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Convergent Evolution of Hydrogenosomes from Mitochondria by Gene Transfer and Loss.

Lewis WH, Lind AE, Sendra KM, Onsbring H, Williams TA, Esteban GF, Hirt RP, Ettema TJG, Embley TM.

Mol Biol Evol. 2020 Feb 1;37(2):524-539. doi: 10.1093/molbev/msz239.


Characterization of the BspA and Pmp protein family of trichomonads.

Handrich MR, Garg SG, Sommerville EW, Hirt RP, Gould SB.

Parasit Vectors. 2019 Aug 19;12(1):406. doi: 10.1186/s13071-019-3660-z.


Mucosal microbial parasites/symbionts in health and disease: an integrative overview.

Hirt RP.

Parasitology. 2019 Aug;146(9):1109-1115. doi: 10.1017/S0031182019000647.


A new family of cell surface located purine transporters in Microsporidia and related fungal endoparasites.

Major P, Sendra KM, Dean P, Williams TA, Watson AK, Thwaites DT, Embley TM, Hirt RP.

Elife. 2019 Jul 29;8. pii: e47037. doi: 10.7554/eLife.47037.


The Protozoan Trichomonas vaginalis Targets Bacteria with Laterally Acquired NlpC/P60 Peptidoglycan Hydrolases.

Pinheiro J, Biboy J, Vollmer W, Hirt RP, Keown JR, Artuyants A, Black MM, Goldstone DC, Simoes-Barbosa A.

mBio. 2018 Dec 11;9(6). pii: e01784-18. doi: 10.1128/mBio.01784-18.


Transporter gene acquisition and innovation in the evolution of Microsporidia intracellular parasites.

Dean P, Sendra KM, Williams TA, Watson AK, Major P, Nakjang S, Kozhevnikova E, Goldberg AV, Kunji ERS, Hirt RP, Embley TM.

Nat Commun. 2018 Apr 27;9(1):1709. doi: 10.1038/s41467-018-03923-4.


Evolutionary conservation and in vitro reconstitution of microsporidian iron-sulfur cluster biosynthesis.

Freibert SA, Goldberg AV, Hacker C, Molik S, Dean P, Williams TA, Nakjang S, Long S, Sendra K, Bill E, Heinz E, Hirt RP, Lucocq JM, Embley TM, Lill R.

Nat Commun. 2017 Jan 4;8:13932. doi: 10.1038/ncomms13932.


Microsporidia: Why Make Nucleotides if You Can Steal Them?

Dean P, Hirt RP, Embley TM.

PLoS Pathog. 2016 Nov 17;12(11):e1005870. doi: 10.1371/journal.ppat.1005870. eCollection 2016 Nov. Review.


Symbiotic Association with Mycoplasma hominis Can Influence Growth Rate, ATP Production, Cytolysis and Inflammatory Response of Trichomonas vaginalis.

Margarita V, Rappelli P, Dessì D, Pintus G, Hirt RP, Fiori PL.

Front Microbiol. 2016 Jun 20;7:953. doi: 10.3389/fmicb.2016.00953. eCollection 2016.


A Recent Whole-Genome Duplication Divides Populations of a Globally Distributed Microsporidian.

Williams TA, Nakjang S, Campbell SE, Freeman MA, Eydal M, Moore K, Hirt RP, Embley TM, Williams BA.

Mol Biol Evol. 2016 Aug;33(8):2002-15. doi: 10.1093/molbev/msw083. Epub 2016 Apr 27.


Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis.

Watson AK, Williams TA, Williams BA, Moore KA, Hirt RP, Embley TM.

BMC Genomics. 2015 Nov 21;16:983. doi: 10.1186/s12864-015-1989-z.


Trichomonas vaginalis origins, molecular pathobiology and clinical considerations.

Hirt RP, Sherrard J.

Curr Opin Infect Dis. 2015 Feb;28(1):72-9. doi: 10.1097/QCO.0000000000000128. Review.


Lateral gene transfers and the origins of the eukaryote proteome: a view from microbial parasites.

Hirt RP, Alsmark C, Embley TM.

Curr Opin Microbiol. 2015 Feb;23:155-62. doi: 10.1016/j.mib.2014.11.018. Epub 2014 Dec 5. Review.


Plasma membrane-located purine nucleotide transport proteins are key components for host exploitation by microsporidian intracellular parasites.

