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Items: 1 to 50 of 221

1.

Dynamics of an experimental microbial invasion.

Acosta F, Zamor RM, Najar FZ, Roe BA, Hambright KD.

Proc Natl Acad Sci U S A. 2015 Sep 15;112(37):11594-9. doi: 10.1073/pnas.1505204112. Epub 2015 Aug 31.

2.

Arhodomonas sp. strain Seminole and its genetic potential to degrade aromatic compounds under high-salinity conditions.

Dalvi S, Nicholson C, Najar F, Roe BA, Canaan P, Hartson SD, Fathepure BZ.

Appl Environ Microbiol. 2014 Nov;80(21):6664-76. doi: 10.1128/AEM.01509-14. Epub 2014 Aug 22.

3.

Coral-zooxanthellae meta-transcriptomics reveals integrated response to pollutant stress.

Gust KA, Najar FZ, Habib T, Lotufo GR, Piggot AM, Fouke BW, Laird JG, Wilbanks MS, Rawat A, Indest KJ, Roe BA, Perkins EJ.

BMC Genomics. 2014 Jul 12;15:591. doi: 10.1186/1471-2164-15-591.

4.

Fluorescence in situ hybridization and optical mapping to correct scaffold arrangement in the tomato genome.

Shearer LA, Anderson LK, de Jong H, Smit S, Goicoechea JL, Roe BA, Hua A, Giovannoni JJ, Stack SM.

G3 (Bethesda). 2014 May 30;4(8):1395-405. doi: 10.1534/g3.114.011197.

5.

Frederick Sanger (1918–2013).

Roe BA.

Genome Res. 2014 Apr;24(4):xi-xii. No abstract available.

6.

BAC-pool sequencing and analysis of large segments of A12 and D12 homoeologous chromosomes in upland cotton.

Buyyarapu R, Kantety RV, Yu JZ, Xu Z, Kohel RJ, Percy RG, Macmil S, Wiley GB, Roe BA, Sharma GC.

PLoS One. 2013 Oct 8;8(10):e76757. doi: 10.1371/journal.pone.0076757. eCollection 2013.

7.

Seasonality and disturbance: annual pattern and response of the bacterial and microbial eukaryotic assemblages in a freshwater ecosystem.

Jones AC, Liao TS, Najar FZ, Roe BA, Hambright KD, Caron DA.

Environ Microbiol. 2013 Sep;15(9):2557-72. doi: 10.1111/1462-2920.12151. Epub 2013 Jun 10.

PMID:
23750973
8.

Plant-symbiotic fungi as chemical engineers: multi-genome analysis of the clavicipitaceae reveals dynamics of alkaloid loci.

Schardl CL, Young CA, Hesse U, Amyotte SG, Andreeva K, Calie PJ, Fleetwood DJ, Haws DC, Moore N, Oeser B, Panaccione DG, Schweri KK, Voisey CR, Farman ML, Jaromczyk JW, Roe BA, O'Sullivan DM, Scott B, Tudzynski P, An Z, Arnaoudova EG, Bullock CT, Charlton ND, Chen L, Cox M, Dinkins RD, Florea S, Glenn AE, Gordon A, Güldener U, Harris DR, Hollin W, Jaromczyk J, Johnson RD, Khan AK, Leistner E, Leuchtmann A, Li C, Liu J, Liu J, Liu M, Mace W, Machado C, Nagabhyru P, Pan J, Schmid J, Sugawara K, Steiner U, Takach JE, Tanaka E, Webb JS, Wilson EV, Wiseman JL, Yoshida R, Zeng Z.

PLoS Genet. 2013;9(2):e1003323. doi: 10.1371/journal.pgen.1003323. Epub 2013 Feb 28.

9.

Detection of members of the Secoviridae in the Tallgrass Prairie Preserve, Osage County, Oklahoma, USA.

Thapa V, Melcher U, Wiley GB, Doust A, Palmer MW, Roewe K, Roe BA, Shen G, Roossinck MJ, Wang YM, Kamath N.

