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Downregulation of mTOR Signaling Increases Stem Cell Population Telomere Length during Starvation of Immortal Planarians.

Iglesias M, Felix DA, Gutiérrez-Gutiérrez Ó, De Miguel-Bonet MDM, Sahu S, Fernández-Varas B, Perona R, Aboobaker AA, Flores I, González-Estévez C.

Stem Cell Reports. 2019 Aug 13;13(2):405-418. doi: 10.1016/j.stemcr.2019.06.005. Epub 2019 Jul 25.


Conservation of epigenetic regulation by the MLL3/4 tumour suppressor in planarian pluripotent stem cells.

Mihaylova Y, Abnave P, Kao D, Hughes S, Lai A, Jaber-Hijazi F, Kosaka N, Aboobaker AA.

Nat Commun. 2018 Sep 7;9(1):3633. doi: 10.1038/s41467-018-06092-6.


Epigenetic analyses of planarian stem cells demonstrate conservation of bivalent histone modifications in animal stem cells.

Dattani A, Kao D, Mihaylova Y, Abnave P, Hughes S, Lai A, Sahu S, Aboobaker AA.

Genome Res. 2018 Oct;28(10):1543-1554. doi: 10.1101/gr.239848.118. Epub 2018 Aug 24.


Efficient transgenesis and annotated genome sequence of the regenerative flatworm model Macrostomum lignano.

Wudarski J, Simanov D, Ustyantsev K, de Mulder K, Grelling M, Grudniewska M, Beltman F, Glazenburg L, Demircan T, Wunderer J, Qi W, Vizoso DB, Weissert PM, Olivieri D, Mouton S, Guryev V, Aboobaker A, Schärer L, Ladurner P, Berezikov E.

Nat Commun. 2017 Dec 14;8(1):2120. doi: 10.1038/s41467-017-02214-8.


EvoRegen in animals: Time to uncover deep conservation or convergence of adult stem cell evolution and regenerative processes.

Lai AG, Aboobaker AA.

Dev Biol. 2018 Jan 15;433(2):118-131. doi: 10.1016/j.ydbio.2017.10.010. Epub 2017 Nov 30. Review.


Epithelial-mesenchymal transition transcription factors control pluripotent adult stem cell migration in vivo in planarians.

Abnave P, Aboukhatwa E, Kosaka N, Thompson J, Hill MA, Aboobaker AA.

Development. 2017 Oct 1;144(19):3440-3453. doi: 10.1242/dev.154971. Epub 2017 Sep 11.


Secrets from immortal worms: What can we learn about biological ageing from the planarian model system?

Sahu S, Dattani A, Aboobaker AA.

Semin Cell Dev Biol. 2017 Oct;70:108-121. doi: 10.1016/j.semcdb.2017.08.028. Epub 2017 Aug 15. Review.


The abrogation of condensin function provides independent evidence for defining the self-renewing population of pluripotent stem cells.

Lai AG, Kosaka N, Abnave P, Sahu S, Aboobaker AA.

Dev Biol. 2018 Jan 15;433(2):218-226. doi: 10.1016/j.ydbio.2017.07.023. Epub 2017 Jul 28.


Organ specific gene expression in the regenerating tail of Macrostomum lignano.

Lengerer B, Wunderer J, Pjeta R, Carta G, Kao D, Aboobaker A, Beisel C, Berezikov E, Salvenmoser W, Ladurner P.

Dev Biol. 2018 Jan 15;433(2):448-460. doi: 10.1016/j.ydbio.2017.07.021. Epub 2017 Jul 28.


Argonaute Utilization for miRNA Silencing Is Determined by Phosphorylation-Dependent Recruitment of LIM-Domain-Containing Proteins.

Bridge KS, Shah KM, Li Y, Foxler DE, Wong SCK, Miller DC, Davidson KM, Foster JG, Rose R, Hodgkinson MR, Ribeiro PS, Aboobaker AA, Yashiro K, Wang X, Graves PR, Plevin MJ, Lagos D, Sharp TV.

