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Items: 21

1.

Improving eukaryotic genome annotation using single molecule mRNA sequencing.

Magrini V, Gao X, Rosa BA, McGrath S, Zhang X, Hallsworth-Pepin K, Martin J, Hawdon J, Wilson RK, Mitreva M.

BMC Genomics. 2018 Mar 1;19(1):172. doi: 10.1186/s12864-018-4555-7.

2.

Genomic introgression mapping of field-derived multiple-anthelmintic resistance in Teladorsagia circumcincta.

Choi YJ, Bisset SA, Doyle SR, Hallsworth-Pepin K, Martin J, Grant WN, Mitreva M.

PLoS Genet. 2017 Jun 23;13(6):e1006857. doi: 10.1371/journal.pgen.1006857. eCollection 2017 Jun.

3.

Genome Sequence of Christensenella minuta DSM 22607T.

Rosa BA, Hallsworth-Pepin K, Martin J, Wollam A, Mitreva M.

Genome Announc. 2017 Jan 12;5(2). pii: e01451-16. doi: 10.1128/genomeA.01451-16.

4.

Genomes of Fasciola hepatica from the Americas Reveal Colonization with Neorickettsia Endobacteria Related to the Agents of Potomac Horse and Human Sennetsu Fevers.

McNulty SN, Tort JF, Rinaldi G, Fischer K, Rosa BA, Smircich P, Fontenla S, Choi YJ, Tyagi R, Hallsworth-Pepin K, Mann VH, Kammili L, Latham PS, Dell'Oca N, Dominguez F, Carmona C, Fischer PU, Brindley PJ, Mitreva M.

PLoS Genet. 2017 Jan 6;13(1):e1006537. doi: 10.1371/journal.pgen.1006537. eCollection 2017 Jan.

5.

Genomic diversity in Onchocerca volvulus and its Wolbachia endosymbiont.

Choi YJ, Tyagi R, McNulty SN, Rosa BA, Ozersky P, Martin J, Hallsworth-Pepin K, Unnasch TR, Norice CT, Nutman TB, Weil GJ, Fischer PU, Mitreva M.

Nat Microbiol. 2016 Nov 21;2:16207. doi: 10.1038/nmicrobiol.2016.207.

6.

Genome Sequences of Nine Gram-Negative Vaginal Bacterial Isolates.

Deitzler GE, Ruiz MJ, Lu W, Weimer C, Park S, Robinson LS, Hallsworth-Pepin K, Wollam A, Mitreva M, Lewis WG, Lewis AL.

Genome Announc. 2016 Sep 29;4(5). pii: e00889-16. doi: 10.1128/genomeA.00889-16.

7.

Genome Sequences of 14 Firmicutes Strains Isolated from the Human Vagina.

Deitzler GE, Ruiz MJ, Weimer C, Park S, Robinson L, Hallsworth-Pepin K, Wollam A, Mitreva M, Lewis AL, Lewis WG.

Genome Announc. 2016 Sep 29;4(5). pii: e00888-16. doi: 10.1128/genomeA.00888-16.

8.

Genome Sequences of 11 Human Vaginal Actinobacteria Strains.

Lewis AL, Deitzler GE, Ruiz MJ, Weimer C, Park S, Robinson LS, Hallsworth-Pepin K, Wollam A, Mitreva M, Lewis WG.

Genome Announc. 2016 Sep 29;4(5). pii: e00887-16. doi: 10.1128/genomeA.00887-16.

9.

Genome Sequences of 12 Bacterial Isolates Obtained from the Urine of Pregnant Women.

Weimer CM, Deitzler GE, Robinson LS, Park S, Hallsworth-Pepin K, Wollam A, Mitreva M, Lewis WG, Lewis AL.

Genome Announc. 2016 Sep 29;4(5). pii: e00882-16. doi: 10.1128/genomeA.00882-16.

10.

Dictyocaulus viviparus genome, variome and transcriptome elucidate lungworm biology and support future intervention.