Virus Res. 2012 Jul;167(1):34-42. doi: 10.1016/j.virusres.2012.03.016. Epub 2012 Apr 2.

PMID:
22487310
10.

Evolution of a complex disease resistance gene cluster in diploid Phaseolus and tetraploid Glycine.

Ashfield T, Egan AN, Pfeil BE, Chen NW, Podicheti R, Ratnaparkhe MB, Ameline-Torregrosa C, Denny R, Cannon S, Doyle JJ, Geffroy V, Roe BA, Saghai Maroof MA, Young ND, Innes RW.

Plant Physiol. 2012 May;159(1):336-54. doi: 10.1104/pp.112.195040. Epub 2012 Mar 28.

11.

Elevated carbon dioxide alters the structure of soil microbial communities.

Deng Y, He Z, Xu M, Qin Y, Van Nostrand JD, Wu L, Roe BA, Wiley G, Hobbie SE, Reich PB, Zhou J.

Appl Environ Microbiol. 2012 Apr;78(8):2991-5. doi: 10.1128/AEM.06924-11. Epub 2012 Feb 3.

12.

The Medicago genome provides insight into the evolution of rhizobial symbioses.

Young ND, Debellé F, Oldroyd GE, Geurts R, Cannon SB, Udvardi MK, Benedito VA, Mayer KF, Gouzy J, Schoof H, Van de Peer Y, Proost S, Cook DR, Meyers BC, Spannagl M, Cheung F, De Mita S, Krishnakumar V, Gundlach H, Zhou S, Mudge J, Bharti AK, Murray JD, Naoumkina MA, Rosen B, Silverstein KA, Tang H, Rombauts S, Zhao PX, Zhou P, Barbe V, Bardou P, Bechner M, Bellec A, Berger A, Bergès H, Bidwell S, Bisseling T, Choisne N, Couloux A, Denny R, Deshpande S, Dai X, Doyle JJ, Dudez AM, Farmer AD, Fouteau S, Franken C, Gibelin C, Gish J, Goldstein S, González AJ, Green PJ, Hallab A, Hartog M, Hua A, Humphray SJ, Jeong DH, Jing Y, Jöcker A, Kenton SM, Kim DJ, Klee K, Lai H, Lang C, Lin S, Macmil SL, Magdelenat G, Matthews L, McCorrison J, Monaghan EL, Mun JH, Najar FZ, Nicholson C, Noirot C, O'Bleness M, Paule CR, Poulain J, Prion F, Qin B, Qu C, Retzel EF, Riddle C, Sallet E, Samain S, Samson N, Sanders I, Saurat O, Scarpelli C, Schiex T, Segurens B, Severin AJ, Sherrier DJ, Shi R, Sims S, Singer SR, Sinharoy S, Sterck L, Viollet A, Wang BB, Wang K, Wang M, Wang X, Warfsmann J, Weissenbach J, White DD, White JD, Wiley GB, Wincker P, Xing Y, Yang L, Yao Z, Ying F, Zhai J, Zhou L, Zuber A, Dénarié J, Dixon RA, May GD, Schwartz DC, Rogers J, Quétier F, Town CD, Roe BA.

Nature. 2011 Nov 16;480(7378):520-4. doi: 10.1038/nature10625.

13.

Molecular characterization, ecology, and epidemiology of a novel Tymovirus in Asclepias viridis from Oklahoma.

Min BE, Feldman TS, Ali A, Wiley G, Muthukumar V, Roe BA, Roossinck M, Melcher U, Palmer MW, Nelson RS.

Phytopathology. 2012 Feb;102(2):166-76. doi: 10.1094/PHYTO-05-11-0154.

14.

Detection of members of the Tombusviridae in the Tallgrass Prairie Preserve, Osage County, Oklahoma, USA.

Scheets K, Blinkova O, Melcher U, Palmer MW, Wiley GB, Ding T, Roe BA.

Virus Res. 2011 Sep;160(1-2):256-63. doi: 10.1016/j.virusres.2011.06.023. Epub 2011 Jul 6.

PMID:
21762736
15.

