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Items: 1 to 50 of 52

1.

Strains of Staphylococcus aureus that Colonize and Infect Skin Harbor Mutations in Metabolic Genes.

Acker KP, Wong Fok Lung T, West E, Craft J, Narechania A, Smith H, O'Brien K, Moustafa AM, Lauren C, Planet PJ, Prince A.

iScience. 2019 Jul 26;19:281-290. doi: 10.1016/j.isci.2019.07.037. [Epub ahead of print]

2.

CFTR-PTEN-dependent mitochondrial metabolic dysfunction promotes Pseudomonas aeruginosa airway infection.

Riquelme SA, Lozano C, Moustafa AM, Liimatta K, Tomlinson KL, Britto C, Khanal S, Gill SK, Narechania A, Azcona-Gutiérrez JM, DiMango E, Saénz Y, Planet P, Prince A.

Sci Transl Med. 2019 Jul 3;11(499). pii: eaav4634. doi: 10.1126/scitranslmed.aav4634.

PMID:
31270271
3.

Local Diversification of Methicillin- Resistant Staphylococcus aureus ST239 in South America After Its Rapid Worldwide Dissemination.

Botelho AMN, Cerqueira E Costa MO, Moustafa AM, Beltrame CO, Ferreira FA, Côrtes MF, Costa BSS, Silva DNS, Bandeira PT, Lima NCB, Souza RC, de Almeida LGP, Vasconcelos ATR, Narechania A, Ryan C, O'Brien K, Kolokotronis SO, Planet PJ, Nicolás MF, Figueiredo AMS.

Front Microbiol. 2019 Feb 27;10:82. doi: 10.3389/fmicb.2019.00082. eCollection 2019.

4.

Mobile-Genetic-Element-Encoded Hypertolerance to Copper Protects Staphylococcus aureus from Killing by Host Phagocytes.

Zapotoczna M, Riboldi GP, Moustafa AM, Dickson E, Narechania A, Morrissey JA, Planet PJ, Holden MTG, Waldron KJ, Geoghegan JA.

MBio. 2018 Oct 16;9(5). pii: e00550-18. doi: 10.1128/mBio.00550-18.

5.

Erratum for Arias et al., "A Prospective Cohort Multicenter Study of Molecular Epidemiology and Phylogenomics of Staphylococcus aureus Bacteremia in Nine Latin American Countries".

Arias CA, Reyes J, Carvajal LP, Rincon S, Diaz L, Panesso D, Ibarra G, Rios R, Munita JM, Salles MJ, Alvarez-Moreno C, Labarca J, Garcia C, Luna CM, Mejia-Villatoro C, Zurita J, Guzman-Blanco M, Rodriguez-Noriega E, Narechania A, Rojas LJ, Planet PJ, Weinstock GM, Gotuzzo E, Seas C.

Antimicrob Agents Chemother. 2018 Feb 23;62(3). pii: e00095-18. doi: 10.1128/AAC.00095-18. Print 2018 Mar. No abstract available.

6.

An Analysis of the Epidemic of Klebsiella pneumoniae Carbapenemase-Producing K. pneumoniae: Convergence of Two Evolutionary Mechanisms Creates the "Perfect Storm".

Rojas LJ, Weinstock GM, De La Cadena E, Diaz L, Rios R, Hanson BM, Brown JS, Vats P, Phillips DS, Nguyen H, Hujer KM, Correa A, Adams MD, Perez F, Sodergren E, Narechania A, Planet PJ, Villegas MV, Bonomo RA, Arias CA.

J Infect Dis. 2017 Dec 27;217(1):82-92. doi: 10.1093/infdis/jix524.

7.

Clinical classification of post anoxic myoclonic status.

Mikhaeil-Demo Y, Gavvala JR, Bellinski II, Macken MP, Narechania A, Templer JW, VanHaerents S, Schuele SU, Gerard EE.

Resuscitation. 2017 Oct;119:76-80. doi: 10.1016/j.resuscitation.2017.07.035. Epub 2017 Aug 8.

PMID:
28800888
8.

A Prospective Cohort Multicenter Study of Molecular Epidemiology and Phylogenomics of Staphylococcus aureus Bacteremia in Nine Latin American Countries.

