragnar & Jakobsen, Kjetill Sigurd (2008). Molecular phylogeny of Hydrurus, a fresh water chrysophyte rich in lipids.
  • Minge, Marianne Aastebøl; Shalchian-Tabrizi, Kamran & Jakobsen, Kjetill Sigurd (2008). Chimeric proteomes: The plastid evolution of the green dinoflagellate Lepidodinium chlorophorum.
  • Minge, Marianne Aastebøl; Silberman, Jeffrey; Orr, Russell; Cavalier-Smith, Thomas; Shalchian-Tabrizi, Kamran; Burki, Fabien; Skjæveland, Åsmund & Jakobsen, Kjetill Sigurd (2008). Breviata anathema - an unusual Amoebozoa.
  • Shalchian-Tabrizi, Kamran (2008). Cross-colonisation of marine and freshwater in Telonemia, cryptomonads and Perkinsea.
  • Shalchian-Tabrizi, Kamran (2008, 09. juni). Dyrenes opprinnelse. [Internett].  Forskning.no.
  • Shalchian-Tabrizi, Kamran (2008, 27. juni). EVOLUTION: Building the Tree of Life, Genome by Genome.  Science Magazine.
  • Shalchian-Tabrizi, Kamran (2008, 12. desember). Ein portal å rekna med.  Uniforum, UiO.
  • Shalchian-Tabrizi, Kamran (2008). Phylogenomic analyses of the Tree Of Life, with focus on Telonemia.
  • Shalchian-Tabrizi, Kamran (2008). Telonemia - origin and diversity.
  • Shalchian-Tabrizi, Kamran; Minge, Marianne Aastebøl; Espelund, Mari; Orr, Russell; Ruden, Torgeir A.; Jakobsen, Kjetill Sigurd & Cavalier-Smith, Thomas (2008). The Choanozoan Ministeria vibrans: Multigene Phylogeny and the Origin of Animals. Show summary
  • Shalchian-Tabrizi, Kamran (2007, 22. januar). Brukarforum for bioinformatikk på Blindern.  IT-avisa, UiO.
  • Shalchian-Tabrizi, Kamran (2007, 06. desember). Livets tre har mistet en gren.  Apollon.
  • Stensrud, Øyvind; Schumacher, Trond; Shalchian-Tabrizi, Kamran; Svegården, Ingeborg Bjorvand & Kauserud, Håvard (2006). Accelerated evolution and profound AT bias among lineages of the medicinal fungus Cordyceps sinensis. Show summary
  • Shalchian-Tabrizi, Kamran (2006, 05. juli). Norske forskere finner ny livsform. [Internett].  Forsknin.no.
  • Edvardsen, Bente; Eikrem, Wenche; Shalchian-Tabrizi, Kamran; Riisberg, Ingvild; Johnsen, Geir; Naustvoll, Lars & Throndsen, Jahn (2005). Phylogeny of a new ichthyotoxic dictyochophyte forming blooms in the North Sea.
  • Gulden, Gro; Stensrud, Øyvind; Shalchian-Tabrizi, Kamran & Kauserud, Håvard (2005). Galerina Earle: A polyphyletic genus in the consortium of dark-spored agarics. Show summary
  • Logares, Ramiro; Rengefors, Karin; Kremp, Anke; Klaveness, Dag; Shalchian-Tabrizi, Kamran & Boltovskoy, Andrés (2005). A case of rapid evolution? Close evolutionary relationship between a marine and a freshwater dinoflagellate species.
  • Edvardsen, Bente; Eikrem, Wenche; Johnsen, Geir; Shalchian-Tabrizi, Kamran; Riisberg, Ingvild; Naustvoll, Lars & Throndsen, Jahn (2004). Phylogeny of a new ichthyotoxic dictyochophyte forming blooms in the Skagerrak. Show summary

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Published Nov. 3, 2010 3:32 PM - Last modified June 7, 2017 10:36 AM