Heinz E, Hacker C, Dean P, Mifsud J, Goldberg AV, Williams TA, Nakjang S, Gregory A, Hirt RP, Lucocq JM, Kunji ER, Embley TM.

PLoS Pathog. 2014 Dec 4;10(12):e1004547. doi: 10.1371/journal.ppat.1004547. eCollection 2014 Dec.


What is the importance of zoonotic trichomonads for human health?

Maritz JM, Land KM, Carlton JM, Hirt RP.

Trends Parasitol. 2014 Jul;30(7):333-41. doi: 10.1016/ Epub 2014 Jun 18. Review.


Transport proteins of parasitic protists and their role in nutrient salvage.

Dean P, Major P, Nakjang S, Hirt RP, Embley TM.

Front Plant Sci. 2014 Apr 29;5:153. doi: 10.3389/fpls.2014.00153. eCollection 2014. Review.


Reduction and expansion in microsporidian genome evolution: new insights from comparative genomics.

Nakjang S, Williams TA, Heinz E, Watson AK, Foster PG, Sendra KM, Heaps SE, Hirt RP, Martin Embley T.

Genome Biol Evol. 2013;5(12):2285-303. doi: 10.1093/gbe/evt184.


Trichomonas vaginalis virulence factors: an integrative overview.

Hirt RP.

Sex Transm Infect. 2013 Sep;89(6):439-43. doi: 10.1136/sextrans-2013-051105. Epub 2013 May 21. Review.


Patterns of prokaryotic lateral gene transfers affecting parasitic microbial eukaryotes.

Alsmark C, Foster PG, Sicheritz-Ponten T, Nakjang S, Martin Embley T, Hirt RP.

Genome Biol. 2013 Feb 25;14(2):R19. doi: 10.1186/gb-2013-14-2-r19.


The genome of the obligate intracellular parasite Trachipleistophora hominis: new insights into microsporidian genome dynamics and reductive evolution.

Heinz E, Williams TA, Nakjang S, Noël CJ, Swan DC, Goldberg AV, Harris SR, Weinmaier T, Markert S, Becher D, Bernhardt J, Dagan T, Hacker C, Lucocq JM, Schweder T, Rattei T, Hall N, Hirt RP, Embley TM.

PLoS Pathog. 2012;8(10):e1002979. doi: 10.1371/journal.ppat.1002979. Epub 2012 Oct 25.


Microbase2.0: a generic framework for computationally intensive bioinformatics workflows in the cloud.

Flanagan K, Nakjang S, Hallinan J, Harwood C, Hirt RP, Pocock MR, Wipat A.

J Integr Bioinform. 2012 Sep 24;9(2):212. doi: 10.2390/biecoll-jib-2012-212.


Data mining the human gut microbiota for therapeutic targets.

Collison M, Hirt RP, Wipat A, Nakjang S, Sanseau P, Brown JR.

Brief Bioinform. 2012 Nov;13(6):751-68. doi: 10.1093/bib/bbs002. Epub 2012 Mar 24. Review.


A novel extracellular metallopeptidase domain shared by animal host-associated mutualistic and pathogenic microbes.

Nakjang S, Ndeh DA, Wipat A, Bolam DN, Hirt RP.

PLoS One. 2012;7(1):e30287. doi: 10.1371/journal.pone.0030287. Epub 2012 Jan 27.


Trichomonas vaginalis pathobiology new insights from the genome sequence.

Hirt RP, de Miguel N, Nakjang S, Dessi D, Liu YC, Diaz N, Rappelli P, Acosta-Serrano A, Fiori PL, Mottram JC.

Adv Parasitol. 2011;77:87-140. doi: 10.1016/B978-0-12-391429-3.00006-X. Review.


Automatic extraction of microorganisms and their habitats from free text using text mining workflows.

Kolluru B, Nakjang S, Hirt RP, Wipat A, Ananiadou S.

J Integr Bioinform. 2011 Oct 10;8(2):184. doi: 10.2390/biecoll-jib-2011-184.


A metazoan/plant-like capping enzyme and cap modified nucleotides in the unicellular eukaryote Trichomonas vaginalis.

Simoes-Barbosa A, Hirt RP, Johnson PJ.

PLoS Pathog. 2010 Jul 15;6(7):e1000999. doi: 10.1371/journal.ppat.1000999.


Trichomonas vaginalis vast BspA-like gene family: evidence for functional diversity from structural organisation and transcriptomics.

