Photo: Mari Karlstad
Bastian Fromm
Job description
Dr. Fromm er førsteamanuensis i zoologi, kurator for virveldy samlingen og leder for forskningsgruppen for biosystematikk og paleotranskriptomikk, finansiert av Tromsø forskningsstiftelse. Gruppens hovedinteresse er dyreevolusjon ved bruk av ikke-kodende RNA-gener, som mikroRNAer, i moderne, historiske og eldgamle prøver. Gruppen benytter banebrytende metoder innen molekylærbiologi (enkeltcelle-sekvensering) og beregningsmessige verktøy (maskinlæring på kovariansmodeller).
Se prosjektet MIRevolution.
Emilio Mármol-Sánchez,
Bastian Fromm,
Nikolay Oskolkov,
Zoé Pochon,
Marianne Dehasque,
Morteza Aslanzadeh
et al.:
Ancient RNA expression profiles from the extinct woolly mammoth
Maibritt Mardahl,
Eline P. Hansen,
Bastian Fromm,
Anne Borup,
Bradley Whitehead,
Anders T. Boysen
et al.:
Analysis of Oesophagostomum dentatum excretory-secretory molecules and extracellular vesicles uncovers a repertoire of microRNAs shared with A. Suum and T. Suis and ES containing Paz and Piwi domain proteins implicated in RNAi signaling
Thomas Brown,
Ketan Mishra,
Ahmed Elewa,
Svetlana Iarovenko,
Elaiyaraja Subramanian,
Alberto Joven Araus
et al.:
Chromosome-scale genome assembly reveals how repeat elements shape non-coding RNA landscapes active during newt limb regeneration
Katrine Toft,
Marie Louise Honoré,
Nichol Ripley,
Martin K. Nielsen,
Maibritt Mardahl,
Bastian Fromm
et al.:
Profiling host- and parasite-derived miRNAs associated with Strongylus vulgaris infection in horses
Katrine Toft,
Maibritt Mardahl,
Ylva Hedberg-Alm,
Karin Anlén,
Eva Tydén,
Martin K. Nielsen
et al.:
Evaluation of circulating microRNAs in plasma from horses with non-strangulating intestinal infarction and idiopathic peritonitis
Antony Brown,
Mary Lucas,
Inger Greve Alsos,
Bastian Fromm,
S. Hudson
:
The sedaDNA revolution and archaeology: Progress, challenges, and a research agenda
Alexander W. Clarke,
Eirik Høye,
Anju Angelina Hembrom,
Vanessa Molin Paynter,
Jakob Vinther,
Lukasz Wyrozemski
et al.:
MirGeneDB 3.0: Improved taxonomic sampling, uniform nomenclature of novel conserved microRNA families and updated covariance models
Holger Herlyn,
Anju Angelina Hembrom,
Juan Pablo Tosar,
Katharina M. Mauer,
Hanno Schmidt,
Bahram Sayyaf Dezfuli
et al.:
Substantial hierarchical reductions of genetic and morphological traits in the evolution of rotiferan parasites
Genome Biology and Evolution (GBE) 2025 ARKIV
Katrine Toft,
Marie Louise Honoré,
Nichol E. Ripley,
Martin K. Nielsen,
Bastian Fromm,
Maibritt Mardahl
et al.:
The microRNAome of Strongylus vulgaris larvae and their excretory/secretory products with identification of parasite-derived microRNAs in horse arterial tissue
Daqi Yu,
Yandong Ren,
Masahiro Uesaka,
Alan Beavan,
Matthieu Muffato,
Jieyu Shen
et al.:
Hagfish genome sequence sheds light on early vertebrate genome evolution
Philipp H. Schiffer,
Paschalis Natsidis,
Daniel J. Leite,
Helen E. Robertson,
François Lapraz,
Ferdinand Marlétaz
et al.:
Insights into early animal evolution from the genome of the xenacoelomorph worm Xenoturbella bocki
Bastian Fromm
:
A renaissance of microRNAs as taxonomic and phylogenetic markers in animals
Bastian Fromm,
Thomas Sorger
:
Rapid adaptation of cellular metabolic rate to the MicroRNA complements of mammals and its relevance to the evolution of endothermy
Sinan Ugur Umu,
Vanessa Molin Paynter,
Håvard Trondsen,
Tilo Buschmann,
Trine Ballestad Rounge,
Kevin J. Peterson
et al.:
Accurate microRNA annotation of animal genomes using trained covariance models of curated microRNA complements in MirMachine
Eirik Høye,
Vegar Johansen Dagenborg,
Annette Torgunrud Kristensen,
Christin Lund-Andersen,
Åsmund Avdem Fretland,
Susanne Lorenz
et al.:
T cell receptor repertoire sequencing reveals chemotherapy-driven clonal expansion in colorectal liver metastases
Emilio Mármol-Sánchez,
Bastian Fromm,
Nikolay Oskolkov,
Zoé Pochon,
Panagiotis Kalogeropoulos,
Eli Eriksson
et al.:
Historical RNA expression profiles from the extinct Tasmanian tiger
Ana E. Jenike,
Katharine M. Jenike,
Kevin J. Peterson,
Bastian Fromm,
Marc K. Halushka
:
Direct observation of the evolution of cell-type-specific microRNA expression signatures supports the hematopoietic origin model of endothelial cells
Kevin Peterson,
Alan Beavan,
Peter J Chabot,
Mark A McPeek,
Davide Pisani,
Bastian Fromm
et al.:
MicroRNAs as Indicators into the Causes and Consequences of Whole-Genome Duplication Events
Bastian Fromm,
Eirik Høye,
Diana Domanska,
Xiangfu Zhong,
Ernesto Aparicio-Puerta,
Vladimir Ovchinnikov
et al.:
MirGeneDB 2.1: toward a complete sampling of all major animal phyla
Ernesto Aparicio-Puerta,
Cristina Gómez-Martín,
Stavros Giannoukakos,
José María Medina,
Chantal Scheepbouwer,
Adrián García-Moreno
et al.:
sRNAbench and sRNAtoolbox 2022 update: accurate miRNA and sncRNA profiling for model and non-model organisms
Bastian Fromm,
Xiangfu Zhong,
Marcel Tarbier,
Marc R. Friedländer,
Michael Hackenberg
:
The limits of human microRNA annotation have been met
Eirik Høye,
Bastian Fromm,
Paul H.M. Böttger,
Diana Domanska,
Annette Torgunrud Kristensen,
Christin Lund-Andersen
et al.:
A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer
Grygoriy Zolotarov,
Bastian Fromm,
Ivano Legnini,
Salah Ayoub,
Gianluca Polese,
Valeria Maselli
et al.:
MicroRNAs are deeply linked to the emergence of the complex octopus brain
Rui-Si Hu,
Xiao-Xuan Zhang,
Qiao-Ni Ma,
Hany M Elsheika,
Muhammad Ehsan,
Quan Zhao
et al.:
Differential expression of microRNAs and tRNA fragments mediate the adaptation of the liver fluke Fasciola gigantica to its intermediate snail and definitive mammalian hosts
Umberto Rosani,
Enrico Bortoletto,
Chang-Ming Bai,
Beatriz Novoa,
Antonio Figueras,
Paola Venier
et al.:
Digging into bivalve miRNAomes: between conservation and innovation
Wenjing Kang,
Bastian Fromm,
Anna J. Houben,
Eirik Høye,
Daniela Bezdan,
Carme Arnan
et al.:
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells
Baoqing Chen,
Mihnea Paul Dragomir,
Linda Fabris,
Recep Bayraktar,
Erik Knutsen,
Xu Liu
et al.:
The long noncoding RNA CCAT2 induces chromosomal instability through BOP1-AURKB signaling
Bastian Fromm,
Diana Ewa Domanska,
Eirik Høye,
Vladimir Ovchinnikov,
Wenjing Kang,
Ernesto Aparicio-Puerta
et al.:
MirGeneDB 2.0: the metazoan microRNA complement
Christin Lund-Andersen,
Sigve Nakken,
Ståle Nygård,
Bastian Fromm,
Lars Birger Aasheim,
Ben Davidson
et al.:
Integrative genomic analysis of peritoneal malignant mesothelioma: Understanding a case with extraordinary chemotherapy response
Eline P. Hansen,
Bastian Fromm,
Sidsel D. Andersen,
Antonio Marcilla,
Kasper L. Andersen,
Anne Borup
et al.:
Exploration of extracellular vesicles from Ascaris suum provides evidence of parasite-host cross talk
Sinan Ugur Umu,
Hilde Langseth,
Cecilie Bucher-Johannessen,
Bastian Fromm,
Andreas Keller,
Eckart Meese
et al.:
A comprehensive profile of circulating RNAs in human serum
Jon Bråte,
Ralf Stefan Neumann,
Bastian Fromm,
Arthur Alexander Blørstad Haraldsen,
James E. Tarver,
Hiroshi Suga
et al.:
Unicellular origin of the animal microRNA machinery
James E. Tarver,
Richard S. Taylor,
Mark N. Puttick,
Graeme T. Lloyd,
Walker Pett,
Bastian Fromm
et al.:
Well-annotated microRNAomes do not evidence pervasive miRNA loss
Vladimir Y. Ovchinnikov,
Viatcheslav A Mordvinov,
Bastian Fromm
:
Extreme conservation of miRNA complements in opisthorchiids
Bernhard Egger,
Lutz Bachmann,
Bastian Fromm
:
Atp8 is in the ground pattern of flatworm mitochondrial genomes
Bastian Fromm,
Vladimir Y. Ovchinnikov,
Eirik Høye,
Dolores Bernal,
Michael Hackenberg,
Antonio Marcilla
:
On the presence and immunoregulatory functions of extracellular microRNAs in the trematode Fasciola hepatica
Alex Graudenzi,
Claudia Cava,
Gloria Bertoli,
Bastian Fromm,
Kjersti Flatmark,
Giancarlo Mauri
et al.:
Pathway-based classification of breast cancer subtypes
Frontiers in Bioscience 2017 ARKIV
