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Items: 13

1.

Hidden genomic evolution in a morphospecies-The landscape of rapidly evolving genes in Tetrahymena.

Xiong J, Yang W, Chen K, Jiang C, Ma Y, Chai X, Yan G, Wang G, Yuan D, Liu Y, Bidwell SL, Zafar N, Hadjithomas M, Krishnakumar V, Coyne RS, Orias E, Miao W.

PLoS Biol. 2019 Jun 3;17(6):e3000294. doi: 10.1371/journal.pbio.3000294. eCollection 2019 Jun.

2.

Meta-Analysis: Caregiver and Youth Uncertainty in Pediatric Chronic Illness.

Szulczewski L, Mullins LL, Bidwell SL, Eddington AR, Pai ALH.

J Pediatr Psychol. 2017 May 1;42(4):395-421. doi: 10.1093/jpepsy/jsw097. Review.

3.

Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome.

Hamilton EP, Kapusta A, Huvos PE, Bidwell SL, Zafar N, Tang H, Hadjithomas M, Krishnakumar V, Badger JH, Caler EV, Russ C, Zeng Q, Fan L, Levin JZ, Shea T, Young SK, Hegarty R, Daza R, Gujja S, Wortman JR, Birren BW, Nusbaum C, Thomas J, Carey CM, Pritham EJ, Feschotte C, Noto T, Mochizuki K, Papazyan R, Taverna SD, Dear PH, Cassidy-Hanley DM, Xiong J, Miao W, Orias E, Coyne RS.

Elife. 2016 Nov 28;5. pii: e19090. doi: 10.7554/eLife.19090.

4.

MTGD: The Medicago truncatula genome database.

Krishnakumar V, Kim M, Rosen BD, Karamycheva S, Bidwell SL, Tang H, Town CD.

Plant Cell Physiol. 2015 Jan;56(1):e1. doi: 10.1093/pcp/pcu179. Epub 2014 Nov 28.

PMID:
25432968
5.

Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea.

Parkin IA, Koh C, Tang H, Robinson SJ, Kagale S, Clarke WE, Town CD, Nixon J, Krishnakumar V, Bidwell SL, Denoeud F, Belcram H, Links MG, Just J, Clarke C, Bender T, Huebert T, Mason AS, Pires JC, Barker G, Moore J, Walley PG, Manoli S, Batley J, Edwards D, Nelson MN, Wang X, Paterson AH, King G, Bancroft I, Chalhoub B, Sharpe AG.

Genome Biol. 2014 Jun 10;15(6):R77. doi: 10.1186/gb-2014-15-6-r77.

6.

Comparative genomics of the neglected human malaria parasite Plasmodium vivax.

Carlton JM, Adams JH, Silva JC, Bidwell SL, Lorenzi H, Caler E, Crabtree J, Angiuoli SV, Merino EF, Amedeo P, Cheng Q, Coulson RM, Crabb BS, Del Portillo HA, Essien K, Feldblyum TV, Fernandez-Becerra C, Gilson PR, Gueye AH, Guo X, Kang'a S, Kooij TW, Korsinczky M, Meyer EV, Nene V, Paulsen I, White O, Ralph SA, Ren Q, Sargeant TJ, Salzberg SL, Stoeckert CJ, Sullivan SA, Yamamoto MM, Hoffman SL, Wortman JR, Gardner MJ, Galinski MR, Barnwell JW, Fraser-Liggett CM.

Nature. 2008 Oct 9;455(7214):757-63. doi: 10.1038/nature07327.

7.

Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa.

Brayton KA, Lau AO, Herndon DR, Hannick L, Kappmeyer LS, Berens SJ, Bidwell SL, Brown WC, Crabtree J, Fadrosh D, Feldblum T, Forberger HA, Haas BJ, Howell JM, Khouri H, Koo H, Mann DJ, Norimine J, Paulsen IT, Radune D, Ren Q, Smith RK Jr, Suarez CE, White O, Wortman JR, Knowles DP Jr, McElwain TF, Nene VM.

PLoS Pathog. 2007 Oct 19;3(10):1401-13.

8.

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.

9.

A Plasmodium whole-genome synteny map: indels and synteny breakpoints as foci for species-specific genes.

Kooij TW, Carlton JM, Bidwell SL, Hall N, Ramesar J, Janse CJ, Waters AP.

PLoS Pathog. 2005 Dec;1(4):e44. Epub 2005 Dec 23.

10.

Immune responses to Plasmodium vivax pre-erythrocytic stage antigens in naturally exposed Duffy-negative humans: a potential model for identification of liver-stage antigens.

Wang R, Arevalo-Herrera M, Gardner MJ, Bonelo A, Carlton JM, Gomez A, Vera O, Soto L, Vergara J, Bidwell SL, Domingo A, Fraser CM, Herrera S.

Eur J Immunol. 2005 Jun;35(6):1859-68. Erratum in: Eur J Immunol. 2005 Jun;35(6):2006.

11.

A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses.

Hall N, Karras M, Raine JD, Carlton JM, Kooij TW, Berriman M, Florens L, Janssen CS, Pain A, Christophides GK, James K, Rutherford K, Harris B, Harris D, Churcher C, Quail MA, Ormond D, Doggett J, Trueman HE, Mendoza J, Bidwell SL, Rajandream MA, Carucci DJ, Yates JR 3rd, Kafatos FC, Janse CJ, Barrell B, Turner CM, Waters AP, Sinden RE.

Science. 2005 Jan 7;307(5706):82-6.

12.

A potentially functional mariner transposable element in the protist Trichomonas vaginalis.

Silva JC, Bastida F, Bidwell SL, Johnson PJ, Carlton JM.

Mol Biol Evol. 2005 Jan;22(1):126-34. Epub 2004 Sep 15.

13.

Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii.

Carlton JM, Angiuoli SV, Suh BB, Kooij TW, Pertea M, Silva JC, Ermolaeva MD, Allen JE, Selengut JD, Koo HL, Peterson JD, Pop M, Kosack DS, Shumway MF, Bidwell SL, Shallom SJ, van Aken SE, Riedmuller SB, Feldblyum TV, Cho JK, Quackenbush J, Sedegah M, Shoaibi A, Cummings LM, Florens L, Yates JR, Raine JD, Sinden RE, Harris MA, Cunningham DA, Preiser PR, Bergman LW, Vaidya AB, van Lin LH, Janse CJ, Waters AP, Smith HO, White OR, Salzberg SL, Venter JC, Fraser CM, Hoffman SL, Gardner MJ, Carucci DJ.

Nature. 2002 Oct 3;419(6906):512-9.

PMID:
12368865

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