Noël CJ, Diaz N, Sicheritz-Ponten T, Safarikova L, Tachezy J, Tang P, Fiori PL, Hirt RP.

BMC Genomics. 2010 Feb 8;11:99. doi: 10.1186/1471-2164-11-99.


Diversity and reductive evolution of mitochondria among microbial eukaryotes.

Hjort K, Goldberg AV, Tsaousis AD, Hirt RP, Embley TM.

Philos Trans R Soc Lond B Biol Sci. 2010 Mar 12;365(1541):713-27. doi: 10.1098/rstb.2009.0224. Review.


Horizontal gene transfer in eukaryotic parasites: a case study of Entamoeba histolytica and Trichomonas vaginalis.

Alsmark UC, Sicheritz-Ponten T, Foster PG, Hirt RP, Embley TM.

Methods Mol Biol. 2009;532:489-500. doi: 10.1007/978-1-60327-853-9_28.


Reductive evolution of the mitochondrial processing peptidases of the unicellular parasites trichomonas vaginalis and giardia intestinalis.

Smíd O, Matusková A, Harris SR, Kucera T, Novotný M, Horváthová L, Hrdý I, Kutejová E, Hirt RP, Embley TM, Janata J, Tachezy J.

PLoS Pathog. 2008 Dec;4(12):e1000243. doi: 10.1371/journal.ppat.1000243. Epub 2008 Dec 19.


The archaebacterial origin of eukaryotes.

Cox CJ, Foster PG, Hirt RP, Harris SR, Embley TM.

Proc Natl Acad Sci U S A. 2008 Dec 23;105(51):20356-61. doi: 10.1073/pnas.0810647105. Epub 2008 Dec 10.


A novel route for ATP acquisition by the remnant mitochondria of Encephalitozoon cuniculi.

Tsaousis AD, Kunji ER, Goldberg AV, Lucocq JM, Hirt RP, Embley TM.

Nature. 2008 May 22;453(7194):553-6. doi: 10.1038/nature06903. Epub 2008 Apr 30.


Localization and functionality of microsporidian iron-sulphur cluster assembly proteins.

Goldberg AV, Molik S, Tsaousis AD, Neumann K, Kuhnke G, Delbac F, Vivares CP, Hirt RP, Lill R, Embley TM.

Nature. 2008 Apr 3;452(7187):624-8. doi: 10.1038/nature06606. Epub 2008 Mar 2.


Structure and content of the Entamoeba histolytica genome.

Clark CG, Alsmark UC, Tazreiter M, Saito-Nakano Y, Ali V, Marion S, Weber C, Mukherjee C, Bruchhaus I, Tannich E, Leippe M, Sicheritz-Ponten T, Foster PG, Samuelson J, Noël CJ, Hirt RP, Embley TM, Gilchrist CA, Mann BJ, Singh U, Ackers JP, Bhattacharya S, Bhattacharya A, Lohia A, Guillén N, Duchêne M, Nozaki T, Hall N.

Adv Parasitol. 2007;65:51-190.


Trichomonas vaginalis surface proteins: a view from the genome.

Hirt RP, Noel CJ, Sicheritz-Ponten T, Tachezy J, Fiori PL.

Trends Parasitol. 2007 Nov;23(11):540-7. Epub 2007 Oct 24. Review.


A genomic survey of the fish parasite Spironucleus salmonicida indicates genomic plasticity among diplomonads and significant lateral gene transfer in eukaryote genome evolution.

Andersson JO, Sjögren AM, Horner DS, Murphy CA, Dyal PL, Svärd SG, Logsdon JM Jr, Ragan MA, Hirt RP, Roger AJ.

BMC Genomics. 2007 Feb 14;8:51.


Of clades and clans: terms for phylogenetic relationships in unrooted trees.

Wilkinson M, McInerney JO, Hirt RP, Foster PG, Embley TM.

Trends Ecol Evol. 2007 Mar;22(3):114-5. Epub 2007 Jan 18. No abstract available.


Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis.