Boris Simovski,
Daniel Vodak,
Sveinung Gundersen,
Diana Ewa Domanska,
Abdulrahman Azab,
Lars Holden
et al.:
GSuite HyperBrowser: integrative analysis of dataset collections across the genome and epigenome
Guillem Ylla,
Bastian Fromm,
Maria-Dolors Piulachs,
Xavier Belles
:
The microRNA toolkit of insects
Lutz Bachmann,
Bastian Fromm,
Luciana Patella de Azambuja,
Walter Boeger
:
The mitochondrial genome of the egg-laying flatworm Aglaiogyrodactylus forficulatus (Platyhelminthes: Monogenoidea)
João Ramalho-Carvalho,
Bastian Fromm,
Rui Henrique,
Carmen Jerónimo
:
Deciphering the function of non-coding RNAs in prostate cancer
Vilde Drageset Haakensen,
Vegard Nygaard,
Liliana Greger,
Miriam Ragle Aure,
Bastian Fromm,
Ida Rashida Khan Bukholm
et al.:
Subtype-specific micro-RNA expression signatures in breast cancer progression
Kjersti Flatmark,
Erik Ulvolden Høye,
Bastian Fromm
:
microRNAs as cancer biomarkers
Bastian Fromm,
Arun H. Patil,
Marc K. Halushka
:
A Novel Circulating MicroRNA for the Detection of Acute Myocarditis
Bastian Fromm,
Diana Domanska,
Eirik Høye,
Vladimir Ovchinnikov,
Wenjing Kang,
Ernesto Aparicio-Puerta
et al.:
Erratum: MirGeneDB 2.0: The metazoan microRNA complement (Nucleic Acids Research (2019) DOI: 10.1093/nar/gkz885)
Bastian Fromm,
Wenjing Kang,
Carlos Rovira,
Alfonso Cayota,
Kenneth W Witwer,
Marc R. Friedländer
et al.:
Plant microRNAs in human sera are likely contaminants
Bastian Fromm,
Juan Pablo Tosar,
Yin Lu,
Marc K. Halushka,
Kenneth W. Witwer
:
Human and Cow Have Identical miR-21-5p and miR-30a-5p Sequences, Which Are Likely Unsuited to Study Dietary Uptake from Cow Milk
Marta Rodriguez,
Cristina Bajo-Santos,
Nina Pettersen Hessvik,
Susanne Lorenz,
Bastian Fromm,
Viktor Berge
et al.:
Identification of non-invasive miRNAs biomarkers for prostate cancer by deep sequencing analysis of urinary exosomes
Arthur Alexander Blørstad Haraldsen,
Jon Bråte,
Ralf Stefan Neumann,
Bastian Fromm,
Paul Eivind Grini,
Kamran Shalchian-Tabrizi
:
Pre-metazoan origin of animal microRNAs
2016 ARKIV
Bastian Fromm,
Jutta Bachmann,
Lutz Bachmann
:
Auf der Suche nach der genetischen Basis von Ekto- und Endoparasitismus der Plattwürmer
Biologie in unserer Zeit 2015 ARKIV
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Research interests
Finnes det en drivkraft for dyrelivets evolusjonen som forklarer livets enorme mangfoldet, og kan det også hjelpe oss å forstå den enorme suksessen til parasittiske arter som påvirker oss?
Et underliggende og viktig trekk som går igjen i begge prosesser er små molekyler kalt mikroRNA. Etter at mikroRNA ble oppdaget for rundt 20 år siden, er de i dag de mest studerte molekylene noensinne, med mer enn 16.000 årlige publikasjoner. MikroRNA finnes i alle dyr og regulerer viktige biologiske prosesser. Deres primære funksjon er å gjøre små finjusteringer av gen-programmer. Imidlertid er mikroRNA-feltet, som følge av den enorme mengden publikasjoner, fullt av motstridende rapporter. Dette hindrer innsikt og forståelse av den underliggende biologien.
Forskningen til Dr. Bastian Fromm har tidligere adressert dette med mikroRNA-gendatabasen MirGeneDB. Dette har dermed lagt grunnlaget for å transformere mikroRNA-feltet fra et kvalitativt nivå til et kvantitativt nivå, noe som gjør det mulig å stille helt nye, grunnleggende spørsmål.
I dette TFS-prosjektet (MIRevolution) vil Dr. Fromm og hans gruppe bruke nye sekvenseringsmetoder, toppmoderne enkeltcelleeksperimenter. Prosjektet vil dra nytte av det unike biologiske mangfoldet i Tromsø, for å utdype forståelsen av dyre evolusjon, og spesielt parasitter. Ved bruk av mikroRNA vil viktige spørsmål innen systematikk og genregulering bli behandlet. Fromm Gruppen vil videre samarbeide med det ancient DNA-laboratoriet ved museet og museets samling. Dette tilrettelegger for å bruke mikroRNA i det helt nye forskningsfeltet paleotranscriptomics, som for første gang muliggjør genekspresjons studier i lenge dødt biologisk materiale.