Cell Rep. 2017 Jul 5;20(1):173-187. doi: 10.1016/j.celrep.2017.06.027.


Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species.

Lai AG, Aboobaker AA.

BMC Genomics. 2017 May 18;18(1):389. doi: 10.1186/s12864-017-3769-4.


A double vacuum window mechanism for space-borne applications.

Zilic K, Aboobaker A, Aubin F, Geach C, Hanany S, Jarosik N, Milligan M, Sagiv I.

Rev Sci Instrum. 2017 Apr;88(4):045112. doi: 10.1063/1.4981814.


The protein subunit of telomerase displays patterns of dynamic evolution and conservation across different metazoan taxa.

Lai AG, Pouchkina-Stantcheva N, Di Donfrancesco A, Kildisiute G, Sahu S, Aboobaker AA.

BMC Evol Biol. 2017 Apr 26;17(1):107. doi: 10.1186/s12862-017-0949-4.


Non-canonical aging model systems and why we need them.

Valenzano DR, Aboobaker A, Seluanov A, Gorbunova V.

EMBO J. 2017 Apr 13;36(8):959-963. doi: 10.15252/embj.201796837. Epub 2017 Mar 20. Review. No abstract available.


The genome of the crustacean Parhyale hawaiensis, a model for animal development, regeneration, immunity and lignocellulose digestion.

Kao D, Lai AG, Stamataki E, Rosic S, Konstantinides N, Jarvis E, Di Donfrancesco A, Pouchkina-Stancheva N, Sémon M, Grillo M, Bruce H, Kumar S, Siwanowicz I, Le A, Lemire A, Eisen MB, Extavour C, Browne WE, Wolff C, Averof M, Patel NH, Sarkies P, Pavlopoulos A, Aboobaker A.

Elife. 2016 Nov 16;5. pii: e20062. doi: 10.7554/eLife.20062.


No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini.

Koutsovoulos G, Kumar S, Laetsch DR, Stevens L, Daub J, Conlon C, Maroon H, Thomas F, Aboobaker AA, Blaxter M.

Proc Natl Acad Sci U S A. 2016 May 3;113(18):5053-8. doi: 10.1073/pnas.1600338113. Epub 2016 Mar 24.


Feedback control in planarian stem cell systems.

Mangel M, Bonsall MB, Aboobaker A.

BMC Syst Biol. 2016 Feb 13;10:17. doi: 10.1186/s12918-016-0261-8.


JNK signalling is necessary for a Wnt- and stem cell-dependent regeneration programme.

Tejada-Romero B, Carter JM, Mihaylova Y, Neumann B, Aboobaker AA.

Development. 2015 Jul 15;142(14):2413-24. doi: 10.1242/dev.115139. Epub 2015 Jun 10.


Characterisation of the horse transcriptome from immunologically active tissues.

Moreton J, Malla S, Aboobaker AA, Tarlinton RE, Emes RD.

PeerJ. 2014 May 6;2:e382. doi: 10.7717/peerj.382. eCollection 2014.


The CCR4-NOT complex mediates deadenylation and degradation of stem cell mRNAs and promotes planarian stem cell differentiation.

Solana J, Gamberi C, Mihaylova Y, Grosswendt S, Chen C, Lasko P, Rajewsky N, Aboobaker AA.

PLoS Genet. 2013;9(12):e1004003. doi: 10.1371/journal.pgen.1004003. Epub 2013 Dec 19.


Fine mapping of the pond snail left-right asymmetry (chirality) locus using RAD-Seq and fibre-FISH.

Liu MM, Davey JW, Banerjee R, Han J, Yang F, Aboobaker A, Blaxter ML, Davison A.

PLoS One. 2013 Aug 12;8(8):e71067. doi: 10.1371/journal.pone.0071067. eCollection 2013.


The miR-30 microRNA family targets smoothened to regulate hedgehog signalling in zebrafish early muscle development.

Ketley A, Warren A, Holmes E, Gering M, Aboobaker AA, Brook JD.