Arias CA, Reyes J, Carvajal LP, Rincon S, Diaz L, Panesso D, Ibarra G, Rios R, Munita JM, Salles MJ, Alvarez-Moreno C, Labarca J, Garcia C, Luna CM, Mejia-Villatoro C, Zurita J, Guzman-Blanco M, Rodriguez-Noriega E, Narechania A, Rojas LJ, Planet PJ, Weinstock GM, Gotuzzo E, Seas C.

Antimicrob Agents Chemother. 2017 Sep 22;61(10). pii: e00816-17. doi: 10.1128/AAC.00816-17. Print 2017 Oct. Erratum in: Antimicrob Agents Chemother. 2018 Feb 23;62(3):.

9.

Transmission of Extensively Drug-Resistant Tuberculosis in South Africa.

Shah NS, Auld SC, Brust JC, Mathema B, Ismail N, Moodley P, Mlisana K, Allana S, Campbell A, Mthiyane T, Morris N, Mpangase P, van der Meulen H, Omar SV, Brown TS, Narechania A, Shaskina E, Kapwata T, Kreiswirth B, Gandhi NR.

N Engl J Med. 2017 Jan 19;376(3):243-253. doi: 10.1056/NEJMoa1604544.

10.

Genomic epidemiology of Lineage 4 Mycobacterium tuberculosis subpopulations in New York City and New Jersey, 1999-2009.

Brown TS, Narechania A, Walker JR, Planet PJ, Bifani PJ, Kolokotronis SO, Kreiswirth BN, Mathema B.

BMC Genomics. 2016 Nov 21;17(1):947.

11.

Counseling by epileptologists affects contraceptive choices of women with epilepsy.

Espinera AR, Gavvala J, Bellinski I, Kennedy J, Macken MP, Narechania A, Templer J, VanHaerents S, Schuele SU, Gerard EE.

Epilepsy Behav. 2016 Dec;65:1-6. doi: 10.1016/j.yebeh.2016.08.021. Epub 2016 Oct 29.

12.

Co-existence of BRAF and NRAS driver mutations in the same melanoma cells results in heterogeneity of targeted therapy resistance.

Raaijmakers MI, Widmer DS, Narechania A, Eichhoff O, Freiberger SN, Wenzina J, Cheng PF, Mihic-Probst D, Desalle R, Dummer R, Levesque MP.

Oncotarget. 2016 Nov 22;7(47):77163-77174. doi: 10.18632/oncotarget.12848.

13.

Clusterflock: a flocking algorithm for isolating congruent phylogenomic datasets.

Narechania A, Baker R, DeSalle R, Mathema B, Kolokotronis SO, Kreiswirth B, Planet PJ.

Gigascience. 2016 Oct 24;5(1):44.

14.

Architecture of a Species: Phylogenomics of Staphylococcus aureus.

Planet PJ, Narechania A, Chen L, Mathema B, Boundy S, Archer G, Kreiswirth B.

Trends Microbiol. 2017 Feb;25(2):153-166. doi: 10.1016/j.tim.2016.09.009. Epub 2016 Oct 14. Review.

PMID:
27751626
15.

The mitogenome of the bed bug Cimex lectularius (Hemiptera: Cimicidae).

Kolokotronis SO, Foox J, Rosenfeld JA, Brugler MR, Reeves D, Benoit JB, Booth W, Robison G, Steffen M, Sakas Z, Palli SR, Schal C, Richards S, Narechania A, Baker RH, Sorkin LN, Amato G, Mason CE, Siddall ME, DeSalle R.

Mitochondrial DNA B Resour. 2016;1(1):425-427. doi: 10.1080/23802359.2016.1180268. Epub 2016 Jun 20.

16.

Punctuated bursts in human male demography inferred from 1,244 worldwide Y-chromosome sequences.

Poznik GD, Xue Y, Mendez FL, Willems TF, Massaia A, Wilson Sayres MA, Ayub Q, McCarthy SA, Narechania A, Kashin S, Chen Y, Banerjee R, Rodriguez-Flores JL, Cerezo M, Shao H, Gymrek M, Malhotra A, Louzada S, Desalle R, Ritchie GR, Cerveira E, Fitzgerald TW, Garrison E, Marcketta A, Mittelman D, Romanovitch M, Zhang C, Zheng-Bradley X, Abecasis GR, McCarroll SA, Flicek P, Underhill PA, Coin L, Zerbino DR, Yang F, Lee C, Clarke L, Auton A, Erlich Y, Handsaker RE; 1000 Genomes Project Consortium, Bustamante CD, Tyler-Smith C.

