Konstantinidis KT - Search Results

1

Microbial species and intraspecies units exist and are maintained by ecological cohesiveness coupled to high homologous recombination.

Conrad RE, Brink CE, Viver T, Rodriguez-R LM, Aldeguer-Riquelme B, Hatt JK, Venter SN, Rossello-Mora R, Amann R, Konstantinidis KT. Conrad RE, et al. Among authors: konstantinidis kt. Nat Commun. 2024 Nov 15;15(1):9906. doi: 10.1038/s41467-024-53787-0. Nat Commun. 2024. PMID: 39548060 Free PMC article.

2

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries.

Jain C, Rodriguez-R LM, Phillippy AM, Konstantinidis KT, Aluru S. Jain C, et al. Among authors: konstantinidis kt. Nat Commun. 2018 Nov 30;9(1):5114. doi: 10.1038/s41467-018-07641-9. Nat Commun. 2018. PMID: 30504855 Free PMC article.

3

Reply to: "Re-evaluating the evidence for a universal genetic boundary among microbial species".

Rodriguez-R LM, Jain C, Conrad RE, Aluru S, Konstantinidis KT. Rodriguez-R LM, et al. Among authors: konstantinidis kt. Nat Commun. 2021 Jul 7;12(1):4060. doi: 10.1038/s41467-021-24129-1. Nat Commun. 2021. PMID: 34234115 Free PMC article. No abstract available.

4

Toward quantifying the adaptive role of bacterial pangenomes during environmental perturbations.

Conrad RE, Viver T, Gago JF, Hatt JK, Venter SN, Rossello-Mora R, Konstantinidis KT. Conrad RE, et al. Among authors: konstantinidis kt. ISME J. 2022 May;16(5):1222-1234. doi: 10.1038/s41396-021-01149-9. Epub 2021 Dec 9. ISME J. 2022. PMID: 34887548 Free PMC article.

5

An ANI gap within bacterial species that advances the definitions of intra-species units.

Rodriguez-R LM, Conrad RE, Viver T, Feistel DJ, Lindner BG, Venter SN, Orellana LH, Amann R, Rossello-Mora R, Konstantinidis KT. Rodriguez-R LM, et al. Among authors: konstantinidis kt. mBio. 2024 Jan 16;15(1):e0269623. doi: 10.1128/mbio.02696-23. Epub 2023 Dec 12. mBio. 2024. PMID: 38085031 Free PMC article.

6

Towards estimating the number of strains that make up a natural bacterial population.

Viver T, Conrad RE, Rodriguez-R LM, Ramírez AS, Venter SN, Rocha-Cárdenas J, Llabrés M, Amann R, Konstantinidis KT, Rossello-Mora R. Viver T, et al. Among authors: konstantinidis kt. Nat Commun. 2024 Jan 16;15(1):544. doi: 10.1038/s41467-023-44622-z. Nat Commun. 2024. PMID: 38228587 Free PMC article.

7

A natural ANI gap that can define intra-species units of bacteriophages and other viruses.

Aldeguer-Riquelme B, Conrad RE, Antón J, Rossello-Mora R, Konstantinidis KT. Aldeguer-Riquelme B, et al. Among authors: konstantinidis kt. mBio. 2024 Aug 14;15(8):e0153624. doi: 10.1128/mbio.01536-24. Epub 2024 Jul 22. mBio. 2024. PMID: 39037288 Free PMC article.

8

A user's guide to quantitative and comparative analysis of metagenomic datasets.

Luo C, Rodriguez-R LM, Konstantinidis KT. Luo C, et al. Among authors: konstantinidis kt. Methods Enzymol. 2013;531:525-47. doi: 10.1016/B978-0-12-407863-5.00023-X. Methods Enzymol. 2013. PMID: 24060135

9

Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets.

Rodriguez-R LM, Konstantinidis KT. Rodriguez-R LM, et al. Among authors: konstantinidis kt. Bioinformatics. 2014 Mar 1;30(5):629-35. doi: 10.1093/bioinformatics/btt584. Epub 2013 Oct 11. Bioinformatics. 2014. PMID: 24123672

10

MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences.

Luo C, Rodriguez-R LM, Konstantinidis KT. Luo C, et al. Among authors: konstantinidis kt. Nucleic Acids Res. 2014 Apr;42(8):e73. doi: 10.1093/nar/gku169. Epub 2014 Mar 3. Nucleic Acids Res. 2014. PMID: 24589583 Free PMC article.

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