PLoS One. 2013 Jun 5;8(6):e65170. doi: 10.1371/journal.pone.0065170. Print 2013. Erratum in: PLoS One. 2013;8(11). doi:10.1371/annotation/4e68e9f8-74c0-4c45-828f-7d51786c13e2.


What is it about 'eye of newt'?

Mihaylova Y, Aboobaker AA.

Genome Biol. 2013 Feb 20;14(2):106. doi: 10.1186/gb-2013-14-2-106.


PBX/extradenticle is required to re-establish axial structures and polarity during planarian regeneration.

Blassberg RA, Felix DA, Tejada-Romero B, Aboobaker AA.

Development. 2013 Feb;140(4):730-9. doi: 10.1242/dev.082982. Epub 2013 Jan 14.


FACS analysis of the planarian stem cell compartment as a tool to understand regenerative mechanisms.

Romero BT, Evans DJ, Aboobaker AA.

Methods Mol Biol. 2012;916:167-79. doi: 10.1007/978-1-61779-980-8_13.


Uncovering the genome-wide transcriptional responses of the filamentous fungus Aspergillus niger to lignocellulose using RNA sequencing.

Delmas S, Pullan ST, Gaddipati S, Kokolski M, Malla S, Blythe MJ, Ibbett R, Campbell M, Liddell S, Aboobaker A, Tucker GA, Archer DB.

PLoS Genet. 2012;8(8):e1002875. doi: 10.1371/journal.pgen.1002875. Epub 2012 Aug 9.


Characterisation of retroviruses in the horse genome and their transcriptional activity via transcriptome sequencing.

Brown K, Moreton J, Malla S, Aboobaker AA, Emes RD, Tarlinton RE.

Virology. 2012 Nov 10;433(1):55-63. doi: 10.1016/j.virol.2012.07.010. Epub 2012 Aug 4.


A lack of commitment for over 500 million years: conserved animal stem cell pluripotency.

Aboobaker AA, Kao D.

EMBO J. 2012 Jun 13;31(12):2747-9. doi: 10.1038/emboj.2012.131. Epub 2012 May 4.


SMG-1 and mTORC1 act antagonistically to regulate response to injury and growth in planarians.

González-Estévez C, Felix DA, Smith MD, Paps J, Morley SJ, James V, Sharp TV, Aboobaker AA.

PLoS Genet. 2012;8(3):e1002619. doi: 10.1371/journal.pgen.1002619. Epub 2012 Mar 29.


High through-put sequencing of the Parhyale hawaiensis mRNAs and microRNAs to aid comparative developmental studies.

Blythe MJ, Malla S, Everall R, Shih YH, Lemay V, Moreton J, Wilson R, Aboobaker AA.

PLoS One. 2012;7(3):e33784. doi: 10.1371/journal.pone.0033784. Epub 2012 Mar 20.


Defining the molecular profile of planarian pluripotent stem cells using a combinatorial RNAseq, RNA interference and irradiation approach.

Solana J, Kao D, Mihaylova Y, Jaber-Hijazi F, Malla S, Wilson R, Aboobaker A.

Genome Biol. 2012;13(3):R19. doi: 10.1186/gb-2012-13-3-r19.


Telomere maintenance and telomerase activity are differentially regulated in asexual and sexual worms.

Tan TC, Rahman R, Jaber-Hijazi F, Felix DA, Chen C, Louis EJ, Aboobaker A.

Proc Natl Acad Sci U S A. 2012 Mar 13;109(11):4209-14. doi: 10.1073/pnas.1118885109. Epub 2012 Feb 27.


Decreased neoblast progeny and increased cell death during starvation-induced planarian degrowth.

González-Estévez C, Felix DA, Rodríguez-Esteban G, Aboobaker AA.

Int J Dev Biol. 2012;56(1-3):83-91. doi: 10.1387/ijdb.113452cg.


Combining classical and molecular approaches elaborates on the complexity of mechanisms underpinning anterior regeneration.

Evans DJ, Owlarn S, Tejada Romero B, Chen C, Aboobaker AA.

PLoS One. 2011;6(11):e27927. doi: 10.1371/journal.pone.0027927. Epub 2011 Nov 18.


