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Items: 37

1.

Analysis of Vibrio cholerae genomes identifies new type VI secretion system gene clusters.

Crisan CV, Chande AT, Williams K, Raghuram V, Rishishwar L, Steinbach G, Watve SS, Yunker P, Jordan IK, Hammer BK.

Genome Biol. 2019 Aug 12;20(1):163. doi: 10.1186/s13059-019-1765-5.

2.

Assortative Mating on Ancestry-Variant Traits in Admixed Latin American Populations.

Norris ET, Rishishwar L, Wang L, Conley AB, Chande AT, Dabrowski AM, Valderrama-Aguirre A, Jordan IK.

Front Genet. 2019 Apr 24;10:359. doi: 10.3389/fgene.2019.00359. eCollection 2019.

3.

Correction for Gaby et al., "Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline".

Gaby JC, Rishishwar L, Valderrama-Aguirre LC, Green SJ, Valderrama-Aguirre A, Jordan IK, Kostka JE.

Appl Environ Microbiol. 2019 May 16;85(11). pii: e00713-19. doi: 10.1128/AEM.00713-19. Print 2019 Jun 1. No abstract available.

4.

Population Pharmacogenomics for Precision Public Health in Colombia.

Nagar SD, Moreno AM, Norris ET, Rishishwar L, Conley AB, O'Neal KL, Vélez-Gómez S, Montes-Rodríguez C, Jaraba-Álvarez WV, Torres I, Medina-Rivas MA, Valderrama-Aguirre A, Jordan IK, Gallo JE.

Front Genet. 2019 Mar 22;10:241. doi: 10.3389/fgene.2019.00241. eCollection 2019.

5.

A Nationwide Screen of Carbapenem-Resistant Klebsiella pneumoniae Reveals an Isolate with Enhanced Virulence and Clinically Undetected Colistin Heteroresistance.

Wozniak JE, Band VI, Conley AB, Rishishwar L, Burd EM, Satola SW, Hardy DJ, Tsay R, Farley MM, Jacob JT, Dumyati G, Jordan IK, Weiss DS.

Antimicrob Agents Chemother. 2019 Apr 25;63(5). pii: e00107-19. doi: 10.1128/AAC.00107-19. Print 2019 May.

PMID:
30803966
6.

Whole-Genome Sequences of Staphylococcus aureus Isolates from Cystic Fibrosis Lung Infections.

Bernardy EE, Petit RA 3rd, Moller AG, Blumenthal JA, McAdam AJ, Priebe GP, Chande AT, Rishishwar L, Jordan IK, Read TD, Goldberg JB.

Microbiol Resour Announc. 2019 Jan 17;8(3). pii: e01564-18. doi: 10.1128/MRA.01564-18. eCollection 2019 Jan.

7.

Genetic ancestry, admixture and health determinants in Latin America.

Norris ET, Wang L, Conley AB, Rishishwar L, Mariño-Ramírez L, Valderrama-Aguirre A, Jordan IK.

BMC Genomics. 2018 Dec 11;19(Suppl 8):861. doi: 10.1186/s12864-018-5195-7.

8.

Evidence for positive selection on recent human transposable element insertions.

Rishishwar L, Wang L, Wang J, Yi SV, Lachance J, Jordan IK.

Gene. 2018 Oct 30;675:69-79. doi: 10.1016/j.gene.2018.06.077. Epub 2018 Jun 25.

PMID:
29953920
9.

GlobAl Distribution of GEnetic Traits (GADGET) web server: polygenic trait scores worldwide.

Chande AT, Wang L, Rishishwar L, Conley AB, Norris ET, Valderrama-Aguirre A, Jordan IK.

Nucleic Acids Res. 2018 Jul 2;46(W1):W121-W126. doi: 10.1093/nar/gky415.

10.

Genome Sequences of 15 Klebsiella sp. Isolates from Sugarcane Fields in Colombia's Cauca Valley.

Medina-Cordoba LK, Chande AT, Rishishwar L, Mayer LW, Mariño-Ramírez L, Valderrama-Aguirre LC, Valderrama-Aguirre A, Kostka JE, Jordan IK.

Genome Announc. 2018 Mar 22;6(12). pii: e00104-18. doi: 10.1128/genomeA.00104-18.

11.

Influence of genetic ancestry and socioeconomic status on type 2 diabetes in the diverse Colombian populations of Chocó and Antioquia.

Chande AT, Rowell J, Rishishwar L, Conley AB, Norris ET, Valderrama-Aguirre A, Medina-Rivas MA, Jordan IK.

