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Items: 20


A novel sequencing-based vaginal health assay combining self-sampling, HPV detection and genotyping, STI detection, and vaginal microbiome analysis.

Bik EM, Bird SW, Bustamante JP, Leon LE, Nieto PA, Addae K, Alegría-Mera V, Bravo C, Bravo D, Cardenas JP, Carson GA, Caughey A, Covarrubias PC, Pérez-Donoso J, Gass G, Gupta SL, Harman K, Hongo DMB, Jiménez JC, Kraal L, Melis-Arcos F, Morales EH, Morton A, Navas CF, Nuñez H, Olivares E, Órdenes-Aenishanslins N, Ossandon FJ, Phan R, Pino R, Soto-Liebe K, Varas I, Vera-Wolf P, Walton NA, Almonacid DE, Goddard AD, Ugalde JA, Zneimer S, Richman J, Apte ZS.

PLoS One. 2019 May 1;14(5):e0215945. doi: 10.1371/journal.pone.0215945. eCollection 2019.


Correction: 16S rRNA gene sequencing and healthy reference ranges for 28 clinically relevant microbial taxa from the human gut microbiome.

Almonacid DE, Kraal L, Ossandon FJ, Budovskaya YV, Cardenas JP, Bik EM, Goddard AD, Richman J, Apte ZS.

PLoS One. 2019 Feb 12;14(2):e0212474. doi: 10.1371/journal.pone.0212474. eCollection 2019.


Self-Sampling for Human Papillomavirus Testing: Increased Cervical Cancer Screening Participation and Incorporation in International Screening Programs.

Gupta S, Palmer C, Bik EM, Cardenas JP, Nuñez H, Kraal L, Bird SW, Bowers J, Smith A, Walton NA, Goddard AD, Almonacid DE, Zneimer S, Richman J, Apte ZS.

Front Public Health. 2018 Apr 9;6:77. doi: 10.3389/fpubh.2018.00077. eCollection 2018. Review.


Draft genome sequence of Acidithiobacillus thiooxidans CLST isolated from the acidic hypersaline Gorbea salt flat in northern Chile.

Quatrini R, Escudero LV, Moya-Beltrán A, Galleguillos PA, Issotta F, Acosta M, Cárdenas JP, Nuñez H, Salinas K, Holmes DS, Demergasso C.

Stand Genomic Sci. 2017 Dec 19;12:84. doi: 10.1186/s40793-017-0305-8. eCollection 2017.


Draft genome sequence of the type strain of the sulfur-oxidizing acidophile, Acidithiobacillus albertensis (DSM 14366).

Castro M, Moya-Beltrán A, Covarrubias PC, Gonzalez M, Cardenas JP, Issotta F, Nuñez H, Acuña LG, Encina G, Holmes DS, Johnson DB, Quatrini R.

Stand Genomic Sci. 2017 Dec 15;12:77. doi: 10.1186/s40793-017-0282-y. eCollection 2017.


16S rRNA gene sequencing and healthy reference ranges for 28 clinically relevant microbial taxa from the human gut microbiome.

Almonacid DE, Kraal L, Ossandon FJ, Budovskaya YV, Cardenas JP, Bik EM, Goddard AD, Richman J, Apte ZS.

PLoS One. 2017 May 3;12(5):e0176555. doi: 10.1371/journal.pone.0176555. eCollection 2017. Erratum in: PLoS One. 2019 Feb 12;14(2):e0212474.


Molecular Systematics of the Genus Acidithiobacillus: Insights into the Phylogenetic Structure and Diversification of the Taxon.

Nuñez H, Moya-Beltrán A, Covarrubias PC, Issotta F, Cárdenas JP, González M, Atavales J, Acuña LG, Johnson DB, Quatrini R.

Front Microbiol. 2017 Jan 19;8:30. doi: 10.3389/fmicb.2017.00030. eCollection 2017.


Genomic and metagenomic challenges and opportunities for bioleaching: a mini-review.

Cárdenas JP, Quatrini R, Holmes DS.

Res Microbiol. 2016 Sep;167(7):529-38. doi: 10.1016/j.resmic.2016.06.007. Epub 2016 Jul 7. Review.


SinEx DB: a database for single exon coding sequences in mammalian genomes.