Nat Genet. 2016 Jun;48(6):593-9. doi: 10.1038/ng.3559. Epub 2016 Apr 25. Review.

17.

Rickettsial endosymbiont in the "early-diverging" streptophyte green alga Mesostigma viride.

Yang A, Narechania A, Kim E.

J Phycol. 2016 Apr;52(2):219-29. doi: 10.1111/jpy.12385. Epub 2016 Feb 16.

PMID:
27037587
18.

Spermatogenesis Drives Rapid Gene Creation and Masculinization of the X Chromosome in Stalk-Eyed Flies (Diopsidae).

Baker RH, Narechania A, DeSalle R, Johns PM, Reinhardt JA, Wilkinson GS.

Genome Biol Evol. 2016 Mar 26;8(3):896-914. doi: 10.1093/gbe/evw043.

19.

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius.

Rosenfeld JA, Reeves D, Brugler MR, Narechania A, Simon S, Durrett R, Foox J, Shianna K, Schatz MC, Gandara J, Afshinnekoo E, Lam ET, Hastie AR, Chan S, Cao H, Saghbini M, Kentsis A, Planet PJ, Kholodovych V, Tessler M, Baker R, DeSalle R, Sorkin LN, Kolokotronis SO, Siddall ME, Amato G, Mason CE.

Nat Commun. 2016 Feb 2;7:10164. doi: 10.1038/ncomms10164.

20.

Methicillin-Susceptible, Vancomycin-Resistant Staphylococcus aureus, Brazil.

Panesso D, Planet PJ, Diaz L, Hugonnet JE, Tran TT, Narechania A, Munita JM, Rincon S, Carvajal LP, Reyes J, Londoño A, Smith H, Sebra R, Deikus G, Weinstock GM, Murray BE, Rossi F, Arthur M, Arias CA.

Emerg Infect Dis. 2015 Oct;21(10):1844-8. doi: 10.3201/eid2110.141914.

21.

Comparative Genomics of a Bacterivorous Green Alga Reveals Evolutionary Causalities and Consequences of Phago-Mixotrophic Mode of Nutrition.

Burns JA, Paasch A, Narechania A, Kim E.

Genome Biol Evol. 2015 Jul 29;7(11):3047-61. doi: 10.1093/gbe/evv144.

22.

Parallel Epidemics of Community-Associated Methicillin-Resistant Staphylococcus aureus USA300 Infection in North and South America.

Planet PJ, Diaz L, Kolokotronis SO, Narechania A, Reyes J, Xing G, Rincon S, Smith H, Panesso D, Ryan C, Smith DP, Guzman M, Zurita J, Sebra R, Deikus G, Nolan RL, Tenover FC, Weinstock GM, Robinson DA, Arias CA.

J Infect Dis. 2015 Dec 15;212(12):1874-82. doi: 10.1093/infdis/jiv320. Epub 2015 Jun 5.

23.

Complete Genome Sequence of Streptococcus agalactiae CNCTC 10/84, a Hypervirulent Sequence Type 26 Strain.

Hooven TA, Randis TM, Daugherty SC, Narechania A, Planet PJ, Tettelin H, Ratner AJ.

Genome Announc. 2014 Dec 24;2(6). pii: e01338-14. doi: 10.1128/genomeA.01338-14.

24.

Evolution of hypervirulence by a MRSA clone through acquisition of a transposable element.

Benson MA, Ohneck EA, Ryan C, Alonzo F 3rd, Smith H, Narechania A, Kolokotronis SO, Satola SW, Uhlemann AC, Sebra R, Deikus G, Shopsin B, Planet PJ, Torres VJ.

Mol Microbiol. 2014 Aug;93(4):664-81. doi: 10.1111/mmi.12682. Epub 2014 Jul 16.

25.

Transferable vancomycin resistance in a community-associated MRSA lineage.

Rossi F, Diaz L, Wollam A, Panesso D, Zhou Y, Rincon S, Narechania A, Xing G, Di Gioia TS, Doi A, Tran TT, Reyes J, Munita JM, Carvajal LP, Hernandez-Roldan A, Brandão D, van der Heijden IM, Murray BE, Planet PJ, Weinstock GM, Arias CA.

N Engl J Med. 2014 Apr 17;370(16):1524-31. doi: 10.1056/NEJMoa1303359. Erratum in: N Engl J Med. 2014 Jun 5;370(23):2253.

26.