Early planarian brain regeneration is independent of blastema polarity mediated by the Wnt/β-catenin pathway.

Iglesias M, Almuedo-Castillo M, Aboobaker AA, Saló E.

Dev Biol. 2011 Oct 1;358(1):68-78. doi: 10.1016/j.ydbio.2011.07.013. Epub 2011 Jul 20.


Planarian stem cells: a simple paradigm for regeneration.

Aboobaker AA.

Trends Cell Biol. 2011 May;21(5):304-11. doi: 10.1016/j.tcb.2011.01.005. Epub 2011 Feb 25. Review.


A dual platform approach to transcript discovery for the planarian Schmidtea mediterranea to establish RNAseq for stem cell and regeneration biology.

Blythe MJ, Kao D, Malla S, Rowsell J, Wilson R, Evans D, Jowett J, Hall A, Lemay V, Lam S, Aboobaker AA.

PLoS One. 2010 Dec 14;5(12):e15617. doi: 10.1371/journal.pone.0015617.


The nematode story: Hox gene loss and rapid evolution.

Aboobaker A, Blaxter M.

Adv Exp Med Biol. 2010;689:101-10.


The TALE class homeobox gene Smed-prep defines the anterior compartment for head regeneration.

Felix DA, Aboobaker AA.

PLoS Genet. 2010 Apr 22;6(4):e1000915. doi: 10.1371/journal.pgen.1000915.


Diverse miRNA spatial expression patterns suggest important roles in homeostasis and regeneration in planarians.

González-Estévez C, Arseni V, Thambyrajah RS, Felix DA, Aboobaker AA.

Int J Dev Biol. 2009;53(4):493-505. doi: 10.1387/ijdb.082825cg.


Piggybacking schistosome invasion: similarities are only skin deep.

Pleass RJ, Aboobaker AA, Schmitt AO.

Trends Parasitol. 2008 Apr;24(4):153-6. doi: 10.1016/ Epub 2008 Mar 7.


Gtdap-1 and the role of autophagy during planarian regeneration and starvation.

González-Estévez C, Felix DA, Aboobaker AA, Saló E.

Autophagy. 2007 Nov-Dec;3(6):640-2. Epub 2007 Aug 24.


Gtdap-1 promotes autophagy and is required for planarian remodeling during regeneration and starvation.

González-Estévez C, Felix DA, Aboobaker AA, Saló E.

Proc Natl Acad Sci U S A. 2007 Aug 14;104(33):13373-8. Epub 2007 Aug 8.


Optical design of the atacama cosmology telescope and the millimeter bolometric array camera.

Fowler JW, Niemack MD, Dicker SR, Aboobaker AM, Ade PA, Battistelli ES, Devlin MJ, Fisher RP, Halpern M, Hargrave PC, Hincks AD, Kaul M, Klein J, Lau JM, Limon M, Marriage TA, Mauskopf PD, Page L, Staggs ST, Swetz DS, Switzer ER, Thornton RJ, Tucker CE.

Appl Opt. 2007 Jun 10;46(17):3444-54.


Evidence for a microRNA expansion in the bilaterian ancestor.

Prochnik SE, Rokhsar DS, Aboobaker AA.

Dev Genes Evol. 2007 Jan;217(1):73-7. Epub 2006 Nov 14.


Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development.

Aboobaker AA, Tomancak P, Patel N, Rubin GM, Lai EC.

Proc Natl Acad Sci U S A. 2005 Dec 13;102(50):18017-22. Epub 2005 Dec 5.


Functional genomics for parasitic nematodes and platyhelminths.

Aboobaker AA, Blaxter ML.

Trends Parasitol. 2004 Apr;20(4):178-84. Review. No abstract available.


Hox gene evolution in nematodes: novelty conserved.

Aboobaker A, Blaxter M.

Curr Opin Genet Dev. 2003 Dec;13(6):593-8. Review.


Use of RNA interference to investigate gene function in the human filarial nematode parasite Brugia malayi.

Aboobaker AA, Blaxter ML.

Mol Biochem Parasitol. 2003 Jun;129(1):41-51.


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