Genotype and phenotypes of an intestine-adapted Escherichia coli K-12 mutant selected by animal passage for superior colonization.

Fabich AJ, Leatham MP, Grissom JE, Wiley G, Lai H, Najar F, Roe BA, Cohen PS, Conway T.

Infect Immun. 2011 Jun;79(6):2430-9. doi: 10.1128/IAI.01199-10. Epub 2011 Mar 21.

16.

Genome-wide DNA methylation maps in follicular lymphoma cells determined by methylation-enriched bisulfite sequencing.

Choi JH, Li Y, Guo J, Pei L, Rauch TA, Kramer RS, Macmil SL, Wiley GB, Bennett LB, Schnabel JL, Taylor KH, Kim S, Xu D, Sreekumar A, Pfeifer GP, Roe BA, Caldwell CW, Bhalla KN, Shi H.

PLoS One. 2010 Sep 29;5(9). pii: e13020. doi: 10.1371/journal.pone.0013020. Erratum in: PLoS One. 2011;6(2). doi: 10.1371/annotation/ef58e5ee-1aaf-47b8-a0c5-1f1bf6886a8c.

17.

Rumen microbial population dynamics during adaptation to a high-grain diet.

Fernando SC, Purvis HT 2nd, Najar FZ, Sukharnikov LO, Krehbiel CR, Nagaraja TG, Roe BA, Desilva U.

Appl Environ Microbiol. 2010 Nov;76(22):7482-90. doi: 10.1128/AEM.00388-10. Epub 2010 Sep 17.

18.

Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus).

Stajich JE, Wilke SK, Ahrén D, Au CH, Birren BW, Borodovsky M, Burns C, Canbäck B, Casselton LA, Cheng CK, Deng J, Dietrich FS, Fargo DC, Farman ML, Gathman AC, Goldberg J, Guigó R, Hoegger PJ, Hooker JB, Huggins A, James TY, Kamada T, Kilaru S, Kodira C, Kües U, Kupfer D, Kwan HS, Lomsadze A, Li W, Lilly WW, Ma LJ, Mackey AJ, Manning G, Martin F, Muraguchi H, Natvig DO, Palmerini H, Ramesh MA, Rehmeyer CJ, Roe BA, Shenoy N, Stanke M, Ter-Hovhannisyan V, Tunlid A, Velagapudi R, Vision TJ, Zeng Q, Zolan ME, Pukkila PJ.

Proc Natl Acad Sci U S A. 2010 Jun 29;107(26):11889-94. doi: 10.1073/pnas.1003391107. Epub 2010 Jun 14.

19.

Comparative analysis of detoxification enzymes in Acyrthosiphon pisum and Myzus persicae.

Ramsey JS, Rider DS, Walsh TK, De Vos M, Gordon KH, Ponnala L, Macmil SL, Roe BA, Jander G.

Insect Mol Biol. 2010 Mar;19 Suppl 2:155-64. doi: 10.1111/j.1365-2583.2009.00973.x.

PMID:
20482647
20.

Ecogenomics: using massively parallel pyrosequencing to understand virus ecology.

Roossinck MJ, Saha P, Wiley GB, Quan J, White JD, Lai H, Chavarría F, Shen G, Roe BA.

Mol Ecol. 2010 Mar;19 Suppl 1:81-8. doi: 10.1111/j.1365-294X.2009.04470.x.

PMID:
20331772
21.

A novel conjugative plasmid from Enterococcus faecalis E99 enhances resistance to ultraviolet radiation.

Coburn PS, Baghdayan AS, Craig N, Burroughs A, Tendolkar P, Miller K, Najar FZ, Roe BA, Shankar N.

Plasmid. 2010 Jul;64(1):18-25. doi: 10.1016/j.plasmid.2010.03.001. Epub 2010 Mar 20.

22.

High-throughput sequence analysis of Ciona intestinalis SL trans-spliced mRNAs: alternative expression modes and gene function correlates.

Matsumoto J, Dewar K, Wasserscheid J, Wiley GB, Macmil SL, Roe BA, Zeller RW, Satou Y, Hastings KE.