Genome Sequence of Bacterial Interference Strain Staphylococcus aureus 502A.

Parker D, Narechania A, Sebra R, Deikus G, Larussa S, Ryan C, Smith H, Prince A, Mathema B, Ratner AJ, Kreiswirth B, Planet PJ.

Genome Announc. 2014 Apr 10;2(2). pii: e00284-14. doi: 10.1128/genomeA.00284-14.

27.

Induction of type I interferon signaling determines the relative pathogenicity of Staphylococcus aureus strains.

Parker D, Planet PJ, Soong G, Narechania A, Prince A.

PLoS Pathog. 2014 Feb 20;10(2):e1003951. doi: 10.1371/journal.ppat.1003951. eCollection 2014 Feb.

28.

Emergence of the epidemic methicillin-resistant Staphylococcus aureus strain USA300 coincides with horizontal transfer of the arginine catabolic mobile element and speG-mediated adaptations for survival on skin.

Planet PJ, LaRussa SJ, Dana A, Smith H, Xu A, Ryan C, Uhlemann AC, Boundy S, Goldberg J, Narechania A, Kulkarni R, Ratner AJ, Geoghegan JA, Kolokotronis SO, Prince A.

MBio. 2013 Dec 17;4(6):e00889-13. doi: 10.1128/mBio.00889-13.

29.

Transcriptome deep-sequencing and clustering of expressed isoforms from Favia corals.

Pooyaei Mehr SF, DeSalle R, Kao HT, Narechania A, Han Z, Tchernov D, Pieribone V, Gruber DF.

BMC Genomics. 2013 Aug 12;14:546. doi: 10.1186/1471-2164-14-546.

30.

Genome Sequence of the Bacillus subtilis Biofilm-Forming Transformable Strain PS216.

Durrett R, Miras M, Mirouze N, Narechania A, Mandic-Mulec I, Dubnau D.

Genome Announc. 2013 Jun 20;1(3). pii: e00288-13. doi: 10.1128/genomeA.00288-13.

31.

Assessment of a quasi-piezoelectric mattress monitor as a detection system for generalized convulsions.

Narechania AP, Garić II, Sen-Gupta I, Macken MP, Gerard EE, Schuele SU.

Epilepsy Behav. 2013 Aug;28(2):172-6. doi: 10.1016/j.yebeh.2013.04.017. Epub 2013 Jun 7.

PMID:
23747502
32.

Bordetella holmesii: initial genomic analysis of an emerging opportunist.

Planet PJ, Narechania A, Hymes SR, Gagliardo C, Huard RC, Whittier S, Della-Latta P, Ratner AJ.

Pathog Dis. 2013 Mar;67(2):132-5. doi: 10.1111/2049-632X.12028. Epub 2013 Feb 26.

33.

Genome Sequence of the Human Abscess Isolate Streptococcus intermedius BA1.

Planet PJ, Rampersaud R, Hymes SR, Whittier S, Della-Latta PA, Narechania A, Daugherty SC, Santana-Cruz I, Desalle R, Ravel J, Ratner AJ.

Genome Announc. 2013 Jan;1(1). pii: e00117-12. doi: 10.1128/genomeA.00117-12. Epub 2013 Jan 31.

34.

Insect phylogenomics: exploring the source of incongruence using new transcriptomic data.

Simon S, Narechania A, Desalle R, Hadrys H.

Genome Biol Evol. 2012;4(12):1295-309. doi: 10.1093/gbe/evs104.

35.

Gene duplication, tissue-specific gene expression and sexual conflict in stalk-eyed flies (Diopsidae).

Baker RH, Narechania A, Johns PM, Wilkinson GS.

Philos Trans R Soc Lond B Biol Sci. 2012 Aug 19;367(1600):2357-75. doi: 10.1098/rstb.2011.0287. Review.

36.

The plant proteome folding project: structure and positive selection in plant protein families.

Pentony MM, Winters P, Penfold-Brown D, Drew K, Narechania A, DeSalle R, Bonneau R, Purugganan MD.

Genome Biol Evol. 2012;4(3):360-71. doi: 10.1093/gbe/evs015. Epub 2012 Feb 16.

37.

Phylogenomics of Reichenowia parasitica, an alphaproteobacterial endosymbiont of the freshwater leech Placobdella parasitica.

Kvist S, Narechania A, Oceguera-Figueroa A, Fuks B, Siddall ME.