Sci Rep. 2017 Dec 7;7(1):17127. doi: 10.1038/s41598-017-17380-4.

12.

Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline.

Gaby JC, Rishishwar L, Valderrama-Aguirre LC, Green SJ, Valderrama-Aguirre A, Jordan IK, Kostka JE.

Appl Environ Microbiol. 2018 Jan 31;84(4). pii: e01512-17. doi: 10.1128/AEM.01512-17. Print 2018 Feb 15. Erratum in: Appl Environ Microbiol. 2019 May 16;85(11):.

13.

A Comparative Analysis of Genetic Ancestry and Admixture in the Colombian Populations of Chocó and Medellín.

Conley AB, Rishishwar L, Norris ET, Valderrama-Aguirre A, Mariño-Ramírez L, Medina-Rivas MA, Jordan IK.

G3 (Bethesda). 2017 Oct 5;7(10):3435-3447. doi: 10.1534/g3.117.1118.

14.

A decade of viral mutations and associated drug resistance in a population of HIV-1+ Puerto Ricans: 2002-2011.

Sepúlveda-Torres LDC, Rishishwar L, Rogers ML, Ríos-Olivares E, Boukli N, Jordan IK, Cubano LA.

PLoS One. 2017 May 11;12(5):e0177452. doi: 10.1371/journal.pone.0177452. eCollection 2017.

15.

Population and clinical genetics of human transposable elements in the (post) genomic era.

Rishishwar L, Wang L, Clayton EA, Mariño-Ramírez L, McDonald JF, Jordan IK.

Mob Genet Elements. 2017 Jan 11;7(1):1-20. doi: 10.1080/2159256X.2017.1280116. eCollection 2017. Review.

16.

Implications of human evolution and admixture for mitochondrial replacement therapy.

Rishishwar L, Jordan IK.

BMC Genomics. 2017 Feb 8;18(1):140. doi: 10.1186/s12864-017-3539-3.

17.

Whole-Genome Sequences of 26 Vibrio cholerae Isolates.

Watve SS, Chande AT, Rishishwar L, Mariño-Ramírez L, Jordan IK, Hammer BK.

Genome Announc. 2016 Dec 22;4(6). pii: e01396-16. doi: 10.1128/genomeA.01396-16.

18.

Human population-specific gene expression and transcriptional network modification with polymorphic transposable elements.

Wang L, Rishishwar L, Mariño-Ramírez L, Jordan IK.

Nucleic Acids Res. 2017 Mar 17;45(5):2318-2328. doi: 10.1093/nar/gkw1286.

19.

Patterns of Transposable Element Expression and Insertion in Cancer.

Clayton EA, Wang L, Rishishwar L, Wang J, McDonald JF, Jordan IK.

Front Mol Biosci. 2016 Nov 16;3:76. eCollection 2016.

20.

Comparative Genomic Analysis of Haemophilus haemolyticus and Nontypeable Haemophilus influenzae and a New Testing Scheme for Their Discrimination.

Hu F, Rishishwar L, Sivadas A, Mitchell GJ, Jordan IK, Murphy TF, Gilsdorf JR, Mayer LW, Wang X.

J Clin Microbiol. 2016 Dec;54(12):3010-3017. Epub 2016 Oct 5.

21.

Chocó, Colombia: a hotspot of human biodiversity.

Medina-Rivas MA, Norris ET, Rishishwar L, Conley AB, Medrano-Trochez C, Valderrama-Aguirre A, Vannberg FO, Mariño-Ramírez L, Jordan IK.

Rev Biodivers Neotrop. 2016 Jan-Jun;6(1):45-54.

22.

stringMLST: a fast k-mer based tool for multilocus sequence typing.

Gupta A, Jordan IK, Rishishwar L.

Bioinformatics. 2017 Jan 1;33(1):119-121. doi: 10.1093/bioinformatics/btw586. Epub 2016 Sep 7.

PMID:
27605103
23.

Benchmarking computational tools for polymorphic transposable element detection.

Rishishwar L, Mariño-Ramírez L, Jordan IK.

Brief Bioinform. 2017 Nov 1;18(6):908-918. doi: 10.1093/bib/bbw072.

24.

Characterization of clinical and environmental isolates of Vibrio cidicii sp. nov., a close relative of Vibrio navarrensis.

Orata FD, Xu Y, Gladney LM, Rishishwar L, Case RJ, Boucher Y, Jordan IK, Tarr CL.