Genome Res. 2010 May;20(5):636-45. doi: 10.1101/gr.100271.109. Epub 2010 Mar 8.

23.

Identification of microRNAs and their targets in switchgrass, a model biofuel plant species.

Matts J, Jagadeeswaran G, Roe BA, Sunkar R.

J Plant Physiol. 2010 Jul 15;167(11):896-904. doi: 10.1016/j.jplph.2010.02.001. Epub 2010 Mar 6.

PMID:
20207044
24.
25.

Development of a EST dataset and characterization of EST-SSRs in a traditional Chinese medicinal plant, Epimedium sagittatum (Sieb. Et Zucc.) Maxim.

Zeng S, Xiao G, Guo J, Fei Z, Xu Y, Roe BA, Wang Y.

BMC Genomics. 2010 Feb 8;11:94. doi: 10.1186/1471-2164-11-94.

26.

A database of expressed genes from Cochliomyia hominivorax (Diptera: Calliphoridae).

Guerrero FD, Dowd SE, Djikeng A, Wiley G, Macmil S, Saldivar L, Najar F, Roe BA.

J Med Entomol. 2009 Sep;46(5):1109-16.

PMID:
19769042
27.

Comparison of species richness estimates obtained using nearly complete fragments and simulated pyrosequencing-generated fragments in 16S rRNA gene-based environmental surveys.

Youssef N, Sheik CS, Krumholz LR, Najar FZ, Roe BA, Elshahed MS.

Appl Environ Microbiol. 2009 Aug;75(16):5227-36. doi: 10.1128/AEM.00592-09. Epub 2009 Jun 26.

28.

Cloning and characterization of small RNAs from Medicago truncatula reveals four novel legume-specific microRNA families.

Jagadeeswaran G, Zheng Y, Li YF, Shukla LI, Matts J, Hoyt P, Macmil SL, Wiley GB, Roe BA, Zhang W, Sunkar R.

New Phytol. 2009;184(1):85-98. doi: 10.1111/j.1469-8137.2009.02915.x. Epub 2009 Jun 23.

29.

Methods for generating shotgun and mixed shotgun/paired-end libraries for the 454 DNA sequencer.

Wiley G, Macmil S, Qu C, Wang P, Xing Y, White D, Li J, White JD, Domingo A, Roe BA.

Curr Protoc Hum Genet. 2009 Apr;Chapter 18:Unit18.1. doi: 10.1002/0471142905.hg1801s61.

PMID:
19360698
30.

Microarray analysis of female- and larval-specific gene expression in the horn fly (Diptera: Muscidae).

Guerrero FD, Dowd SE, Sun Y, Saldivar L, Wiley GB, Macmil SL, Najar F, Roe BA, Foil LD.

J Med Entomol. 2009 Mar;46(2):257-70.

PMID:
19351076
31.

Transcriptome analysis of the salivary glands of the female tick Amblyomma americanum (Acari: Ixodidae).

Aljamali MN, Hern L, Kupfer D, Downard S, So S, Roe BA, Sauer JR, Essenberg RC.

Insect Mol Biol. 2009 Apr;18(2):129-54. doi: 10.1111/j.1365-2583.2009.00863.x.

PMID:
19320755
32.

Cloning, characterization and expression analysis of porcine microRNAs.

Reddy AM, Zheng Y, Jagadeeswaran G, Macmil SL, Graham WB, Roe BA, Desilva U, Zhang W, Sunkar R.

BMC Genomics. 2009 Feb 5;10:65. doi: 10.1186/1471-2164-10-65.

33.

Non-cultivated plants of the Tallgrass Prairie Preserve of northeastern Oklahoma frequently contain virus-like sequences in particulate fractions.

Muthukumar V, Melcher U, Pierce M, Wiley GB, Roe BA, Palmer MW, Thapa V, Ali A, Ding T.

Virus Res. 2009 May;141(2):169-73. doi: 10.1016/j.virusres.2008.06.016. Epub 2009 Jan 17.