PLoS One. 2011;6(11):e28192. doi: 10.1371/journal.pone.0028192. Epub 2011 Nov 23.

38.

Random Addition Concatenation Analysis: a novel approach to the exploration of phylogenomic signal reveals strong agreement between core and shell genomic partitions in the cyanobacteria.

Narechania A, Baker RH, Sit R, Kolokotronis SO, DeSalle R, Planet PJ.

Genome Biol Evol. 2012;4(1):30-43. doi: 10.1093/gbe/evr121. Epub 2011 Nov 16.

39.

The genus Drosophila as a model for testing tree- and character-based methods of species identification using DNA barcoding.

Yassin A, Markow TA, Narechania A, O'Grady PM, DeSalle R.

Mol Phylogenet Evol. 2010 Nov;57(2):509-17. doi: 10.1016/j.ympev.2010.08.020. Epub 2010 Aug 25.

PMID:
20800099
40.

Catching the phylogenic history through the ontogenic hourglass: a phylogenomic analysis of Drosophila body segmentation genes.

Yassin A, Lienau EK, Narechania A, DeSalle R.

Evol Dev. 2010 May-Jun;12(3):288-95. doi: 10.1111/j.1525-142X.2010.00414.x.

PMID:
20565539
41.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

42.

A genome-wide characterization of microRNA genes in maize.

Zhang L, Chia JM, Kumari S, Stein JC, Liu Z, Narechania A, Maher CA, Guill K, McMullen MD, Ware D.

PLoS Genet. 2009 Nov;5(11):e1000716. doi: 10.1371/journal.pgen.1000716. Epub 2009 Nov 20.

43.

Detailed analysis of a contiguous 22-Mb region of the maize genome.

Wei F, Stein JC, Liang C, Zhang J, Fulton RS, Baucom RS, De Paoli E, Zhou S, Yang L, Han Y, Pasternak S, Narechania A, Zhang L, Yeh CT, Ying K, Nagel DH, Collura K, Kudrna D, Currie J, Lin J, Kim H, Angelova A, Scara G, Wissotski M, Golser W, Courtney L, Kruchowski S, Graves TA, Rock SM, Adams S, Fulton LA, Fronick C, Courtney W, Kramer M, Spiegel L, Nascimento L, Kalyanaraman A, Chaparro C, Deragon JM, Miguel PS, Jiang N, Wessler SR, Green PJ, Yu Y, Schwartz DC, Meyers BC, Bennetzen JL, Martienssen RA, McCombie WR, Aluru S, Clifton SW, Schnable PS, Ware D, Wilson RK, Wing RA.

PLoS Genet. 2009 Nov;5(11):e1000728. doi: 10.1371/journal.pgen.1000728. Epub 2009 Nov 20.

44.

The Sorghum bicolor genome and the diversification of grasses.

Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Mehboob-ur-Rahman, Ware D, Westhoff P, Mayer KF, Messing J, Rokhsar DS.

Nature. 2009 Jan 29;457(7229):551-6. doi: 10.1038/nature07723.

PMID:
19189423
45.

Low-pass shotgun sequencing of the barley genome facilitates rapid identification of genes, conserved non-coding sequences and novel repeats.

Wicker T, Narechania A, Sabot F, Stein J, Vu GT, Graner A, Ware D, Stein N.

BMC Genomics. 2008 Oct 31;9:518. doi: 10.1186/1471-2164-9-518.

46.

A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes.

Kurtz S, Narechania A, Stein JC, Ware D.

BMC Genomics. 2008 Oct 31;9:517. doi: 10.1186/1471-2164-9-517.

47.

Phylogenetic incongruence among oncogenic genital alpha human papillomaviruses.

Narechania A, Chen Z, DeSalle R, Burk RD.

J Virol. 2005 Dec;79(24):15503-10.

48.
49.

Lack of the canonical pRB-binding domain in the E7 ORF of artiodactyl papillomaviruses is associated with the development of fibropapillomas.

Narechania A, Terai M, Chen Z, DeSalle R, Burk RD.

J Gen Virol. 2004 May;85(Pt 5):1243-50.

PMID:
15105541
50.

PANTHER: a library of protein families and subfamilies indexed by function.

Thomas PD, Campbell MJ, Kejariwal A, Mi H, Karlak B, Daverman R, Diemer K, Muruganujan A, Narechania A.

Genome Res. 2003 Sep;13(9):2129-41.

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