Int J Syst Evol Microbiol. 2016 Oct;66(10):4148-4155. doi: 10.1099/ijsem.0.001327. Epub 2016 Jul 27.

PMID:
27468862
25.

Population Genomics of Reduced Vancomycin Susceptibility in Staphylococcus aureus.

Rishishwar L, Kraft CS, Jordan IK.

mSphere. 2016 Jul 20;1(4). pii: e00094-16. doi: 10.1128/mSphere.00094-16. eCollection 2016 Jul-Aug.

26.

Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community.

Hemme CL, Green SJ, Rishishwar L, Prakash O, Pettenato A, Chakraborty R, Deutschbauer AM, Van Nostrand JD, Wu L, He Z, Jordan IK, Hazen TC, Arkin AP, Kostka JE, Zhou J.

MBio. 2016 Apr 5;7(2):e02234-15. doi: 10.1128/mBio.02234-15.

27.

Transposable element polymorphisms recapitulate human evolution.

Rishishwar L, Tellez Villa CE, Jordan IK.

Mob DNA. 2015 Nov 16;6:21. doi: 10.1186/s13100-015-0052-6. eCollection 2015.

28.

A combined evidence Bayesian method for human ancestry inference applied to Afro-Colombians.

Rishishwar L, Conley AB, Vidakovic B, Jordan IK.

Gene. 2015 Dec 15;574(2):345-51. doi: 10.1016/j.gene.2015.08.015. Epub 2015 Aug 11.

PMID:
26275940
29.

Ancestry, admixture and fitness in Colombian genomes.

Rishishwar L, Conley AB, Wigington CH, Wang L, Valderrama-Aguirre A, Jordan IK.

Sci Rep. 2015 Jul 21;5:12376. doi: 10.1038/srep12376.

30.

Genome Sequences of Vibrio navarrensis, a Potential Human Pathogen.

Gladney LM, Katz LS, Knipe KM, Rowe LA, Conley AB, Rishishwar L, Mariño-Ramírez L, Jordan IK, Tarr CL.

Genome Announc. 2014 Nov 20;2(6). pii: e01188-14. doi: 10.1128/genomeA.01188-14.

31.

Genome sequence-based discriminator for vancomycin-intermediate Staphylococcus aureus.

Rishishwar L, Petit RA 3rd, Kraft CS, Jordan IK.

J Bacteriol. 2014 Mar;196(5):940-8. doi: 10.1128/JB.01410-13. Epub 2013 Dec 20.

32.

Origin and evolution of the cystic fibrosis transmembrane regulator protein R domain.

Sebastian A, Rishishwar L, Wang J, Bernard KF, Conley AB, McCarty NA, Jordan IK.

Gene. 2013 Jul 10;523(2):137-46. doi: 10.1016/j.gene.2013.02.050. Epub 2013 Apr 8.

33.

Genomic basis of a polyagglutinating isolate of Neisseria meningitidis.

Rishishwar L, Katz LS, Sharma NV, Rowe L, Frace M, Dolan Thomas J, Harcourt BH, Mayer LW, Jordan IK.

J Bacteriol. 2012 Oct;194(20):5649-56. Epub 2012 Aug 17.

34.

Relating the disease mutation spectrum to the evolution of the cystic fibrosis transmembrane conductance regulator (CFTR).

Rishishwar L, Varghese N, Tyagi E, Harvey SC, Jordan IK, McCarty NA.

PLoS One. 2012;7(8):e42336. doi: 10.1371/journal.pone.0042336. Epub 2012 Aug 7.

35.

Genome sequences for six Rhodanobacter strains, isolated from soils and the terrestrial subsurface, with variable denitrification capabilities.

Kostka JE, Green SJ, Rishishwar L, Prakash O, Katz LS, Mariño-Ramírez L, Jordan IK, Munk C, Ivanova N, Mikhailova N, Watson DB, Brown SD, Palumbo AV, Brooks SC.

J Bacteriol. 2012 Aug;194(16):4461-2. doi: 10.1128/JB.00871-12.

36.

Mining genomic patterns in Mycobacterium tuberculosis H37Rv using a web server Tuber-Gene.

Rishishwar L, Pant B, Pant K, Pardasani KR.

Genomics Proteomics Bioinformatics. 2011 Oct;9(4-5):171-8. doi: 10.1016/S1672-0229(11)60020-X.

37.

ProCoS: Protein composition server.

Rishishwar L, Mishra N, Pant B, Pant K, Pardasani KR.

Bioinformation. 2010 Nov 1;5(5):227.

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