PMID:
19152821
34.

A core gut microbiome in obese and lean twins.

Turnbaugh PJ, Hamady M, Yatsunenko T, Cantarel BL, Duncan A, Ley RE, Sogin ML, Jones WJ, Roe BA, Affourtit JP, Egholm M, Henrissat B, Heath AC, Knight R, Gordon JI.

Nature. 2009 Jan 22;457(7228):480-4. doi: 10.1038/nature07540. Epub 2008 Nov 30.

35.

Phylotyping and functional analysis of two ancient human microbiomes.

Tito RY, Macmil S, Wiley G, Najar F, Cleeland L, Qu C, Wang P, Romagne F, Leonard S, Ruiz AJ, Reinhard K, Roe BA, Lewis CM Jr.

PLoS One. 2008;3(11):e3703. doi: 10.1371/journal.pone.0003703. Epub 2008 Nov 11.

36.

Replication of nonautonomous retroelements in soybean appears to be both recent and common.

Wawrzynski A, Ashfield T, Chen NW, Mammadov J, Nguyen A, Podicheti R, Cannon SB, Thareau V, Ameline-Torregrosa C, Cannon E, Chacko B, Couloux A, Dalwani A, Denny R, Deshpande S, Egan AN, Glover N, Howell S, Ilut D, Lai H, Del Campo SM, Metcalf M, O'Bleness M, Pfeil BE, Ratnaparkhe MB, Samain S, Sanders I, Ségurens B, Sévignac M, Sherman-Broyles S, Tucker DM, Yi J, Doyle JJ, Geffroy V, Roe BA, Maroof MA, Young ND, Innes RW.

Plant Physiol. 2008 Dec;148(4):1760-71. doi: 10.1104/pp.108.127910. Epub 2008 Oct 24.

37.

Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations.

Satou Y, Mineta K, Ogasawara M, Sasakura Y, Shoguchi E, Ueno K, Yamada L, Matsumoto J, Wasserscheid J, Dewar K, Wiley GB, Macmil SL, Roe BA, Zeller RW, Hastings KE, Lemaire P, Lindquist E, Endo T, Hotta K, Inaba K.

Genome Biol. 2008 Oct 14;9(10):R152. doi: 10.1186/gb-2008-9-10-r152.

38.

Differential accumulation of retroelements and diversification of NB-LRR disease resistance genes in duplicated regions following polyploidy in the ancestor of soybean.

Innes RW, Ameline-Torregrosa C, Ashfield T, Cannon E, Cannon SB, Chacko B, Chen NW, Couloux A, Dalwani A, Denny R, Deshpande S, Egan AN, Glover N, Hans CS, Howell S, Ilut D, Jackson S, Lai H, Mammadov J, Del Campo SM, Metcalf M, Nguyen A, O'Bleness M, Pfeil BE, Podicheti R, Ratnaparkhe MB, Samain S, Sanders I, Ségurens B, Sévignac M, Sherman-Broyles S, Thareau V, Tucker DM, Walling J, Wawrzynski A, Yi J, Doyle JJ, Geffroy V, Roe BA, Maroof MA, Young ND.

Plant Physiol. 2008 Dec;148(4):1740-59. doi: 10.1104/pp.108.127902. Epub 2008 Oct 8.

39.

Genome sequence of a nephritogenic and highly transformable M49 strain of Streptococcus pyogenes.

McShan WM, Ferretti JJ, Karasawa T, Suvorov AN, Lin S, Qin B, Jia H, Kenton S, Najar F, Wu H, Scott J, Roe BA, Savic DJ.

J Bacteriol. 2008 Dec;190(23):7773-85. doi: 10.1128/JB.00672-08. Epub 2008 Sep 26.

40.

Alfalfa benefits from Medicago truncatula: the RCT1 gene from M. truncatula confers broad-spectrum resistance to anthracnose in alfalfa.

Yang S, Gao M, Xu C, Gao J, Deshpande S, Lin S, Roe BA, Zhu H.