McNulty SN, Strübe C, Rosa BA, Martin JC, Tyagi R, Choi YJ, Wang Q, Hallsworth Pepin K, Zhang X, Ozersky P, Wilson RK, Sternberg PW, Gasser RB, Mitreva M.

Sci Rep. 2016 Feb 9;6:20316. doi: 10.1038/srep20316.

11.

Cracking the nodule worm code advances knowledge of parasite biology and biotechnology to tackle major diseases of livestock.

Tyagi R, Joachim A, Ruttkowski B, Rosa BA, Martin JC, Hallsworth-Pepin K, Zhang X, Ozersky P, Wilson RK, Ranganathan S, Sternberg PW, Gasser RB, Mitreva M.

Biotechnol Adv. 2015 Nov 1;33(6 Pt 1):980-91. doi: 10.1016/j.biotechadv.2015.05.004. Epub 2015 May 27. Review.

12.

Extreme Sensory Complexity Encoded in the 10-Megabase Draft Genome Sequence of the Chromatically Acclimating Cyanobacterium Tolypothrix sp. PCC 7601.

Yerrapragada S, Shukla A, Hallsworth-Pepin K, Choi K, Wollam A, Clifton S, Qin X, Muzny D, Raghuraman S, Ashki H, Uzman A, Highlander SK, Fryszczyn BG, Fox GE, Tirumalai MR, Liu Y, Kim S, Kehoe DM, Weinstock GM.

Genome Announc. 2015 May 7;3(3). pii: e00355-15. doi: 10.1128/genomeA.00355-15.

13.

Helminth.net: expansions to Nematode.net and an introduction to Trematode.net.

Martin J, Rosa BA, Ozersky P, Hallsworth-Pepin K, Zhang X, Bhonagiri-Palsikar V, Tyagi R, Wang Q, Choi YJ, Gao X, McNulty SN, Brindley PJ, Mitreva M.

Nucleic Acids Res. 2015 Jan;43(Database issue):D698-706. doi: 10.1093/nar/gku1128. Epub 2014 Nov 11.

14.

Genome of the human hookworm Necator americanus.

Tang YT, Gao X, Rosa BA, Abubucker S, Hallsworth-Pepin K, Martin J, Tyagi R, Heizer E, Zhang X, Bhonagiri-Palsikar V, Minx P, Warren WC, Wang Q, Zhan B, Hotez PJ, Sternberg PW, Dougall A, Gaze ST, Mulvenna J, Sotillo J, Ranganathan S, Rabelo EM, Wilson RW, Felgner PL, Bethony J, Hawdon JM, Gasser RB, Loukas A, Mitreva M.

Nat Genet. 2014 Mar;46(3):261-269. doi: 10.1038/ng.2875. Epub 2014 Jan 19.

15.

Gene expression analysis distinguishes tissue-specific and gender-related functions among adult Ascaris suum tissues.

Wang Z, Gao X, Martin J, Yin Y, Abubucker S, Rash AC, Li BW, Nash B, Hallsworth-Pepin K, Jasmer DP, Mitreva M.

Mol Genet Genomics. 2013 Jun;288(5-6):243-60. doi: 10.1007/s00438-013-0743-y. Epub 2013 Apr 10.

16.

Evolutionary Genomics of Salmonella enterica Subspecies.

Desai PT, Porwollik S, Long F, Cheng P, Wollam A, Bhonagiri-Palsikar V, Hallsworth-Pepin K, Clifton SW, Weinstock GM, McClelland M.

mBio. 2013 Mar 5;4(2). pii: e00579-12. doi: 10.1128/mBio.00579-12. Erratum in: MBio. 2013;4(2):e00198-13. Bhonagiri-Palsikar, Veena [added]; Hallsworth-Pepin, Kymberlie [added].

17.

Complete genome sequence of Treponema paraluiscuniculi, strain Cuniculi A: the loss of infectivity to humans is associated with genome decay.