Jorquera R, Ortiz R, Ossandon F, Cárdenas JP, Sepúlveda R, González C, Holmes DS.

Database (Oxford). 2016 Jun 7;2016. pii: baw095. doi: 10.1093/database/baw095. Print 2016.


Draft Genome Sequence of the Iron-Oxidizing Acidophile Leptospirillum ferriphilum Type Strain DSM 14647.

Cárdenas JP, Lazcano M, Ossandon FJ, Corbett M, Holmes DS, Watkin E.

Genome Announc. 2014 Nov 6;2(6). pii: e01153-14. doi: 10.1128/genomeA.01153-14.


Draft Genome Sequence of the Iron-Oxidizing, Acidophilic, and Halotolerant "Thiobacillus prosperus" Type Strain DSM 5130.

Ossandon FJ, Cárdenas JP, Corbett M, Quatrini R, Holmes DS, Watkin E.

Genome Announc. 2014 Oct 23;2(5). pii: e01042-14. doi: 10.1128/genomeA.01042-14.


Multi Locus Sequence Typing scheme for Acidithiobacillus caldus strain evaluation and differentiation.

Nuñez H, Loyola D, Cárdenas JP, Holmes DS, Johnson DB, Quatrini R.

Res Microbiol. 2014 Nov;165(9):735-42. doi: 10.1016/j.resmic.2014.07.014. Epub 2014 Aug 29.


Genetic variability of psychrotolerant Acidithiobacillus ferrivorans revealed by (meta)genomic analysis.

González C, Yanquepe M, Cardenas JP, Valdes J, Quatrini R, Holmes DS, Dopson M.

Res Microbiol. 2014 Nov;165(9):726-34. doi: 10.1016/j.resmic.2014.08.005. Epub 2014 Aug 27.


Draft Genome Sequence of the Nominated Type Strain of "Ferrovum myxofaciens," an Acidophilic, Iron-Oxidizing Betaproteobacterium.

Moya-Beltrán A, Cárdenas JP, Covarrubias PC, Issotta F, Ossandon FJ, Grail BM, Holmes DS, Quatrini R, Johnson DB.

Genome Announc. 2014 Aug 21;2(4). pii: e00834-14. doi: 10.1128/genomeA.00834-14.


Architecture and gene repertoire of the flexible genome of the extreme acidophile Acidithiobacillus caldus.

Acuña LG, Cárdenas JP, Covarrubias PC, Haristoy JJ, Flores R, Nuñez H, Riadi G, Shmaryahu A, Valdés J, Dopson M, Rawlings DE, Banfield JF, Holmes DS, Quatrini R.

PLoS One. 2013 Nov 8;8(11):e78237. doi: 10.1371/journal.pone.0078237. eCollection 2013. Erratum in: PLoS One. 2015;10(3):e0122682.


Thiol/Disulfide system plays a crucial role in redox protection in the acidophilic iron-oxidizing bacterium Leptospirillum ferriphilum.

Norambuena J, Flores R, Cárdenas JP, Quatrini R, Chávez R, Levicán G.

PLoS One. 2012;7(9):e44576. doi: 10.1371/journal.pone.0044576. Epub 2012 Sep 6.


Information transfer dynamics in fixed-pathways networks.

Moyano LG, Cárdenas JP, Salcedo J, Mouronte ML, Benito RM.

Chaos. 2011 Mar;21(1):013126. doi: 10.1063/1.3567171.


Genes and pathways for CO2 fixation in the obligate, chemolithoautotrophic acidophile, Acidithiobacillus ferrooxidans, carbon fixation in A. ferrooxidans.

Esparza M, Cárdenas JP, Bowien B, Jedlicki E, Holmes DS.

BMC Microbiol. 2010 Aug 27;10:229. doi: 10.1186/1471-2180-10-229.


Lessons from the genomes of extremely acidophilic bacteria and archaea with special emphasis on bioleaching microorganisms.

Cárdenas JP, Valdés J, Quatrini R, Duarte F, Holmes DS.

Appl Microbiol Biotechnol. 2010 Oct;88(3):605-20. doi: 10.1007/s00253-010-2795-9. Epub 2010 Aug 10. Review.


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