Carlton JM, Hirt RP, Silva JC, Delcher AL, Schatz M, Zhao Q, Wortman JR, Bidwell SL, Alsmark UC, Besteiro S, Sicheritz-Ponten T, Noel CJ, Dacks JB, Foster PG, Simillion C, Van de Peer Y, Miranda-Saavedra D, Barton GJ, Westrop GD, Müller S, Dessi D, Fiori PL, Ren Q, Paulsen I, Zhang H, Bastida-Corcuera FD, Simoes-Barbosa A, Brown MT, Hayes RD, Mukherjee M, Okumura CY, Schneider R, Smith AJ, Vanacova S, Villalvazo M, Haas BJ, Pertea M, Feldblyum TV, Utterback TR, Shu CL, Osoegawa K, de Jong PJ, Hrdy I, Horvathova L, Zubacova Z, Dolezal P, Malik SB, Logsdon JM Jr, Henze K, Gupta A, Wang CC, Dunne RL, Upcroft JA, Upcroft P, White O, Salzberg SL, Tang P, Chiu CH, Lee YS, Embley TM, Coombs GH, Mottram JC, Tachezy J, Fraser-Liggett CM, Johnson PJ.

Science. 2007 Jan 12;315(5809):207-12.


Dramatic reorganisation of Trichomonas endomembranes during amoebal transformation: a possible role for G-proteins.

Lal K, Noel CJ, Field MC, Goulding D, Hirt RP.

Mol Biochem Parasitol. 2006 Jul;148(1):99-102. Epub 2006 Mar 31. No abstract available.


Identification of a very large Rab GTPase family in the parasitic protozoan Trichomonas vaginalis.

Lal K, Field MC, Carlton JM, Warwicker J, Hirt RP.

Mol Biochem Parasitol. 2005 Oct;143(2):226-35.


The genome of the protist parasite Entamoeba histolytica.

Loftus B, Anderson I, Davies R, Alsmark UC, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ, Nozaki T, Suh B, Pop M, Duchene M, Ackers J, Tannich E, Leippe M, Hofer M, Bruchhaus I, Willhoeft U, Bhattacharya A, Chillingworth T, Churcher C, Hance Z, Harris B, Harris D, Jagels K, Moule S, Mungall K, Ormond D, Squares R, Whitehead S, Quail MA, Rabbinowitsch E, Norbertczak H, Price C, Wang Z, Guillén N, Gilchrist C, Stroup SE, Bhattacharya S, Lohia A, Foster PG, Sicheritz-Ponten T, Weber C, Singh U, Mukherjee C, El-Sayed NM, Petri WA Jr, Clark CG, Embley TM, Barrell B, Fraser CM, Hall N.

Nature. 2005 Feb 24;433(7028):865-8.


Trichomonas hydrogenosomes contain the NADH dehydrogenase module of mitochondrial complex I.

Hrdy I, Hirt RP, Dolezal P, Bardonová L, Foster PG, Tachezy J, Embley TM.

Nature. 2004 Dec 2;432(7017):618-22.


RACE and RAGE cloning in parasitic microbial eukaryotes.

Williams BA, Hirt RP.

Methods Mol Biol. 2004;270:151-72.


The amitochondriate eukaryote Trichomonas vaginalis contains a divergent thioredoxin-linked peroxiredoxin antioxidant system.

Coombs GH, Westrop GD, Suchan P, Puzova G, Hirt RP, Embley TM, Mottram JC, Müller S.

J Biol Chem. 2004 Feb 13;279(7):5249-56. Epub 2003 Nov 20.


Biochemical and genetic evidence for a family of heterotrimeric G-proteins in Trichomonas vaginalis.

Hirt RP, Lal K, Pinxteren J, Warwicker J, Healy B, Coombs GH, Field MC, Embley TM.

Mol Biochem Parasitol. 2003 Jul;129(2):179-89.


Horizontal gene transfer and the evolution of parasitic protozoa.

Richards TA, Hirt RP, Williams BA, Embley TM.

Protist. 2003 Apr;154(1):17-32. No abstract available.


Molecular evolution of the vertebrate blood coagulation network.

Davidson CJ, Hirt RP, Lal K, Snell P, Elgar G, Tuddenham EG, McVey JH.

Thromb Haemost. 2003 Mar;89(3):420-8.


A novel potential surface protein in Trichomonas vaginalis contains a leucine-rich repeat shared by micro-organisms from all three domains of life.

Hirt RP, Harriman N, Kajava AV, Embley TM.

Mol Biochem Parasitol. 2002 Nov-Dec;125(1-2):195-9. No abstract available.


The diversity and evolution of thioredoxin reductase: new perspectives.

Hirt RP, Müller S, Embley TM, Coombs GH.

Trends Parasitol. 2002 Jul;18(7):302-8. Review.


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