Šmajs D, Zobaníková M, Strouhal M, Čejková D, Dugan-Rocha S, Pospíšilová P, Norris SJ, Albert T, Qin X, Hallsworth-Pepin K, Buhay C, Muzny DM, Chen L, Gibbs RA, Weinstock GM.

PLoS One. 2011;6(5):e20415. doi: 10.1371/journal.pone.0020415. Epub 2011 May 31.

18.

The draft genome of the parasitic nematode Trichinella spiralis.

Mitreva M, Jasmer DP, Zarlenga DS, Wang Z, Abubucker S, Martin J, Taylor CM, Yin Y, Fulton L, Minx P, Yang SP, Warren WC, Fulton RS, Bhonagiri V, Zhang X, Hallsworth-Pepin K, Clifton SW, McCarter JP, Appleton J, Mardis ER, Wilson RK.

Nat Genet. 2011 Mar;43(3):228-35. doi: 10.1038/ng.769. Epub 2011 Feb 20.

19.

Genome sequence of Cronobacter sakazakii BAA-894 and comparative genomic hybridization analysis with other Cronobacter species.

Kucerova E, Clifton SW, Xia XQ, Long F, Porwollik S, Fulton L, Fronick C, Minx P, Kyung K, Warren W, Fulton R, Feng D, Wollam A, Shah N, Bhonagiri V, Nash WE, Hallsworth-Pepin K, Wilson RK, McClelland M, Forsythe SJ.

PLoS One. 2010 Mar 8;5(3):e9556. doi: 10.1371/journal.pone.0009556.

20.

Genome analysis of the platypus reveals unique signatures of evolution.

Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grützner F, Belov K, Miller W, Clarke L, Chinwalla AT, Yang SP, Heger A, Locke DP, Miethke P, Waters PD, Veyrunes F, Fulton L, Fulton B, Graves T, Wallis J, Puente XS, López-Otín C, Ordóñez GR, Eichler EE, Chen L, Cheng Z, Deakin JE, Alsop A, Thompson K, Kirby P, Papenfuss AT, Wakefield MJ, Olender T, Lancet D, Huttley GA, Smit AF, Pask A, Temple-Smith P, Batzer MA, Walker JA, Konkel MK, Harris RS, Whittington CM, Wong ES, Gemmell NJ, Buschiazzo E, Vargas Jentzsch IM, Merkel A, Schmitz J, Zemann A, Churakov G, Kriegs JO, Brosius J, Murchison EP, Sachidanandam R, Smith C, Hannon GJ, Tsend-Ayush E, McMillan D, Attenborough R, Rens W, Ferguson-Smith M, Lefèvre CM, Sharp JA, Nicholas KR, Ray DA, Kube M, Reinhardt R, Pringle TH, Taylor J, Jones RC, Nixon B, Dacheux JL, Niwa H, Sekita Y, Huang X, Stark A, Kheradpour P, Kellis M, Flicek P, Chen Y, Webber C, Hardison R, Nelson J, Hallsworth-Pepin K, Delehaunty K, Markovic C, Minx P, Feng Y, Kremitzki C, Mitreva M, Glasscock J, Wylie T, Wohldmann P, Thiru P, Nhan MN, Pohl CS, Smith SM, Hou S, Nefedov M, de Jong PJ, Renfree MB, Mardis ER, Wilson RK.

Nature. 2008 May 8;453(7192):175-83. doi: 10.1038/nature06936. Erratum in: Nature. 2008 Sep 11;455(7210):256. Nefedov, Mikhail [added]; de Jong, Pieter J [added].

21.

The canine hookworm genome: analysis and classification of Ancylostoma caninum survey sequences.

Abubucker S, Martin J, Yin Y, Fulton L, Yang SP, Hallsworth-Pepin K, Johnston JS, Hawdon J, McCarter JP, Wilson RK, Mitreva M.

Mol Biochem Parasitol. 2008 Feb;157(2):187-92. Epub 2007 Nov 9.

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