Proc Natl Acad Sci U S A. 2008 Aug 26;105(34):12164-9. doi: 10.1073/pnas.0802518105. Epub 2008 Aug 21.

41.

Novelty and uniqueness patterns of rare members of the soil biosphere.

Elshahed MS, Youssef NH, Spain AM, Sheik C, Najar FZ, Sukharnikov LO, Roe BA, Davis JP, Schloss PD, Bailey VL, Krumholz LR.

Appl Environ Microbiol. 2008 Sep;74(17):5422-8. doi: 10.1128/AEM.00410-08. Epub 2008 Jul 7.

42.

Evidence for novel viruses by analysis of nucleic acids in virus-like particle fractions from Ambrosia psilostachya.

Melcher U, Muthukumar V, Wiley GB, Min BE, Palmer MW, Verchot-Lubicz J, Ali A, Nelson RS, Roe BA, Thapa V, Pierce ML.

J Virol Methods. 2008 Sep;152(1-2):49-55. doi: 10.1016/j.jviromet.2008.05.030. Epub 2008 Jul 17.

PMID:
18590770
43.

Analysis of genome organization, composition and microsynteny using 500 kb BAC sequences in chickpea.

Rajesh PN, O'Bleness M, Roe BA, Muehlbauer FJ.

Theor Appl Genet. 2008 Aug;117(3):449-58. doi: 10.1007/s00122-008-0789-0. Epub 2008 May 27.

PMID:
18504542
44.

A deletion mutation in Slc12a6 is associated with neuromuscular disease in gaxp mice.

Jiao Y, Jin X, Yan J, Zhang C, Jiao F, Li X, Roe BA, Mount DB, Gu W.

Genomics. 2008 May;91(5):407-14. doi: 10.1016/j.ygeno.2007.12.010. Epub 2008 Mar 14.

45.

Effects of Muclin (Dmbt1) deficiency on the gastrointestinal system.

De Lisle RC, Xu W, Roe BA, Ziemer D.

Am J Physiol Gastrointest Liver Physiol. 2008 Mar;294(3):G717-27. doi: 10.1152/ajpgi.00525.2007. Epub 2008 Jan 17.

46.

Targeted discovery of novel human exons by comparative genomics.

Siepel A, Diekhans M, Brejová B, Langton L, Stevens M, Comstock CL, Davis C, Ewing B, Oommen S, Lau C, Yu HC, Li J, Roe BA, Green P, Gerhard DS, Temple G, Haussler D, Brent MR.

Genome Res. 2007 Dec;17(12):1763-73. Epub 2007 Nov 7.

47.

Genetic and physical localization of an anthracnose resistance gene in Medicago truncatula.

Yang S, Gao M, Deshpande S, Lin S, Roe BA, Zhu H.

Theor Appl Genet. 2007 Dec;116(1):45-52. Epub 2007 Sep 22.

PMID:
17891371
48.

Gene duplication and paleopolyploidy in soybean and the implications for whole genome sequencing.

Schlueter JA, Lin JY, Schlueter SD, Vasylenko-Sanders IF, Deshpande S, Yi J, O'Bleness M, Roe BA, Nelson RT, Scheffler BE, Jackson SA, Shoemaker RC.

BMC Genomics. 2007 Sep 19;8:330.

49.

Identification and isolation of a Castellaniella species important during biostimulation of an acidic nitrate- and uranium-contaminated aquifer.

Spain AM, Peacock AD, Istok JD, Elshahed MS, Najar FZ, Roe BA, White DC, Krumholz LR.

Appl Environ Microbiol. 2007 Aug;73(15):4892-904. Epub 2007 Jun 8.

50.

Phylogenetic and metabolic diversity of Planctomycetes from anaerobic, sulfide- and sulfur-rich Zodletone Spring, Oklahoma.

Elshahed MS, Youssef NH, Luo Q, Najar FZ, Roe BA, Sisk TM, Bühring SI, Hinrichs KU, Krumholz LR.

Appl Environ Microbiol. 2007 Aug;73(15):4707-16. Epub 2007 Jun 1.

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